From 6a61201d7e8da66579bfdcfa1b39786c5a52f089 Mon Sep 17 00:00:00 2001 From: Thomas Lin Pedersen Date: Wed, 22 Jan 2025 08:35:26 +0100 Subject: [PATCH] update revdepcheck results --- revdep/README.md | 1201 +- revdep/cran.md | 1490 +-- revdep/failures.md | 7437 +++++++---- revdep/problems.md | 30797 +++++++++++++++---------------------------- 4 files changed, 16434 insertions(+), 24491 deletions(-) diff --git a/revdep/README.md b/revdep/README.md index 498c024ad2..3d55aec5af 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -1,646 +1,567 @@ # Revdeps -## Failed to check (165) +## Failed to check (193) -|package |version |error |warning |note | -|:-----------------------|:-------|:------|:-------|:----| -|abctools |1.1.7 |1 | | | -|adjclust |? | | | | -|animalEKF |1.2 |1 | | | -|ANOM |0.5 |1 | | | -|atRisk |0.1.0 |1 | | | -|AutoScore |? | | | | -|baRulho |? | | | | -|bayesDP |1.3.6 |1 | | | -|BayesianFactorZoo |0.0.0.2 |1 | | | -|BayesSurvive |0.0.2 |1 | | | -|BCClong |1.0.3 |1 | | | -|BGGM |2.1.3 |1 | | | -|binsreg |1.1 |1 | | | -|bspcov |1.0.0 |1 | | | -|bsub |1.1.0 |1 | | | -|BuyseTest |3.0.4 |1 | | | -|CARBayesST |4.0 |1 | | | -|CGPfunctions |0.6.3 |1 | | | -|chemodiv |? | | | | -|cinaR |? | | | | -|cmprskcoxmsm |0.2.1 |1 | | | -|CNVScope |? | | | | -|COMMA |1.0.0 |1 | | | -|conos |? | | | | -|counterfactuals |? | | | | -|CRMetrics |? | | | | -|crosstalkr |? | | | | -|ctsem |3.10.1 |1 | | | -|DepthProc |2.1.5 |1 | | | -|DR.SC |3.4 |1 | | | -|easybgm |0.1.2 |1 | | | -|EcoEnsemble |1.1.0 |1 | | | -|ecolottery |1.0.0 |1 | | | -|EMAS |? | | | | -|EpiEstim |2.2-4 |1 | | | -|evolqg |0.3-4 |1 | | | -|EWSmethods |? | | | | -|fmx |? | | | | -|ForecastComb |1.3.1 |1 | | | -|GALLO |? | | | | -|gap |? | | | | -|gapfill |0.9.6-1 |1 | |1 | -|geneHapR |? | | | | -|GeneSelectR |? | | | | -|GeomComb |1.0 |1 | | | -|geomorph |? | | | | -|gJLS2 |0.2.0 |1 | | | -|hettx |0.1.3 |1 | | | -|Hmisc |? | | | | -|Hmsc |3.0-13 |1 | | | -|iClusterVB |0.1.2 |1 | | | -|[inventorize](failures.md#inventorize)|1.1.1 |__+1__ | | | -|iNZightPlots |2.15.3 |1 | | | -|iNZightRegression |1.3.4 |1 | | | -|IRexamples |0.0.4 |1 | | | -|jmBIG |0.1.2 |1 | | | -|joineRML |0.4.6 |1 | | | -|kibior |? | | | | -|kmc |0.4-2 |1 | | | -|L2E |2.0 |1 | | | -|llbayesireg |1.0.0 |1 | | | -|locuszoomr |? | | | | -|LorenzRegression |2.0.0 |1 | | | -|lsirm12pl |1.3.3 |1 | | | -|MantaID |? | | | | -|MARVEL |? | | | | -|mbsts |3.0 |1 | | | -|MitoHEAR |? | | | | -|miWQS |0.4.4 |1 | | | -|mlmts |1.1.2 |1 | | | -|mlr |? | | | | -|MOCHA |? | | | | -|MRZero |0.2.0 |1 | | | -|multilevelTools |0.1.1 |1 | | | -|multinma |0.7.1 |1 | | | -|NCA |4.0.1 |1 | | | -|netcmc |1.0.2 |1 | | | -|NetworkChange |0.8 |1 | | | -|nlmeVPC |2.6 |1 | | | -|NMADiagT |0.1.2 |1 | | | -|ohun |? | | | | -|optweight |0.2.5 |1 | | | -|OVtool |1.0.3 |1 | | | -|pagoda2 |? | | | | -|PAMpal |1.2.1 |1 | | | -|PAMscapes |0.6.0 |1 | | | -|paths |0.1.1 |1 | | | -|PathwaySpace |? | | | | -|pcvr |1.0.0 |1 | | | -|PlasmaMutationDetector |? | | | | -|PlasmaMutationDetector2 |? | | | | -|PLMIX |2.1.1 |1 | | | -|polyRAD |? | | | | -|popstudy |1.0.1 |1 | | | -|pould |1.0.1 |1 | | | -|PoweREST |0.1.0 |1 | | | -|powerly |1.8.6 |1 | | | -|pre |1.0.7 |1 | | | -|ProFAST |? | | | | -|psbcSpeedUp |2.0.7 |1 | | | -|pscore |0.4.0 |1 | | | -|qPCRtools |1.0.1 |1 | | | -|qris |1.1.1 |1 | | | -|qte |1.3.1 |1 | | | -|quantilogram |3.1.1 |1 | | | -|quid |0.0.1 |1 | | | -|RcmdrPlugin.RiskDemo |3.2 |1 | | | -|rddtools |1.6.0 |1 | | | -|RGraphSpace |? | | | | -|rms |? | | | | -|RNAseqQC |? | | | | -|robmed |1.0.2 |1 | | | -|robmedExtra |0.1.0 |1 | | | -|RPPanalyzer |1.4.9 |1 | | | -|RQdeltaCT |1.3.0 |1 | | | -|RRPP |? | | | | -|rstanarm |2.32.1 |1 | | | -|RTIGER |? | | | | -|rTwig |1.1.0 |1 | | | -|RVA |? | | | | -|scCustomize |? | | | | -|SCdeconR |1.0.0 |1 | | | -|scGate |1.6.2 |1 | | | -|SCIntRuler |0.99.6 |1 | | | -|scITD |? | | | | -|scMappR |1.0.11 |1 | | | -|scpi |2.2.5 |1 | | | -|scRNAstat |0.1.1 |1 | | | -|sectorgap |0.1.0 |1 | | | -|SeedMatchR |? | | | | -|SEERaBomb |2019.2 |1 | | | -|semicmprskcoxmsm |0.2.0 |1 | | | -|SensMap |0.7 |1 | | | -|sephora |? | | | | -|Seurat |? | | | | -|shinyTempSignal |0.0.8 |1 | | | -|sievePH |1.1 |1 | | | -|sigminer |? | | | | -|Signac |? | | | | -|SimplyAgree |0.2.0 |1 | | | -|SNPassoc |? | | | | -|snplinkage |? | | | | -|SoupX |1.6.2 |1 | | | -|sparsereg |1.2 |1 | | | -|SpatialDDLS |? | | | | -|spikeSlabGAM |1.1-19 |1 | | | -|statsr |0.3.0 |1 | | | -|streamDAG |? | | | | -|survidm |1.3.2 |1 | | | -|tempted |0.1.1 |1 | | | -|TestAnaAPP |1.1.1 |1 | | | -|[tidydr](failures.md#tidydr)|0.0.5 |__+1__ | | | -|tidyEdSurvey |0.1.3 |1 | | | -|tidyseurat |0.8.0 |1 | | | -|tidyvpc |1.5.1 |1 | | | -|TriDimRegression |1.0.2 |1 | | | -|TSrepr |1.1.0 |1 | | | -|twang |2.6.1 |1 | | | -|updog |? | | | | -|valr |? | | | | -|vdg |1.2.3 |1 | | | -|visa |0.1.0 |1 | | | -|VisualizeSimon2Stage |? | | | | -|WRTDStidal |1.1.4 |1 | | | -|xxdi |? | | | | +|package |version |error |warning |note | +|:----------------------|:-------|:---------|:-------|:----| +|abctools |1.1.7 |1 | | | +|adjustedCurves |? | | | | +|animalEKF |1.2 |1 | | | +|ANOM |0.5 |1 | | | +|atRisk |0.2.0 |1 | | | +|autoReg |? | | | | +|AutoScore |? | | | | +|[bartMan](failures.md#bartman)|0.1.1 |__+1__ | | | +|bayesDP |1.3.7 |1 | | | +|BayesianFactorZoo |0.0.0.3 |1 | | | +|BayesSurvive |? | | | | +|BCClong |1.0.3 |1 | | | +|BGGM |2.1.5 |1 | | | +|binsreg |1.1 |1 | | | +|bspcov |1.0.1 |1 | | | +|BSTZINB |1.0.1 |1 | | | +|BuyseTest |? | | | | +|CAESAR.Suite |? | | | | +|CARBayesST |4.0 |1 | | | +|Certara.VPCResults |3.0.2 |1 | | | +|CGPfunctions |0.6.3 |1 | | | +|cia |? | | | | +|cinaR |? | | | | +|cmprskcoxmsm |0.2.1 |1 | | | +|COMMA |1.1.1 |1 | | | +|contsurvplot |? | | | | +|counterfactuals |? | | | | +|CRMetrics |0.3.2 |1 | | | +|ctsem |3.10.2 |1 | | | +|dartR.base |? | | | | +|dartR.captive |? | | | | +|dartR.popgen |? | | | | +|dartR.sexlinked |? | | | | +|dartR.sim |? | | | | +|dartR.spatial |? | | | | +|DepthProc |2.1.5 |1 | | | +|DFD |? | | | | +|DR.SC |3.4 |1 | | | +|dscoreMSM |? | | | | +|DynForest |? | | | | +|easybgm |0.2.1 |1 | | | +|EcoEnsemble |1.1.0 |1 | | | +|ecolottery |1.0.0 |1 | | | +|EpiEstim |2.2-4 |1 | | | +|EpiNow2 |1.6.1 |1 | | | +|evolqg |0.3-4 |1 | | | +|EWSmethods |? | | | | +|flexrsurv |? | | | | +|fmx |? | | | | +|ForecastComb |1.3.1 |1 | | | +|gap |? | | | | +|gapfill |0.9.6-1 |1 | |1 | +|genekitr |? | | | | +|GeneSelectR |? | | | | +|GeomComb |1.0 |1 | | | +|geomorph |? | | | | +|GeoTox |? | | | | +|[ggmosaic](failures.md#ggmosaic)|0.3.3 |__+1__ | |-1 | +|[ggtern](failures.md#ggtern)|3.5.0 |__+1__ | |1 -1 | +|gJLS2 |0.2.0 |1 | | | +|grandR |? | | | | +|GseaVis |? | | | | +|hettx |0.1.3 |1 | | | +|Hmisc |? | | | | +|Hmsc |3.0-13 |1 | | | +|iClusterVB |0.1.4 |1 | | | +|immcp |? | | | | +|[inventorize](failures.md#inventorize)|1.1.1 |__+1__ | | | +|invivoPKfit |2.0.0 |1 | | | +|iNZightPlots |2.15.3 |1 | | | +|iNZightRegression |1.3.4 |1 | | | +|IRexamples |0.0.4 |1 | | | +|jmBIG |? | | | | +|joineRML |0.4.6 |1 | | | +|jsmodule |? | | | | +|kmc |0.4-2 |1 | | | +|KMunicate |? | | | | +|L2E |2.0 |1 | | | +|Landmarking |? | | | | +|lavaSearch2 |? | | | | +|llbayesireg |1.0.0 |1 | | | +|lnmixsurv |? | | | | +|LorenzRegression |2.1.0 |1 | | | +|lsirm12pl |1.3.3 |1 | | | +|MantaID |? | | | | +|MARVEL |? | | | | +|MaxWiK |1.0.5 |1 | | | +|mbsts |3.0 |1 | | | +|MendelianRandomization |0.10.0 |1 | | | +|miWQS |0.4.4 |1 | | | +|mlmts |1.1.2 |1 | | | +|mlr |? | | | | +|MRZero |0.2.0 |1 | | | +|mstate |? | | | | +|multilevelTools |0.1.1 |1 | | | +|multinma |0.7.2 |1 | | | +|multipleOutcomes |? | | | | +|MuPETFlow |? | | | | +|NCA |4.0.2 |1 | | | +|netcmc |1.0.2 |1 | | | +|NetworkChange |0.8 |1 | | | +|nlmeVPC |2.6 |1 | | | +|NMADiagT |0.1.2 |1 | | | +|obliqueRSF |? | | | | +|OlinkAnalyze |? | | | | +|optweight |0.2.5 |1 | | | +|OVtool |1.0.3 |1 | | | +|pammtools |? | | | | +|paths |0.1.1 |1 | | | +|PathwaySpace |? | | | | +|pcvr |1.1.1.0 |1 | | | +|[PieGlyph](failures.md#pieglyph)|1.0.0 |-1 __+1__ | | | +|PLMIX |2.1.1 |1 | | | +|popstudy |1.0.1 |1 | | | +|pould |? | | | | +|PoweREST |0.1.0 |1 | | | +|powerly |1.8.6 |1 | | | +|pre |1.0.7 |1 | | | +|ProFAST |? | | | | +|psbcSpeedUp |? | | | | +|pscore |0.4.0 |1 | | | +|pubh |? | | | | +|qPCRtools |1.0.1 |1 | | | +|qris |1.1.1 |1 | | | +|qte |1.3.1 |1 | | | +|quantilogram |3.1.1 |1 | | | +|quid |0.0.1 |1 | | | +|RcmdrPlugin.RiskDemo |3.2 |1 | | | +|rddtools |1.6.0 |1 | | | +|relsurv |? | | | | +|ReporterScore |? | | | | +|RGraphSpace |? | | | | +|riskRegression |? | | | | +|rmlnomogram |? | | | | +|rms |? | | | | +|robber |? | | | | +|robmed |1.2.0 |1 | | | +|robmedExtra |0.1.1 |1 | | | +|RPPanalyzer |1.4.9 |1 | | | +|RQdeltaCT |1.3.0 |1 | | | +|RRPP |? | | | | +|rstanarm |2.32.1 |1 | | | +|rTwig |1.3.0 |1 | | | +|RVA |? | | | | +|S4DM |0.0.1 |1 | | | +|scCustomize |3.0.1 |1 | |1 | +|SCdeconR |1.0.0 |1 | | | +|scGate |1.6.2 |1 | | | +|SCIntRuler |0.99.6 |1 | | | +|scMappR |1.0.11 |1 | | | +|scpi |2.2.6 |1 | | | +|SCpubr |? | | | | +|scRNAstat |0.1.1 |1 | | | +|sectorgap |0.1.0 |1 | | | +|SEERaBomb |2019.2 |1 | | | +|semicmprskcoxmsm |0.2.0 |1 | | | +|SensMap |0.7 |1 | | | +|Seurat |5.2.0 |1 | | | +|shinyTempSignal |0.0.8 |1 | | | +|sievePH |1.1 |1 | | | +|SiFINeT |1.13 |1 | | | +|Signac |1.14.0 |1 | | | +|SimplyAgree |0.2.0 |1 | | | +|smer |? | | | | +|SNPassoc |? | | | | +|snplinkage |? | | | | +|SoupX |1.6.2 |1 | | | +|SpaCCI |1.0.3 |1 | | | +|sparsereg |1.2 |1 | | | +|spikeSlabGAM |1.1-20 |1 | | | +|stabiliser |1.0.6 |1 | | | +|statsr |0.3.0 |1 | | | +|streamDAG |? | | | | +|survex |? | | | | +|survHE |? | | | | +|survidm |1.3.2 |1 | | | +|tempted |0.1.1 |1 | | | +|TestAnaAPP |? | | | | +|[tidydr](failures.md#tidydr)|0.0.5 |__+1__ | | | +|tidyEdSurvey |0.1.3 |1 | | | +|tidyseurat |0.8.0 |1 | | | +|tidyvpc |1.5.2 |1 | | | +|tinyarray |? | | | | +|treeclim |2.0.7.1 |1 | | | +|TriDimRegression |1.0.2 |1 | | | +|TSrepr |1.1.0 |1 | | | +|twang |2.6.1 |1 | | | +|vdg |1.2.3 |1 | | | +|VecDep |? | | | | +|visa |0.1.0 |1 | | | +|VisualizeSimon2Stage |? | | | | +|WRTDStidal |1.1.4 |1 | | | +|xxdi |? | | | | -## New problems (469) +## New problems (362) -|package |version |error |warning |note | -|:---------------------|:---------|:--------|:-------|:--------| -|[activAnalyzer](problems.md#activanalyzer)|2.1.1 |__+1__ | |1 __+1__ | -|[actxps](problems.md#actxps)|1.5.0 |__+1__ | |__+1__ | -|[adaptr](problems.md#adaptr)|1.4.0 |__+3__ | |__+1__ | -|[AeRobiology](problems.md#aerobiology)|2.0.1 |1 | |__+1__ | -|[agricolaeplotr](problems.md#agricolaeplotr)|0.5.0 |__+1__ | | | -|[alien](problems.md#alien)|1.0.2 |__+1__ | |__+1__ | -|[AlphaPart](problems.md#alphapart)|0.9.8 |1 __+1__ | | | -|[AnalysisLin](problems.md#analysislin)|0.1.2 |__+1__ | | | -|[animbook](problems.md#animbook)|1.0.0 |__+1__ | | | -|[ANN2](problems.md#ann2)|2.3.4 |__+1__ | |3 | -|[AnnoProbe](problems.md#annoprobe)|0.1.7 |__+1__ | | | -|[ANOFA](problems.md#anofa)|0.1.3 |__+3__ | |__+1__ | -|[ANOPA](problems.md#anopa)|0.1.3 |__+3__ | |__+1__ | -|[AntMAN](problems.md#antman)|1.1.0 |__+2__ | |3 | -|[APCI](problems.md#apci)|1.0.8 |__+1__ | | | -|[aplot](problems.md#aplot)|0.2.3 |__+1__ | | | -|[applicable](problems.md#applicable)|0.1.1 |__+1__ | | | -|[ASRgenomics](problems.md#asrgenomics)|1.1.4 |__+2__ | |1 | -|[autocogs](problems.md#autocogs)|0.1.4 |__+1__ | |1 | -|[autoplotly](problems.md#autoplotly)|0.1.4 |__+2__ | | | -|[autoReg](problems.md#autoreg)|0.3.3 |__+2__ | |__+1__ | -|[baggr](problems.md#baggr)|0.7.8 |__+3__ | |2 __+1__ | -|[banter](problems.md#banter)|0.9.6 |__+1__ | | | -|[bartMan](problems.md#bartman)|0.1.1 |__+1__ | | | -|[BasketballAnalyzeR](problems.md#basketballanalyzer)|0.5.0 |__+1__ | |2 | -|[bayefdr](problems.md#bayefdr)|0.2.1 |__+2__ | | | -|[bayesAB](problems.md#bayesab)|1.1.3 |__+1__ | | | -|[BayesGrowth](problems.md#bayesgrowth)|1.0.0 |__+1__ | |2 __+1__ | -|[BayesianReasoning](problems.md#bayesianreasoning)|0.4.2 |__+2__ | |__+1__ | -|[BayesMallows](problems.md#bayesmallows)|2.2.2 |__+1__ | |1 | -|[bayesplay](problems.md#bayesplay)|0.9.3 |__+2__ | |__+1__ | -|[bayesplot](problems.md#bayesplot)|1.11.1 |1 __+2__ | |1 | -|[bayestestR](problems.md#bayestestr)|0.14.0 |1 __+1__ | | | -|[BCEA](problems.md#bcea)|2.4.6 |__+3__ | |__+1__ | -|[BDgraph](problems.md#bdgraph)|2.73 |__+1__ | |1 __+1__ | -|[BEAMR](problems.md#beamr)|1.1.0 |__+1__ | | | -|[beastt](problems.md#beastt)|0.0.1 |__+2__ | |__+1__ | -|[BeeGUTS](problems.md#beeguts)|1.1.3 |__+2__ | |2 __+1__ | -|[besthr](problems.md#besthr)|0.3.2 |__+2__ | |__+1__ | -|[betaclust](problems.md#betaclust)|1.0.3 |__+1__ | |__+1__ | -|[biclustermd](problems.md#biclustermd)|0.2.3 |__+1__ | |1 | -|[biodosetools](problems.md#biodosetools)|3.6.1 |__+1__ | | | -|[BioPred](problems.md#biopred)|1.0.1 |__+1__ | |__+1__ | -|[BlandAltmanLeh](problems.md#blandaltmanleh)|0.3.1 |__+1__ | | | -|[bmggum](problems.md#bmggum)|0.1.0 |__+1__ | |3 | -|[boxly](problems.md#boxly)|0.1.1 |__+1__ | | | -|[braidReports](problems.md#braidreports)|0.5.4 |__+1__ | | | -|[BRcal](problems.md#brcal)|0.0.4 |__+2__ | |__+1__ | -|[breathtestcore](problems.md#breathtestcore)|0.8.7 |__+1__ | | | -|[brolgar](problems.md#brolgar)|1.0.1 |1 __+1__ | |1 | -|[calibrationband](problems.md#calibrationband)|0.2.1 |__+1__ | | | -|[cartograflow](problems.md#cartograflow)|1.0.5 |__+1__ | | | -|[cases](problems.md#cases)|0.1.1 |__+1__ | |__+1__ | -|[cats](problems.md#cats)|1.0.2 |__+1__ | |1 | -|[ceterisParibus](problems.md#ceterisparibus)|0.4.2 |__+1__ | |2 | -|[cfda](problems.md#cfda)|0.11.0 |__+3__ | |__+1__ | -|[cheem](problems.md#cheem)|0.4.0.0 |1 __+1__ | | | -|[chillR](problems.md#chillr)|0.75 |__+1__ | | | -|[chronicle](problems.md#chronicle)|0.3 |__+2__ | |1 __+1__ | -|[CINNA](problems.md#cinna)|1.2.2 |__+2__ | |1 __+1__ | -|[circhelp](problems.md#circhelp)|1.1 |__+2__ | |__+1__ | -|[clifro](problems.md#clifro)|3.2-5 |__+1__ | | | -|[clinDataReview](problems.md#clindatareview)|1.6.1 |__+2__ | |1 __+1__ | -|[clinUtils](problems.md#clinutils)|0.2.0 |__+1__ |-1 |1 __+1__ | -|[cloneRate](problems.md#clonerate)|0.2.3 |__+1__ | |2 __+1__ | -|[clustEff](problems.md#clusteff)|0.3.1 |__+1__ | | | -|[ClustImpute](problems.md#clustimpute)|0.2.4 |__+1__ | |1 | -|[cmstatr](problems.md#cmstatr)|0.9.3 |__+3__ | |__+1__ | -|[codaredistlm](problems.md#codaredistlm)|0.1.0 |__+1__ | | | -|[coefplot](problems.md#coefplot)|1.2.8 |__+1__ | | | -|[CohortPlat](problems.md#cohortplat)|1.0.5 |__+2__ | |__+1__ | -|[complmrob](problems.md#complmrob)|0.7.0 |__+1__ | | | -|[conjoint](problems.md#conjoint)|1.41 |__+1__ | | | -|[conquestr](problems.md#conquestr)|1.3.4 |__+1__ | |__+1__ | -|[CoreMicrobiomeR](problems.md#coremicrobiomer)|0.1.0 |__+1__ | | | -|[correlationfunnel](problems.md#correlationfunnel)|0.2.0 |__+1__ | |1 | -|[corrViz](problems.md#corrviz)|0.1.0 |__+2__ | |1 __+1__ | 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| -|[MBNMAtime](problems.md#mbnmatime)|0.2.4 |1 | |__+1__ | -|[mecoturn](problems.md#mecoturn)|0.3.0 |__+1__ | | | -|[MetaNet](problems.md#metanet)|0.1.2 |__+1__ | | | -|[metR](problems.md#metr)|0.15.0 |__+3__ | |1 __+1__ | -|[metrica](problems.md#metrica)|2.1.0 |__+1__ | |__+1__ | -|[miceRanger](problems.md#miceranger)|1.5.0 |__+1__ | | | -|[microbial](problems.md#microbial)|0.0.21 |__+2__ | |__+1__ | -|[MicrobiomeSurv](problems.md#microbiomesurv)|0.1.0 |__+1__ | | | -|[migraph](problems.md#migraph)|1.4.2 |__+1__ | | | -|[mikropml](problems.md#mikropml)|1.6.1 |__+1__ | | | -|[MiMIR](problems.md#mimir)|1.5 |__+1__ | | | -|[miRetrieve](problems.md#miretrieve)|1.3.4 |__+1__ | | | -|[MiscMetabar](problems.md#miscmetabar)|0.9.3 |__+2__ | | | -|[misspi](problems.md#misspi)|0.1.0 |__+1__ | | | -|[mixpoissonreg](problems.md#mixpoissonreg)|1.0.0 |__+3__ | |__+1__ | -|[mizer](problems.md#mizer)|2.5.1 |__+1__ | |1 | -|[mlr3spatiotempcv](problems.md#mlr3spatiotempcv)|2.3.1 |1 __+1__ | |1 | -|[mlr3viz](problems.md#mlr3viz)|0.9.0 |__+2__ | | | -|[modeltime.resample](problems.md#modeltimeresample)|0.2.3 |__+1__ | |1 | -|[moreparty](problems.md#moreparty)|0.4 |__+1__ | |__+1__ | -|[mosaicCalc](problems.md#mosaiccalc)|0.6.4 |__+2__ | |1 __+1__ | -|[mosaicData](problems.md#mosaicdata)|0.20.4 |__+1__ | |1 | -|[mosaicModel](problems.md#mosaicmodel)|0.3.0 |__+1__ | |1 __+1__ | -|[mppR](problems.md#mppr)|1.5.0 |__+1__ | |__+1__ | -|[MSCMT](problems.md#mscmt)|1.4.0 |__+1__ | |__+1__ | -|[mstate](problems.md#mstate)|0.3.3 |__+2__ | |1 | -|[mtb](problems.md#mtb)|0.1.8 |__+1__ | | | -|[mulgar](problems.md#mulgar)|1.0.2 |__+1__ | |1 | -|[MultivariateAnalysis](problems.md#multivariateanalysis)|0.5.0 |__+1__ | | | -|[mxfda](problems.md#mxfda)|0.2.1 | | |__+1__ | -|[neatmaps](problems.md#neatmaps)|2.1.0 |__+1__ | |1 | -|[neatStats](problems.md#neatstats)|1.13.3 |__+1__ | | | -|[netcom](problems.md#netcom)|2.1.7 |__+1__ | |1 __+1__ | -|[NetFACS](problems.md#netfacs)|0.5.0 |__+2__ | | | 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|__+1__ | | | -|[PLNmodels](problems.md#plnmodels)|1.2.0 |__+1__ | |1 __+1__ | -|[plotBart](problems.md#plotbart)|0.1.7 |__+1__ | | | -|[plotDK](problems.md#plotdk)|0.1.0 |__+1__ | |2 | -|[plotly](problems.md#plotly)|4.10.4 |__+2__ | |1 | -|[pmartR](problems.md#pmartr)|2.4.5 |__+1__ | |1 | -|[pmxTools](problems.md#pmxtools)|1.3 |__+1__ | |1 | -|[posterior](problems.md#posterior)|1.6.0 |1 | |__+1__ | -|[PPQplan](problems.md#ppqplan)|1.1.0 |1 | |2 __+1__ | -|[ppseq](problems.md#ppseq)|0.2.5 |__+1__ | |1 __+1__ | -|[PPtreeregViz](problems.md#pptreeregviz)|2.0.5 |__+2__ | |1 __+1__ | -|[precintcon](problems.md#precintcon)|2.3.0 |__+1__ | | | -|[precrec](problems.md#precrec)|0.14.4 |__+1__ | |1 __+1__ | -|[priorsense](problems.md#priorsense)|1.0.2 |__+2__ | |__+1__ | -|[probably](problems.md#probably)|1.0.3 |__+1__ | | | -|[processmapR](problems.md#processmapr)|0.5.5 |__+1__ | | | -|[projpred](problems.md#projpred)|2.8.0 |1 __+2__ | |1 | -|[psborrow](problems.md#psborrow)|0.2.1 |__+1__ | | | -|[pubh](problems.md#pubh)|1.3.7 |1 __+1__ | |__+1__ | -|[PUPMSI](problems.md#pupmsi)|0.1.0 |__+1__ | | | -|[qacBase](problems.md#qacbase)|1.0.3 |__+1__ | | | -|[qPCRhelper](problems.md#qpcrhelper)|0.1.0 |__+2__ | |__+1__ | -|[r2dii.plot](problems.md#r2diiplot)|0.4.0 |__+1__ | | | -|[r2spss](problems.md#r2spss)|0.3.2 |__+2__ | |1 | -|[radiant.basics](problems.md#radiantbasics)|1.6.6 |__+1__ | | | -|[radiant.data](problems.md#radiantdata)|1.6.6 |__+1__ | | | -|[radiant.model](problems.md#radiantmodel)|1.6.6 |__+1__ | | | -|[Radviz](problems.md#radviz)|0.9.3 |__+2__ | |__+1__ | -|[randomForestExplainer](problems.md#randomforestexplainer)|0.10.1 |__+3__ | |1 __+1__ | -|[rassta](problems.md#rassta)|1.0.6 |__+3__ | | | -|[rater](problems.md#rater)|1.3.1 |__+1__ | |2 | -|[RBesT](problems.md#rbest)|1.7-3 |__+2__ | |2 __+1__ | -|[rddensity](problems.md#rddensity)|2.5 |__+1__ | | | -|[RecordTest](problems.md#recordtest)|2.2.0 |__+2__ | |__+1__ | -|[reda](problems.md#reda)|0.5.4 |__+2__ | |2 __+1__ | -|[redist](problems.md#redist)|4.2.0 |__+1__ | |1 __+1__ | -|[registr](problems.md#registr)|2.1.0 |2 __+1__ | |2 __+1__ | -|[reliabilitydiag](problems.md#reliabilitydiag)|0.2.1 |__+1__ | | | -|[relliptical](problems.md#relliptical)|1.3.0 |__+1__ | |1 | -|[reportRmd](problems.md#reportrmd)|0.1.0 |__+2__ | |__+1__ | -|[reservr](problems.md#reservr)|0.0.3 |1 __+1__ | |2 __+1__ | -|[RestoreNet](problems.md#restorenet)|1.0.1 |__+1__ |1 | | -|[rfPermute](problems.md#rfpermute)|2.5.2 |__+1__ | | | -|[RKorAPClient](problems.md#rkorapclient)|0.8.1 |__+1__ | | | -|[roahd](problems.md#roahd)|1.4.3 |__+1__ | |1 | -|[robCompositions](problems.md#robcompositions)|2.4.1 |__+1__ | |3 | -|[romic](problems.md#romic)|1.1.3 |__+2__ | | | -|[roptions](problems.md#roptions)|1.0.3 |__+1__ | |1 | -|[rSAFE](problems.md#rsafe)|0.1.4 |__+2__ | |__+1__ | -|[santaR](problems.md#santar)|1.2.4 |1 __+1__ | | | -|[saros](problems.md#saros)|1.2.0 |__+2__ | | | -|[scatterpie](problems.md#scatterpie)|0.2.4 |__+2__ | |__+1__ | -|[scdtb](problems.md#scdtb)|0.1.0 |__+1__ | | | -|[scoringutils](problems.md#scoringutils)|1.2.2 |1 __+1__ | |__+1__ | -|[scUtils](problems.md#scutils)|0.1.0 |__+1__ | |1 | -|[SCVA](problems.md#scva)|1.3.1 |__+1__ | | | -|[sdmTMB](problems.md#sdmtmb)|0.6.0 |__+1__ | |1 | -|[SDMtune](problems.md#sdmtune)|1.3.1 |1 __+1__ | | | -|[sedproxy](problems.md#sedproxy)|0.7.5 |__+2__ | |__+1__ | -|[see](problems.md#see)|0.9.0 |__+1__ | | | -|[seedreg](problems.md#seedreg)|1.0.3 |__+1__ | | | -|[semfindr](problems.md#semfindr)|0.1.8 |__+3__ | |__+1__ | -|[sensiPhy](problems.md#sensiphy)|0.8.5 |1 __+1__ | | | -|[sglg](problems.md#sglg)|0.2.2 |__+1__ | | | -|[sgsR](problems.md#sgsr)|1.4.5 |__+1__ | | | -|[SHAPforxgboost](problems.md#shapforxgboost)|0.1.3 |__+1__ | | | -|[ShapleyOutlier](problems.md#shapleyoutlier)|0.1.1 |__+2__ | |__+1__ | -|[shinipsum](problems.md#shinipsum)|0.1.1 |__+1__ | | | -|[signatureSurvival](problems.md#signaturesurvival)|1.0.0 |__+1__ | |1 | 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|__+1__ | |1 | -|[vvshiny](problems.md#vvshiny)|0.1.1 |__+1__ | | | -|[walker](problems.md#walker)|1.0.10 |__+1__ | |2 __+1__ | -|[WVPlots](problems.md#wvplots)|1.3.8 |__+3__ | |__+1__ | -|[xaringanthemer](problems.md#xaringanthemer)|0.4.2 |1 __+1__ | | | -|[yamlet](problems.md#yamlet)|1.0.3 |__+2__ | |1 | +|package |version |error |warning |note | +|:--------------------|:----------|:--------|:--------|:--------| +|[actxps](problems.md#actxps)|1.6.0 |__+1__ | |__+1__ | +|[adklakedata](problems.md#adklakedata)|0.6.1 |__+1__ | |1 | +|[AdverseEvents](problems.md#adverseevents)|0.0.4 | |__+1__ | | +|[adw](problems.md#adw)|0.4.0 |__+2__ | |__+1__ | +|[AeRobiology](problems.md#aerobiology)|2.0.1 |__+1__ | |__+1__ | +|[agricolaeplotr](problems.md#agricolaeplotr)|0.5.0 |__+1__ | | | +|[AmpliconDuo](problems.md#ampliconduo)|1.1.1 |__+1__ | | | +|[AnalysisLin](problems.md#analysislin)|0.1.2 |__+1__ | | | +|[animbook](problems.md#animbook)|1.0.0 |__+1__ | | | +|[ANN2](problems.md#ann2)|2.3.4 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+|[psc](problems.md#psc)|1.1.0 |__+1__ | |__+1__ | +|[PSCBS](problems.md#pscbs)|0.67.0 | | |__+1__ | +|[PupilPre](problems.md#pupilpre)|0.6.2 |__+1__ | |__+1__ | +|[qlifetable](problems.md#qlifetable)|0.0.2-5 |__+1__ | |1 | +|[quantities](problems.md#quantities)|0.2.3 |__+1__ | |__+1__ | +|[QurvE](problems.md#qurve)|1.1.1 |__+1__ | |1 | +|[r2dii.plot](problems.md#r2diiplot)|0.4.0 |__+1__ | | | +|[Radviz](problems.md#radviz)|0.9.3 |__+2__ | |__+1__ | +|[rassta](problems.md#rassta)|1.0.6 |__+2__ | | | +|[rasterdiv](problems.md#rasterdiv)|0.3.6 |__+1__ | |__+1__ | +|[rater](problems.md#rater)|1.3.1 |__+1__ | |2 | +|[ratlas](problems.md#ratlas)|0.1.0 |1 __+1__ | |1 __+1__ | +|[RavenR](problems.md#ravenr)|2.2.2 |__+1__ | | | +|[RCTrep](problems.md#rctrep)|1.2.0 | |__+1__ | | +|[registr](problems.md#registr)|2.1.0 |2 __+1__ | |2 __+1__ | +|[RegrCoeffsExplorer](problems.md#regrcoeffsexplorer)|1.1.0 | | |__+1__ | +|[regtomean](problems.md#regtomean)|1.2 | |__+1__ |1 | +|[RKorAPClient](problems.md#rkorapclient)|0.9.0 |__+1__ | | | +|[roahd](problems.md#roahd)|1.4.3 |__+1__ | |1 | +|[romic](problems.md#romic)|1.1.3 |__+1__ | | | +|[roptions](problems.md#roptions)|1.0.3 |__+1__ | |1 | +|[rSAFE](problems.md#rsafe)|0.1.4 |__+1__ | |__+1__ | +|[scoringutils](problems.md#scoringutils)|2.0.0 |__+1__ | |__+1__ | +|[SCOUTer](problems.md#scouter)|1.0.0 | |__+1__ | | +|[scUtils](problems.md#scutils)|0.1.0 |__+1__ | |1 | +|[SCVA](problems.md#scva)|1.3.1 |__+1__ | | | +|[SDMtune](problems.md#sdmtune)|1.3.2 |1 __+1__ | |1 | +|[seAMLess](problems.md#seamless)|0.1.1 |__+1__ | |1 | +|[seedreg](problems.md#seedreg)|1.0.3 |__+1__ | | | +|[segen](problems.md#segen)|1.1.0 | |__+1__ | | +|[sglg](problems.md#sglg)|0.2.2 |__+1__ | | | +|[sgsR](problems.md#sgsr)|1.4.5 |__+1__ | | | +|[SHAPforxgboost](problems.md#shapforxgboost)|0.1.3 |__+1__ | | | +|[shapr](problems.md#shapr)|1.0.1 |__+1__ | |2 | +|[simmr](problems.md#simmr)|0.5.1.217 |__+1__ | |__+1__ | +|[SimNPH](problems.md#simnph)|0.5.5 |__+1__ | | | +|[sivirep](problems.md#sivirep)|1.0.1 |__+1__ | |1 | +|[skewlmm](problems.md#skewlmm)|1.1.2 |__+1__ | | | +|[smdi](problems.md#smdi)|0.3.1 |1 | |__+1__ | +|[soc.ca](problems.md#socca)|0.8.0 |__+1__ | |2 | +|[SouthParkRshiny](problems.md#southparkrshiny)|1.0.0 | |__+1__ |2 | +|[SPARRAfairness](problems.md#sparrafairness)|0.0.0.2 |__+1__ | | | +|[spinifex](problems.md#spinifex)|0.3.8 |__+1__ | | | +|[spooky](problems.md#spooky)|1.4.0 | |__+1__ | | +|[sport](problems.md#sport)|0.2.1 |__+1__ | |1 | +|[SqueakR](problems.md#squeakr)|1.3.0 |1 |__+1__ |1 __+1__ | +|[statgenGWAS](problems.md#statgengwas)|1.0.10 |__+1__ | |1 | +|[statgenHTP](problems.md#statgenhtp)|1.0.7 |__+1__ | |2 | +|[stats19](problems.md#stats19)|3.3.1 | |1 |__+1__ | +|[surveyexplorer](problems.md#surveyexplorer)|0.2.0 |__+1__ | | | +|[survParamSim](problems.md#survparamsim)|0.1.6 |__+1__ | |__+1__ | +|[symptomcheckR](problems.md#symptomcheckr)|0.1.3 | |__+1__ | | +|[tabledown](problems.md#tabledown)|1.0.0 |__+1__ | |1 | +|[TCIU](problems.md#tciu)|1.2.7 |__+2__ | |1 __+1__ | +|[TestGardener](problems.md#testgardener)|3.3.5 | |__+1__ | | +|[tetragon](problems.md#tetragon)|1.3.0 | |__+1__ | | +|[thematic](problems.md#thematic)|0.1.6 |__+2__ | | | +|[tidybayes](problems.md#tidybayes)|3.0.7 |2 __+1__ | | | +|[tidycat](problems.md#tidycat)|0.1.2 |__+2__ | |1 __+1__ | +|[tidyCDISC](problems.md#tidycdisc)|0.2.1 |__+1__ | |1 | +|[tidyplots](problems.md#tidyplots)|0.2.1 |__+3__ | |__+1__ | +|[tidytreatment](problems.md#tidytreatment)|0.3.1 |__+1__ | |1 __+1__ | +|[timetk](problems.md#timetk)|2.9.0 |__+1__ | |1 | +|[TOSTER](problems.md#toster)|0.8.3 |__+3__ | |__+1__ | +|[track2KBA](problems.md#track2kba)|1.1.2 |__+1__ | | | +|[TransProR](problems.md#transpror)|0.0.6 |__+1__ | | | +|[TreatmentPatterns](problems.md#treatmentpatterns)|2.7.0 |__+1__ | | | +|[trelliscopejs](problems.md#trelliscopejs)|0.2.6 |__+1__ | | | +|[tricolore](problems.md#tricolore)|1.2.4 |__+2__ | |1 __+1__ | +|[tsnet](problems.md#tsnet)|0.1.0 |__+1__ | |2 | +|[UCSCXenaShiny](problems.md#ucscxenashiny)|2.1.0 |__+1__ | |1 __+1__ | +|[umiAnalyzer](problems.md#umianalyzer)|1.0.0 |__+1__ | | | +|[umx](problems.md#umx)|4.21.0 |__+2__ | |3 | +|[UniprotR](problems.md#uniprotr)|2.4.0 | |__+1__ | | +|[usmap](problems.md#usmap)|0.7.1 |__+3__ | |1 __+1__ | +|[vaccineff](problems.md#vaccineff)|1.0.0 |__+1__ | | | +|[VALERIE](problems.md#valerie)|1.1.0 | |__+1__ |1 | +|[valr](problems.md#valr)|0.8.3 |__+1__ | |1 | +|[vannstats](problems.md#vannstats)|1.5.1.8 | |__+1__ | | +|[vici](problems.md#vici)|0.7.3 | |__+1__ | | +|[visOmopResults](problems.md#visomopresults)|1.0.0 |__+1__ | | | +|[vivaldi](problems.md#vivaldi)|1.0.1 |__+3__ | |1 __+1__ | +|[voi](problems.md#voi)|1.0.3 |__+1__ | |1 __+1__ | +|[voluModel](problems.md#volumodel)|0.2.2 |1 __+1__ | |__+1__ | +|[voteogram](problems.md#voteogram)|0.3.2 |__+1__ | |__+1__ | +|[vvshiny](problems.md#vvshiny)|0.1.1 |__+1__ | | | +|[VWPre](problems.md#vwpre)|1.2.4 |__+1__ | |__+1__ | +|[wilson](problems.md#wilson)|2.4.2 |__+1__ | | | +|[wpa](problems.md#wpa)|1.9.1 |__+1__ | | | +|[xpose](problems.md#xpose)|0.4.19 |__+3__ | |__+1__ | +|[xpose.xtras](problems.md#xposextras)|0.0.2 |__+3__ | |3 __+1__ | +|[xray](problems.md#xray)|0.2 |__+1__ | | | +|[yamlet](problems.md#yamlet)|1.2.0 |__+2__ | |1 | diff --git a/revdep/cran.md b/revdep/cran.md index 4a1365f7a5..5a88006c77 100644 --- a/revdep/cran.md +++ b/revdep/cran.md @@ -1,40 +1,38 @@ ## revdepcheck results -We checked 5209 reverse dependencies (5199 from CRAN + 10 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. +We checked 5480 reverse dependencies (5463 from CRAN + 17 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. - * We saw 469 new problems - * We failed to check 155 packages + * We saw 362 new problems + * We failed to check 176 packages Issues with CRAN packages are summarised below. ### New problems (This reports the first line of each new failure) -* activAnalyzer - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * actxps checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* adaptr +* adklakedata + checking examples ... ERROR + +* AdverseEvents + checking whether package ‘AdverseEvents’ can be installed ... WARNING + +* adw checking examples ... ERROR - checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE * AeRobiology + checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE * agricolaeplotr checking tests ... ERROR -* alien - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* AlphaPart +* AmpliconDuo checking examples ... ERROR * AnalysisLin @@ -46,37 +44,17 @@ Issues with CRAN packages are summarised below. * ANN2 checking tests ... ERROR -* AnnoProbe - checking examples ... ERROR - -* ANOFA - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* ANOPA +* APCtools checking examples ... ERROR checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* AntMAN - checking examples ... ERROR - checking tests ... ERROR - -* APCI - checking tests ... ERROR - -* aplot - checking examples ... ERROR - * applicable checking tests ... ERROR -* ASRgenomics - checking examples ... ERROR - checking tests ... ERROR +* asmbPLS + checking whether package ‘asmbPLS’ can be installed ... WARNING * autocogs checking tests ... ERROR @@ -85,30 +63,9 @@ Issues with CRAN packages are summarised below. checking examples ... ERROR checking tests ... ERROR -* autoReg - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* baggr - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR +* autoTS checking re-building of vignette outputs ... NOTE -* banter - checking examples ... ERROR - -* bartMan - checking examples ... ERROR - -* BasketballAnalyzeR - checking examples ... ERROR - -* bayefdr - checking examples ... ERROR - checking tests ... ERROR - * bayesAB checking tests ... ERROR @@ -118,33 +75,15 @@ Issues with CRAN packages are summarised below. * BayesianReasoning checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * BayesMallows checking tests ... ERROR -* bayesplay - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * bayesplot - checking examples ... ERROR - checking tests ... ERROR - -* bayestestR - checking examples ... ERROR - -* BCEA - checking examples ... ERROR checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* BDgraph - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* bdl + checking whether package ‘bdl’ can be installed ... WARNING * BEAMR checking examples ... ERROR @@ -154,99 +93,63 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* BeeGUTS - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* besthr - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* betaclust - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * biclustermd checking tests ... ERROR * biodosetools checking tests ... ERROR +* BioM2 + checking whether package ‘BioM2’ can be installed ... WARNING + * BioPred + checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* BlandAltmanLeh - checking running R code from vignettes ... ERROR - -* bmggum - checking examples ... ERROR - * boxly checking tests ... ERROR -* braidReports +* brolgar checking examples ... ERROR -* BRcal - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* bruneimap + checking installed package size ... NOTE -* breathtestcore - checking tests ... ERROR +* bSi + checking whether package ‘bSi’ can be installed ... WARNING -* brolgar - checking examples ... ERROR +* calendR + checking whether package ‘calendR’ can be installed ... WARNING -* calibrationband - checking examples ... ERROR +* calendRio + checking whether package ‘calendRio’ can be installed ... WARNING * cartograflow checking examples ... ERROR -* cases - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * cats checking examples ... ERROR -* ceterisParibus - checking tests ... ERROR - -* cfda - checking examples ... ERROR - checking tests ... ERROR +* cellularautomata checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * cheem checking tests ... ERROR -* chillR - checking examples ... ERROR - -* chronicle +* CHOIRBM checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* CINNA +* choroplethr checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* circhelp +* chronicle checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* clifro - checking tests ... ERROR - * clinDataReview checking examples ... ERROR checking tests ... ERROR @@ -256,42 +159,47 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* cloneRate +* ClusROC + checking whether package ‘ClusROC’ can be installed ... WARNING + +* clustcurv checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE * clustEff - checking examples ... ERROR - -* ClustImpute - checking running R code from vignettes ... ERROR + checking whether package ‘clustEff’ can be installed ... WARNING -* cmstatr +* cnmap checking examples ... ERROR - checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* coda4microbiome + checking examples ... ERROR + checking whether package ‘coda4microbiome’ can be installed ... WARNING + * codaredistlm checking examples ... ERROR -* coefplot +* codez + checking whether package ‘codez’ can be installed ... WARNING + +* cogmapr checking examples ... ERROR +* CohortConstructor + checking running R code from vignettes ... ERROR + * CohortPlat checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* complmrob - checking examples ... ERROR - -* conjoint +* colorrepel checking examples ... ERROR -* conquestr - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* CompAREdesign + checking whether package ‘CompAREdesign’ can be installed ... WARNING * CoreMicrobiomeR checking examples ... ERROR @@ -304,18 +212,6 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* corx - checking tests ... ERROR - -* cosinor2 - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* CoSMoS - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * countfitteR checking tests ... ERROR @@ -329,25 +225,20 @@ Issues with CRAN packages are summarised below. checking re-building of vignette outputs ... NOTE * Coxmos - checking examples ... ERROR - -* cpr - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE + checking Rd files ... WARNING * cpsvote checking running R code from vignettes ... ERROR -* crimeutils +* CRABS checking examples ... ERROR -* crmPack - checking examples ... ERROR - checking running R code from vignettes ... ERROR - * crosshap checking examples ... ERROR +* csa + checking whether package ‘csa’ can be installed ... WARNING + * ctrialsgov checking tests ... ERROR @@ -355,75 +246,95 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* curtailment +* cylcop + checking examples ... ERROR + +* D2MCS + checking tests ... ERROR + +* dafishr checking examples ... ERROR -* dabestr +* daiquiri + checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* DAISIE + checking examples ... ERROR + * DAISIEprep checking tests ... ERROR -* dbmss +* dampack checking examples ... ERROR + checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* DeductiveR + checking whether package ‘DeductiveR’ can be installed ... WARNING + * deeptime + checking examples ... ERROR checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* descriptio +* DEGRE + checking whether package ‘DEGRE’ can be installed ... WARNING + +* Dforest checking examples ... ERROR -* directlabels - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* did + checking whether package ‘did’ can be installed ... WARNING -* disto - checking examples ... ERROR +* directlabels checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE * distributional checking examples ... ERROR +* distributions3 + checking tests ... ERROR + * dittoViz checking examples ... ERROR checking tests ... ERROR -* dotwhisker +* divent checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* DRomics +* dotsViolin checking examples ... ERROR - checking re-building of vignette outputs ... NOTE -* dtwclust - checking tests ... ERROR +* drugsens + checking whether package ‘drugsens’ can be installed ... WARNING * duke checking tests ... ERROR +* dymo + checking whether package ‘dymo’ can be installed ... WARNING + * easysurv checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* EGAnet +* EbayesThresh + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE + +* ecolRxC checking examples ... ERROR * EGM checking tests ... ERROR -* emmeans - checking examples ... ERROR - -* EMMIXmfa +* eiCircles checking examples ... ERROR * entropart @@ -431,23 +342,27 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* EnvStats - checking examples ... ERROR - * epiCleanr checking examples ... ERROR * epiphy checking examples ... ERROR +* episensr + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE + * EQUALSTATS checking examples ... ERROR -* ergm.multi +* errors checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* eRTG3D + checking tests ... ERROR + * esci checking examples ... ERROR checking tests ... ERROR @@ -458,26 +373,15 @@ Issues with CRAN packages are summarised below. * eventstudyr checking tests ... ERROR -* EvoPhylo - checking examples ... ERROR - checking re-building of vignette outputs ... NOTE - * expirest checking tests ... ERROR * explainer checking examples ... ERROR -* exuber - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ezEDA checking tests ... ERROR -* ezplot - checking examples ... ERROR - * fable.prophet checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE @@ -486,45 +390,25 @@ Issues with CRAN packages are summarised below. checking examples ... ERROR checking tests ... ERROR -* factoextra - checking examples ... ERROR - * fairmodels checking tests ... ERROR -* fastR2 - checking examples ... ERROR - -* faux - checking re-building of vignette outputs ... NOTE - * fddm checking running R code from vignettes ... ERROR * feasts checking tests ... ERROR -* fergm - checking examples ... ERROR - * ffp checking examples ... ERROR -* fic - checking running R code from vignettes ... ERROR - -* fido +* fgeo.plot checking examples ... ERROR checking tests ... ERROR -* fitdistrplus +* fido checking examples ... ERROR checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* fitlandr - checking examples ... ERROR * flexsurv checking running R code from vignettes ... ERROR @@ -532,42 +416,24 @@ Issues with CRAN packages are summarised below. * flipr checking re-building of vignette outputs ... NOTE -* FLOPART - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* fmesher - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* fmf - checking examples ... ERROR - -* forestly - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* FossilSim - checking examples ... ERROR - -* FPDclustering +* forestPSD checking examples ... ERROR * frailtyEM checking examples ... ERROR -* funcharts +* func2vis checking examples ... ERROR -* FunnelPlotR +* FuncNN + checking whether package ‘FuncNN’ can be installed ... WARNING + +* GCalignR checking examples ... ERROR + checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* genekitr - checking examples ... ERROR - * geoheatmap checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE @@ -576,8 +442,8 @@ Issues with CRAN packages are summarised below. checking examples ... ERROR checking tests ... ERROR -* geostan - checking examples ... ERROR +* ggalign + checking for code/documentation mismatches ... WARNING * GGally checking examples ... ERROR @@ -588,20 +454,8 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* ggbrain - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* ggbreak - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* ggcharts +* ggblanket checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * ggdark checking examples ... ERROR @@ -612,83 +466,60 @@ Issues with CRAN packages are summarised below. checking tests ... ERROR checking re-building of vignette outputs ... NOTE -* ggeasy - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ggedit checking examples ... ERROR -* ggESDA +* ggenealogy checking examples ... ERROR checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* ggExtra - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* ggfacto +* ggESDA checking examples ... ERROR * ggfixest checking tests ... ERROR -* ggfocus - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ggforce checking examples ... ERROR * ggformula checking examples ... ERROR checking tests ... ERROR - checking running R code from vignettes ... ERROR checking for code/documentation mismatches ... WARNING - checking re-building of vignette outputs ... NOTE * ggfortify - checking examples ... ERROR checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * gggenomes checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * ggh4x + checking examples ... ERROR checking tests ... ERROR + checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* gghalves + checking examples ... ERROR + +* ggheatmap + checking whether package ‘ggheatmap’ can be installed ... WARNING + * gghighlight checking examples ... ERROR checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* ggHoriPlot - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ggiraph checking examples ... ERROR checking tests ... ERROR * ggiraphExtra checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* ggmatplot +* ggmcmc checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * ggmice checking running R code from vignettes ... ERROR @@ -700,49 +531,27 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* ggpackets - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ggparallel checking tests ... ERROR * ggparty - checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* ggpicrust2 - checking examples ... ERROR - * ggplotlyExtra checking examples ... ERROR -* ggPMX - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ggpol checking examples ... ERROR -* ggprism +* ggpp checking examples ... ERROR - checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE * ggpubr - checking examples ... ERROR checking tests ... ERROR -* ggrain - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * ggraph checking examples ... ERROR checking re-building of vignette outputs ... NOTE @@ -755,6 +564,9 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* ggScatRidges + checking whether package ‘ggScatRidges’ can be installed ... WARNING + * ggseqplot checking examples ... ERROR checking tests ... ERROR @@ -768,15 +580,10 @@ Issues with CRAN packages are summarised below. * ggsmc checking running R code from vignettes ... ERROR -* ggspatial - checking examples ... ERROR - checking tests ... ERROR - -* ggstatsplot - checking examples ... ERROR - -* ggtern +* ggTimeSeries checking examples ... ERROR + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE * ggupset checking examples ... ERROR @@ -786,46 +593,14 @@ Issues with CRAN packages are summarised below. checking re-building of vignette outputs ... NOTE * GimmeMyPlot - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* giniVarCI - checking examples ... ERROR - -* gMCPLite - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* gMOIP - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE + checking whether package ‘GimmeMyPlot’ can be installed ... WARNING -* GofCens - checking examples ... ERROR - -* greatR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* greed + checking tests ... ERROR * Greymodels checking examples ... ERROR -* gsDesign - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* gtExtras - checking tests ... ERROR - -* HaploCatcher - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * healthyR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE @@ -840,21 +615,16 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* hermiter - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* heumilkr - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* hesim + checking tests ... ERROR * hilldiv - checking examples ... ERROR + checking whether package ‘hilldiv’ can be installed ... WARNING -* hmclearn - checking examples ... ERROR +* hJAM + checking whether package ‘hJAM’ can be installed ... WARNING -* HTLR +* hmsidwR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE @@ -864,49 +634,35 @@ Issues with CRAN packages are summarised below. * hypsoLoop checking whether package ‘hypsoLoop’ can be installed ... WARNING -* ibdsim2 - checking examples ... ERROR - -* ICtest - checking examples ... ERROR - -* idiogramFISH - checking installed package size ... NOTE - * IDMIR checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* idopNetwork - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* ihclust - checking examples ... ERROR - -* immunarch - checking examples ... ERROR +* ImFoR + checking whether package ‘ImFoR’ can be installed ... WARNING * incidental checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* iNEXT.4steps + checking whether package ‘iNEXT.4steps’ can be installed ... WARNING + * infer checking examples ... ERROR - checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* inferCSN + checking examples ... ERROR + * injurytools checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* inlabru - checking examples ... ERROR - -* insurancerating - checking examples ... ERROR +* insane + checking whether package ‘insane’ can be installed ... WARNING * inTextSummaryTable checking tests ... ERROR @@ -921,23 +677,12 @@ Issues with CRAN packages are summarised below. * IRon checking examples ... ERROR -* irt - checking examples ... ERROR - * isoorbi checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* ivDiag - checking examples ... ERROR - -* ivreg - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* jarbes - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* jenga + checking whether package ‘jenga’ can be installed ... WARNING * karel checking examples ... ERROR @@ -946,9 +691,13 @@ Issues with CRAN packages are summarised below. * kDGLM checking examples ... ERROR -* KMEANS.KNN - checking examples ... ERROR +* knfi + checking whether package ‘knfi’ can be installed ... WARNING + +* lans2r checking tests ... ERROR + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE * latentcor checking examples ... ERROR @@ -957,6 +706,9 @@ Issues with CRAN packages are summarised below. checking examples ... ERROR checking running R code from vignettes ... ERROR +* legendry + checking examples ... ERROR + * lemon checking examples ... ERROR checking tests ... ERROR @@ -968,63 +720,37 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* lgpr - checking tests ... ERROR - -* LightLogR - checking examples ... ERROR - * LMoFit checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* lnmixsurv - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* LocalControl - checking running R code from vignettes ... ERROR - * LocalCop checking re-building of vignette outputs ... NOTE -* LongDat +* lognorm checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* longreadvqs - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* LorMe + checking whether package ‘LorMe’ can be installed ... WARNING -* lpdensity +* lphom checking examples ... ERROR -* lspartition - checking examples ... ERROR +* LTCDM + checking whether package ‘LTCDM’ can be installed ... WARNING -* LSTbook - checking tests ... ERROR - checking re-building of vignette outputs ... NOTE - -* manydata - checking tests ... ERROR - -* manymome - checking examples ... ERROR - -* mapbayr - checking examples ... ERROR - -* MBNMAdose +* mapindia checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* MBNMAtime - checking re-building of vignette outputs ... NOTE +* mc2d + checking whether package ‘mc2d’ can be installed ... WARNING + +* mcStats + checking tests ... ERROR -* mecoturn +* MetAlyzer checking examples ... ERROR * MetaNet @@ -1036,20 +762,8 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* metrica - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* miceRanger - checking running R code from vignettes ... ERROR - -* microbial - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* MicrobiomeSurv - checking examples ... ERROR +* MF.beta4 + checking whether package ‘MF.beta4’ can be installed ... WARNING * migraph checking tests ... ERROR @@ -1064,28 +778,17 @@ Issues with CRAN packages are summarised below. checking tests ... ERROR * MiscMetabar - checking examples ... ERROR checking tests ... ERROR -* misspi - checking examples ... ERROR +* missingHE + checking whether package ‘missingHE’ can be installed ... WARNING -* mixpoissonreg +* misspi checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * mizer checking tests ... ERROR -* mlr3spatiotempcv - checking examples ... ERROR - -* mlr3viz - checking examples ... ERROR - checking tests ... ERROR - * modeltime.resample checking tests ... ERROR @@ -1093,61 +796,32 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* mosaicCalc - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* mosaicData - checking examples ... ERROR - -* mosaicModel - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* mppR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* MSCMT - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* mstate - checking examples ... ERROR - checking running R code from vignettes ... ERROR +* MSPRT + checking whether package ‘MSPRT’ can be installed ... WARNING * mtb checking tests ... ERROR -* mulgar - checking examples ... ERROR - -* MultivariateAnalysis +* MTLR checking examples ... ERROR -* mxfda - checking installed package size ... NOTE - -* neatmaps +* mulgar checking examples ... ERROR -* neatStats +* MultiTraits checking examples ... ERROR - -* netcom checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* NetFACS +* naive + checking whether package ‘naive’ can be installed ... WARNING + +* neatmaps checking examples ... ERROR - checking running R code from vignettes ... ERROR -* neuroUp +* NetFACS checking examples ... ERROR - checking tests ... ERROR checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * NHSRplotthedots checking tests ... ERROR @@ -1162,131 +836,94 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* nonmem2R - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* nphRCT +* nuts checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* nprobust - checking examples ... ERROR - * nzelect checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* OBIC - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* oceanic - checking examples ... ERROR * oddsratio checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE +* OenoKPM + checking whether package ‘OenoKPM’ can be installed ... WARNING + * ofpetrial checking examples ... ERROR * OmicNavigator checking tests ... ERROR -* omu - checking examples ... ERROR - checking re-building of vignette outputs ... NOTE - -* OncoBayes2 - checking examples ... ERROR - -* oncomsm - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* onemap + checking whether package ‘onemap’ can be installed ... WARNING * OneSampleLogRankTest checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* onpoint - checking examples ... ERROR - * ordbetareg checking examples ... ERROR -* packcircles - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * pafr checking tests ... ERROR -* patchwork +* pathfindR checking examples ... ERROR - -* pathviewr checking tests ... ERROR - -* patientProfilesVis - checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* PCADSC - checking examples ... ERROR - -* pcutils - checking examples ... ERROR +* pathviewr + checking tests ... ERROR * pdxTrees checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* personalized - checking tests ... ERROR - -* phyloseqGraphTest +* penAFT checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* PieGlyph - checking examples ... ERROR +* personalized checking tests ... ERROR - checking re-building of vignette outputs ... NOTE * Plasmidprofiler checking examples ... ERROR -* platetools +* plinkQC checking tests ... ERROR -* PLNmodels - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* plotBart +* plotDK checking tests ... ERROR -* plotDK +* PlotFTIR + checking examples ... ERROR checking tests ... ERROR + checking running R code from vignettes ... ERROR + +* plothelper + checking examples ... ERROR * plotly checking examples ... ERROR checking tests ... ERROR +* plotthis + checking examples ... ERROR + * pmartR checking tests ... ERROR * pmxTools checking tests ... ERROR +* PopED + checking installed package size ... NOTE + * posterior + checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE * PPQplan @@ -1296,15 +933,15 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* PPtreeregViz +* precintcon checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* precintcon +* predictMe checking examples ... ERROR + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE -* precrec +* prevR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE @@ -1314,114 +951,84 @@ Issues with CRAN packages are summarised below. checking re-building of vignette outputs ... NOTE * probably + checking examples ... ERROR checking tests ... ERROR * processmapR checking tests ... ERROR -* projpred - checking examples ... ERROR - checking running R code from vignettes ... ERROR - -* psborrow - checking tests ... ERROR - -* pubh +* profoc checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* PUPMSI +* promor checking examples ... ERROR -* qacBase +* protag checking examples ... ERROR -* qPCRhelper - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* r2dii.plot +* psborrow checking tests ... ERROR -* r2spss - checking examples ... ERROR +* psc checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE -* radiant.basics - checking examples ... ERROR - -* radiant.data - checking examples ... ERROR - -* radiant.model - checking examples ... ERROR +* PSCBS + checking installed package size ... NOTE -* Radviz - checking examples ... ERROR +* PupilPre checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* randomForestExplainer +* qlifetable checking examples ... ERROR - checking tests ... ERROR + +* quantities checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* rassta +* QurvE checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR -* rater +* r2dii.plot checking tests ... ERROR -* RBesT +* Radviz checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* rddensity - checking examples ... ERROR - -* RecordTest +* rassta checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE + checking tests ... ERROR -* reda - checking examples ... ERROR +* rasterdiv checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* redist - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* rater + checking tests ... ERROR -* registr - checking running R code from vignettes ... ERROR +* ratlas + checking tests ... ERROR checking re-building of vignette outputs ... NOTE -* reliabilitydiag +* RavenR checking examples ... ERROR -* relliptical - checking examples ... ERROR +* RCTrep + checking whether package ‘RCTrep’ can be installed ... WARNING -* reportRmd - checking examples ... ERROR +* registr checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* reservr - checking examples ... ERROR +* RegrCoeffsExplorer checking re-building of vignette outputs ... NOTE -* RestoreNet - checking examples ... ERROR - -* rfPermute - checking examples ... ERROR +* regtomean + checking whether package ‘regtomean’ can be installed ... WARNING * RKorAPClient checking tests ... ERROR @@ -1429,39 +1036,22 @@ Issues with CRAN packages are summarised below. * roahd checking examples ... ERROR -* robCompositions - checking examples ... ERROR - * romic - checking examples ... ERROR checking tests ... ERROR * roptions checking examples ... ERROR * rSAFE - checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* santaR - checking tests ... ERROR - -* saros - checking examples ... ERROR - checking tests ... ERROR - -* scatterpie - checking examples ... ERROR +* scoringutils checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* scdtb - checking tests ... ERROR - -* scoringutils - checking examples ... ERROR - checking re-building of vignette outputs ... NOTE +* SCOUTer + checking whether package ‘SCOUTer’ can be installed ... WARNING * scUtils checking tests ... ERROR @@ -1469,31 +1059,17 @@ Issues with CRAN packages are summarised below. * SCVA checking examples ... ERROR -* sdmTMB - checking examples ... ERROR - * SDMtune checking tests ... ERROR -* sedproxy - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* see +* seAMLess checking examples ... ERROR * seedreg checking examples ... ERROR -* semfindr - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* sensiPhy - checking examples ... ERROR +* segen + checking whether package ‘segen’ can be installed ... WARNING * sglg checking examples ... ERROR @@ -1504,127 +1080,84 @@ Issues with CRAN packages are summarised below. * SHAPforxgboost checking examples ... ERROR -* ShapleyOutlier - checking examples ... ERROR +* shapr + checking tests ... ERROR + +* simmr checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* shinipsum +* SimNPH checking tests ... ERROR -* signatureSurvival - checking examples ... ERROR +* sivirep + checking tests ... ERROR -* SimCorrMix +* skewlmm checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* SimMultiCorrData - checking running R code from vignettes ... ERROR +* smdi checking re-building of vignette outputs ... NOTE -* SimNPH - checking tests ... ERROR - -* slendr +* soc.ca checking examples ... ERROR -* smallsets - checking examples ... ERROR +* SouthParkRshiny + checking whether package ‘SouthParkRshiny’ can be installed ... WARNING + +* SPARRAfairness checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * spinifex checking tests ... ERROR -* sport - checking tests ... ERROR +* spooky + checking whether package ‘spooky’ can be installed ... WARNING -* spotoroo +* sport checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE * SqueakR + checking whether package ‘SqueakR’ can be installed ... WARNING checking re-building of vignette outputs ... NOTE -* stability - checking examples ... ERROR - * statgenGWAS checking tests ... ERROR * statgenHTP - checking examples ... ERROR checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE -* sugrrants - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* superb - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR +* stats19 checking re-building of vignette outputs ... NOTE * surveyexplorer checking examples ... ERROR -* survivalAnalysis - checking examples ... ERROR - checking re-building of vignette outputs ... NOTE - -* survminer - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * survParamSim checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* survstan - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* SVMMaj - checking examples ... ERROR - checking running R code from vignettes ... ERROR - -* Sysrecon - checking examples ... ERROR +* symptomcheckR + checking whether package ‘symptomcheckR’ can be installed ... WARNING * tabledown checking examples ... ERROR -* tcgaViz - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * TCIU checking examples ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* tcpl - checking tests ... ERROR +* TestGardener + checking whether package ‘TestGardener’ can be installed ... WARNING -* tern - checking examples ... ERROR +* tetragon + checking whether package ‘tetragon’ can be installed ... WARNING * thematic checking examples ... ERROR checking tests ... ERROR -* Thermistor - checking examples ... ERROR - * tidybayes checking examples ... ERROR @@ -1636,11 +1169,7 @@ Issues with CRAN packages are summarised below. * tidyCDISC checking tests ... ERROR -* tidysdm - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* tidySEM +* tidyplots checking examples ... ERROR checking tests ... ERROR checking running R code from vignettes ... ERROR @@ -1650,48 +1179,23 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* timeplyr - checking examples ... ERROR - * timetk checking tests ... ERROR -* tinyarray - checking examples ... ERROR - -* tipmap - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* tornado - checking examples ... ERROR - checking tests ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - * TOSTER checking examples ... ERROR checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* TreatmentPatterns +* track2KBA checking tests ... ERROR -* TreatmentSelection - checking examples ... ERROR - -* TreeDep +* TransProR checking examples ... ERROR -* TreeDist - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE - -* treeheatr - checking examples ... ERROR - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* TreatmentPatterns + checking tests ... ERROR * trelliscopejs checking tests ... ERROR @@ -1701,29 +1205,22 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* triptych - checking examples ... ERROR - * tsnet checking tests ... ERROR -* UBayFS +* UCSCXenaShiny checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* Umatrix - checking examples ... ERROR - * umiAnalyzer checking examples ... ERROR -* UnalR +* umx checking examples ... ERROR checking tests ... ERROR -* unmconf - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* UniprotR + checking whether package ‘UniprotR’ can be installed ... WARNING * usmap checking examples ... ERROR @@ -1731,29 +1228,23 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* vannstats - checking examples ... ERROR - -* vDiveR - checking examples ... ERROR - -* venn - checking examples ... ERROR +* vaccineff + checking tests ... ERROR -* vimpclust - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* VALERIE + checking whether package ‘VALERIE’ can be installed ... WARNING -* vip - checking examples ... ERROR +* valr checking tests ... ERROR -* VirtualPop - checking running R code from vignettes ... ERROR - checking re-building of vignette outputs ... NOTE +* vannstats + checking whether package ‘vannstats’ can be installed ... WARNING -* viscomp - checking examples ... ERROR +* vici + checking whether package ‘vici’ can be installed ... WARNING + +* visOmopResults + checking tests ... ERROR * vivaldi checking examples ... ERROR @@ -1761,12 +1252,7 @@ Issues with CRAN packages are summarised below. checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* voiceR - checking examples ... ERROR - checking tests ... ERROR - -* volcano3D - checking examples ... ERROR +* voi checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE @@ -1774,24 +1260,37 @@ Issues with CRAN packages are summarised below. checking examples ... ERROR checking re-building of vignette outputs ... NOTE -* vsd - checking examples ... ERROR +* voteogram + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE * vvshiny checking tests ... ERROR -* walker +* VWPre checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* WVPlots +* wilson + checking tests ... ERROR + +* wpa + checking tests ... ERROR + +* xpose checking examples ... ERROR checking tests ... ERROR checking running R code from vignettes ... ERROR checking re-building of vignette outputs ... NOTE -* xaringanthemer +* xpose.xtras + checking examples ... ERROR checking tests ... ERROR + checking running R code from vignettes ... ERROR + checking re-building of vignette outputs ... NOTE + +* xray + checking examples ... ERROR * yamlet checking examples ... ERROR @@ -1799,158 +1298,179 @@ Issues with CRAN packages are summarised below. ### Failed to check -* abctools (NA) -* adjclust (NA) -* animalEKF (NA) -* ANOM (NA) -* atRisk (NA) -* AutoScore (NA) -* baRulho (NA) -* bayesDP (NA) -* BayesianFactorZoo (NA) -* BayesSurvive (NA) -* BCClong (NA) -* BGGM (NA) -* binsreg (NA) -* bspcov (NA) -* bsub (NA) -* BuyseTest (NA) -* CARBayesST (NA) -* CGPfunctions (NA) -* chemodiv (NA) -* cinaR (NA) -* cmprskcoxmsm (NA) -* CNVScope (NA) -* COMMA (NA) -* conos (NA) -* counterfactuals (NA) -* CRMetrics (NA) -* crosstalkr (NA) -* ctsem (NA) -* DepthProc (NA) -* DR.SC (NA) -* easybgm (NA) -* EcoEnsemble (NA) -* ecolottery (NA) -* EMAS (NA) -* EpiEstim (NA) -* evolqg (NA) -* ForecastComb (NA) -* GALLO (NA) -* gap (NA) -* gapfill (NA) -* geneHapR (NA) -* GeneSelectR (NA) -* GeomComb (NA) -* gJLS2 (NA) -* hettx (NA) -* Hmisc (NA) -* Hmsc (NA) -* iClusterVB (NA) -* inventorize (NA) -* iNZightPlots (NA) -* iNZightRegression (NA) -* IRexamples (NA) -* jmBIG (NA) -* joineRML (NA) -* kibior (NA) -* kmc (NA) -* L2E (NA) -* llbayesireg (NA) -* locuszoomr (NA) -* LorenzRegression (NA) -* lsirm12pl (NA) -* MARVEL (NA) -* mbsts (NA) -* MitoHEAR (NA) -* miWQS (NA) -* mlmts (NA) -* mlr (NA) -* MOCHA (NA) -* MRZero (NA) -* multilevelTools (NA) -* multinma (NA) -* NCA (NA) -* netcmc (NA) -* NetworkChange (NA) -* nlmeVPC (NA) -* NMADiagT (NA) -* ohun (NA) -* optweight (NA) -* OVtool (NA) -* pagoda2 (NA) -* PAMpal (NA) -* PAMscapes (NA) -* paths (NA) -* pcvr (NA) -* PlasmaMutationDetector (NA) -* PlasmaMutationDetector2 (NA) -* PLMIX (NA) -* polyRAD (NA) -* popstudy (NA) -* pould (NA) -* PoweREST (NA) -* powerly (NA) -* pre (NA) -* ProFAST (NA) -* psbcSpeedUp (NA) -* pscore (NA) -* qPCRtools (NA) -* qris (NA) -* qte (NA) -* quantilogram (NA) -* quid (NA) -* RcmdrPlugin.RiskDemo (NA) -* rddtools (NA) -* RNAseqQC (NA) -* robmed (NA) -* robmedExtra (NA) -* RPPanalyzer (NA) -* RQdeltaCT (NA) -* rstanarm (NA) -* RTIGER (NA) -* rTwig (NA) -* RVA (NA) -* scCustomize (NA) -* SCdeconR (NA) -* scGate (NA) -* SCIntRuler (NA) -* scITD (NA) -* scMappR (NA) -* scpi (NA) -* scRNAstat (NA) -* sectorgap (NA) -* SeedMatchR (NA) -* SEERaBomb (NA) -* semicmprskcoxmsm (NA) -* SensMap (NA) -* sephora (NA) -* Seurat (NA) -* shinyTempSignal (NA) -* sievePH (NA) -* sigminer (NA) -* Signac (NA) -* SimplyAgree (NA) -* SNPassoc (NA) -* snplinkage (NA) -* SoupX (NA) -* sparsereg (NA) -* SpatialDDLS (NA) -* spikeSlabGAM (NA) -* statsr (NA) -* streamDAG (NA) -* survidm (NA) -* tempted (NA) -* TestAnaAPP (NA) -* tidydr (NA) -* tidyEdSurvey (NA) -* tidyseurat (NA) -* tidyvpc (NA) -* TriDimRegression (NA) -* TSrepr (NA) -* twang (NA) -* updog (NA) -* valr (NA) -* vdg (NA) -* visa (NA) -* WRTDStidal (NA) +* abctools (NA) +* adjustedCurves (NA) +* animalEKF (NA) +* ANOM (NA) +* atRisk (NA) +* autoReg (NA) +* AutoScore (NA) +* bartMan (NA) +* bayesDP (NA) +* BayesianFactorZoo (NA) +* BayesSurvive (NA) +* BCClong (NA) +* BGGM (NA) +* binsreg (NA) +* bspcov (NA) +* BSTZINB (NA) +* BuyseTest (NA) +* CAESAR.Suite (NA) +* CARBayesST (NA) +* Certara.VPCResults (NA) +* CGPfunctions (NA) +* cinaR (NA) +* cmprskcoxmsm (NA) +* COMMA (NA) +* contsurvplot (NA) +* counterfactuals (NA) +* CRMetrics (NA) +* ctsem (NA) +* dartR.base (NA) +* dartR.captive (NA) +* dartR.popgen (NA) +* dartR.sexlinked (NA) +* dartR.sim (NA) +* dartR.spatial (NA) +* DepthProc (NA) +* DFD (NA) +* DR.SC (NA) +* dscoreMSM (NA) +* easybgm (NA) +* EcoEnsemble (NA) +* ecolottery (NA) +* EpiEstim (NA) +* EpiNow2 (NA) +* evolqg (NA) +* flexrsurv (NA) +* ForecastComb (NA) +* gap (NA) +* gapfill (NA) +* genekitr (NA) +* GeneSelectR (NA) +* GeomComb (NA) +* ggmosaic (NA) +* ggtern (NA) +* gJLS2 (NA) +* grandR (NA) +* GseaVis (NA) +* hettx (NA) +* Hmisc (NA) +* Hmsc (NA) +* iClusterVB (NA) +* immcp (NA) +* inventorize (NA) +* invivoPKfit (NA) +* iNZightPlots (NA) +* iNZightRegression (NA) +* IRexamples (NA) +* jmBIG (NA) +* joineRML (NA) +* jsmodule (NA) +* kmc (NA) +* KMunicate (NA) +* L2E (NA) +* Landmarking (NA) +* lavaSearch2 (NA) +* llbayesireg (NA) +* lnmixsurv (NA) +* LorenzRegression (NA) +* lsirm12pl (NA) +* MARVEL (NA) +* MaxWiK (NA) +* mbsts (NA) +* MendelianRandomization (NA) +* miWQS (NA) +* mlmts (NA) +* mlr (NA) +* MRZero (NA) +* mstate (NA) +* multilevelTools (NA) +* multinma (NA) +* multipleOutcomes (NA) +* MuPETFlow (NA) +* NCA (NA) +* netcmc (NA) +* NetworkChange (NA) +* nlmeVPC (NA) +* NMADiagT (NA) +* obliqueRSF (NA) +* OlinkAnalyze (NA) +* optweight (NA) +* OVtool (NA) +* pammtools (NA) +* paths (NA) +* pcvr (NA) +* PieGlyph (NA) +* PLMIX (NA) +* popstudy (NA) +* pould (NA) +* PoweREST (NA) +* powerly (NA) +* pre (NA) +* ProFAST (NA) +* psbcSpeedUp (NA) +* pscore (NA) +* qPCRtools (NA) +* qris (NA) +* qte (NA) +* quantilogram (NA) +* quid (NA) +* RcmdrPlugin.RiskDemo (NA) +* rddtools (NA) +* relsurv (NA) +* ReporterScore (NA) +* riskRegression (NA) +* robber (NA) +* robmed (NA) +* robmedExtra (NA) +* RPPanalyzer (NA) +* RQdeltaCT (NA) +* rstanarm (NA) +* rTwig (NA) +* RVA (NA) +* S4DM (NA) +* scCustomize (NA) +* SCdeconR (NA) +* scGate (NA) +* SCIntRuler (NA) +* scMappR (NA) +* scpi (NA) +* SCpubr (NA) +* scRNAstat (NA) +* sectorgap (NA) +* SEERaBomb (NA) +* semicmprskcoxmsm (NA) +* SensMap (NA) +* Seurat (NA) +* shinyTempSignal (NA) +* sievePH (NA) +* SiFINeT (NA) +* Signac (NA) +* SimplyAgree (NA) +* SNPassoc (NA) +* snplinkage (NA) +* SoupX (NA) +* SpaCCI (NA) +* sparsereg (NA) +* spikeSlabGAM (NA) +* stabiliser (NA) +* statsr (NA) +* streamDAG (NA) +* survex (NA) +* survHE (NA) +* survidm (NA) +* tempted (NA) +* TestAnaAPP (NA) +* tidydr (NA) +* tidyEdSurvey (NA) +* tidyseurat (NA) +* tidyvpc (NA) +* tinyarray (NA) +* treeclim (NA) +* TriDimRegression (NA) +* TSrepr (NA) +* twang (NA) +* vdg (NA) +* visa (NA) +* WRTDStidal (NA) diff --git a/revdep/failures.md b/revdep/failures.md index 444f4e174b..f51a0edeab 100644 --- a/revdep/failures.md +++ b/revdep/failures.md @@ -29,7 +29,7 @@ Run `revdepcheck::cloud_details(, "abctools")` for more info ** package ‘abctools’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c abctools.c -o abctools.o gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o abctools.so abctools.o init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR @@ -53,7 +53,7 @@ ERROR: lazy loading failed for package ‘abctools’ ** package ‘abctools’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c abctools.c -o abctools.o gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o abctools.so abctools.o init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR @@ -70,17 +70,17 @@ ERROR: lazy loading failed for package ‘abctools’ ``` -# adjclust +# adjustedCurves
-* Version: 0.6.9 -* GitHub: https://github.com/pneuvial/adjclust -* Source code: https://github.com/cran/adjclust -* Date/Publication: 2024-02-08 08:50:05 UTC -* Number of recursive dependencies: 119 +* Version: 0.11.2 +* GitHub: https://github.com/RobinDenz1/adjustedCurves +* Source code: https://github.com/cran/adjustedCurves +* Date/Publication: 2024-07-29 14:30:02 UTC +* Number of recursive dependencies: 177 -Run `revdepcheck::cloud_details(, "adjclust")` for more info +Run `revdepcheck::cloud_details(, "adjustedCurves")` for more info
@@ -89,27 +89,27 @@ Run `revdepcheck::cloud_details(, "adjclust")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/adjclust/new/adjclust.Rcheck’ +* using log directory ‘/tmp/workdir/adjustedCurves/new/adjustedCurves.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘adjclust/DESCRIPTION’ ... OK +* checking for file ‘adjustedCurves/DESCRIPTION’ ... OK ... - When sourcing ‘hicClust.R’: -Error: there is no package called ‘HiTC’ +--- finished re-building ‘plot_customization.rmd’ + +SUMMARY: processing the following file failed: + ‘introduction.Rmd’ + +Error: Vignette re-building failed. Execution halted - ‘hicClust.Rmd’ using ‘UTF-8’... failed - ‘notesCHAC.Rmd’ using ‘UTF-8’... OK - ‘snpClust.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK * DONE -Status: 1 WARNING, 2 NOTEs +Status: 2 ERRORs, 1 WARNING, 3 NOTEs @@ -119,27 +119,27 @@ Status: 1 WARNING, 2 NOTEs ### CRAN ``` -* using log directory ‘/tmp/workdir/adjclust/old/adjclust.Rcheck’ +* using log directory ‘/tmp/workdir/adjustedCurves/old/adjustedCurves.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘adjclust/DESCRIPTION’ ... OK +* checking for file ‘adjustedCurves/DESCRIPTION’ ... OK ... - When sourcing ‘hicClust.R’: -Error: there is no package called ‘HiTC’ +--- finished re-building ‘plot_customization.rmd’ + +SUMMARY: processing the following file failed: + ‘introduction.Rmd’ + +Error: Vignette re-building failed. Execution halted - ‘hicClust.Rmd’ using ‘UTF-8’... failed - ‘notesCHAC.Rmd’ using ‘UTF-8’... OK - ‘snpClust.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK * DONE -Status: 1 WARNING, 2 NOTEs +Status: 2 ERRORs, 1 WARNING, 3 NOTEs @@ -216,7 +216,7 @@ ERROR: lazy loading failed for package ‘animalEKF’ * GitHub: https://github.com/PhilipPallmann/ANOM * Source code: https://github.com/cran/ANOM * Date/Publication: 2017-04-12 13:32:33 UTC -* Number of recursive dependencies: 60 +* Number of recursive dependencies: 63 Run `revdepcheck::cloud_details(, "ANOM")` for more info @@ -276,10 +276,10 @@ ERROR: lazy loading failed for package ‘ANOM’
-* Version: 0.1.0 +* Version: 0.2.0 * GitHub: NA * Source code: https://github.com/cran/atRisk -* Date/Publication: 2023-08-08 14:50:05 UTC +* Date/Publication: 2025-01-14 18:50:01 UTC * Number of recursive dependencies: 37 Run `revdepcheck::cloud_details(, "atRisk")` for more info @@ -334,17 +334,17 @@ ERROR: lazy loading failed for package ‘atRisk’ ``` -# AutoScore +# autoReg
-* Version: 1.0.0 -* GitHub: https://github.com/nliulab/AutoScore -* Source code: https://github.com/cran/AutoScore -* Date/Publication: 2022-10-15 22:15:26 UTC -* Number of recursive dependencies: 170 +* Version: 0.3.3 +* GitHub: https://github.com/cardiomoon/autoReg +* Source code: https://github.com/cran/autoReg +* Date/Publication: 2023-11-14 05:53:27 UTC +* Number of recursive dependencies: 215 -Run `revdepcheck::cloud_details(, "AutoScore")` for more info +Run `revdepcheck::cloud_details(, "autoReg")` for more info
@@ -353,27 +353,27 @@ Run `revdepcheck::cloud_details(, "AutoScore")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/AutoScore/new/AutoScore.Rcheck’ +* using log directory ‘/tmp/workdir/autoReg/new/autoReg.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘AutoScore/DESCRIPTION’ ... OK +* checking for file ‘autoReg/DESCRIPTION’ ... OK ... -* this is package ‘AutoScore’ version ‘1.0.0’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘survAUC’ +--- failed re-building ‘Survival.Rmd’ + +SUMMARY: processing the following file failed: + ‘Survival.Rmd’ + +Error: Vignette re-building failed. +Execution halted -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. * DONE -Status: 1 ERROR +Status: 1 ERROR, 1 NOTE @@ -383,44 +383,44 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/AutoScore/old/AutoScore.Rcheck’ +* using log directory ‘/tmp/workdir/autoReg/old/autoReg.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘AutoScore/DESCRIPTION’ ... OK +* checking for file ‘autoReg/DESCRIPTION’ ... OK ... -* this is package ‘AutoScore’ version ‘1.0.0’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘survAUC’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘Automatic_Regression_Modeling.Rmd’ using ‘UTF-8’... OK + ‘Bootstrap_Prediction.Rmd’ using ‘UTF-8’... OK + ‘Getting_started.Rmd’ using ‘UTF-8’... OK + ‘Statiastical_test_in_gaze.Rmd’ using ‘UTF-8’... OK + ‘Survival.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK * DONE -Status: 1 ERROR +Status: OK ``` -# baRulho +# AutoScore
-* Version: 2.1.2 -* GitHub: https://github.com/ropensci/baRulho -* Source code: https://github.com/cran/baRulho -* Date/Publication: 2024-08-31 13:10:07 UTC -* Number of recursive dependencies: 115 +* Version: 1.0.0 +* GitHub: https://github.com/nliulab/AutoScore +* Source code: https://github.com/cran/AutoScore +* Date/Publication: 2022-10-15 22:15:26 UTC +* Number of recursive dependencies: 173 -Run `revdepcheck::cloud_details(, "baRulho")` for more info +Run `revdepcheck::cloud_details(, "AutoScore")` for more info
@@ -429,22 +429,22 @@ Run `revdepcheck::cloud_details(, "baRulho")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/baRulho/new/baRulho.Rcheck’ +* using log directory ‘/tmp/workdir/AutoScore/new/AutoScore.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘baRulho/DESCRIPTION’ ... OK +* checking for file ‘AutoScore/DESCRIPTION’ ... OK ... +* this is package ‘AutoScore’ version ‘1.0.0’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: 'warbleR', 'ohun' - -Package suggested but not available for checking: ‘Rraven’ +Package required but not available: ‘survAUC’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -459,22 +459,22 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/baRulho/old/baRulho.Rcheck’ +* using log directory ‘/tmp/workdir/AutoScore/old/AutoScore.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘baRulho/DESCRIPTION’ ... OK +* checking for file ‘AutoScore/DESCRIPTION’ ... OK ... +* this is package ‘AutoScore’ version ‘1.0.0’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: 'warbleR', 'ohun' - -Package suggested but not available for checking: ‘Rraven’ +Package required but not available: ‘survAUC’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -485,16 +485,78 @@ Status: 1 ERROR +``` +# bartMan + +
+ +* Version: 0.1.1 +* GitHub: NA +* Source code: https://github.com/cran/bartMan +* Date/Publication: 2024-07-24 12:10:02 UTC +* Number of recursive dependencies: 135 + +Run `revdepcheck::cloud_details(, "bartMan")` for more info + +
+ +## Newly broken + +* checking whether package ‘bartMan’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘bartMan’ ... +** package ‘bartMan’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** byte-compile and prepare package for lazy loading +Error in eval(exprs[i], envir) : object 'justify_grobs' not found +Error: unable to load R code in package ‘bartMan’ +Execution halted +ERROR: lazy loading failed for package ‘bartMan’ +* removing ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/bartMan’ + + +``` +### CRAN + +``` +* installing *source* package ‘bartMan’ ... +** package ‘bartMan’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +** building package indices +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (bartMan) + + ``` # bayesDP
-* Version: 1.3.6 +* Version: 1.3.7 * GitHub: https://github.com/graemeleehickey/bayesDP * Source code: https://github.com/cran/bayesDP -* Date/Publication: 2022-01-30 22:20:02 UTC -* Number of recursive dependencies: 80 +* Date/Publication: 2025-01-12 11:40:10 UTC +* Number of recursive dependencies: 79 Run `revdepcheck::cloud_details(, "bayesDP")` for more info @@ -517,10 +579,10 @@ Run `revdepcheck::cloud_details(, "bayesDP")` for more info ** package ‘bayesDP’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o bayesDP.so RcppExports.o bdplm.o ppexp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/bayesDP/new/bayesDP.Rcheck/00LOCK-bayesDP/00new/bayesDP/libs ** R @@ -542,10 +604,10 @@ ERROR: lazy loading failed for package ‘bayesDP’ ** package ‘bayesDP’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c bdplm.cpp -o bdplm.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c ppexp.cpp -o ppexp.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o bayesDP.so RcppExports.o bdplm.o ppexp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/bayesDP/old/bayesDP.Rcheck/00LOCK-bayesDP/00new/bayesDP/libs ** R @@ -564,11 +626,11 @@ ERROR: lazy loading failed for package ‘bayesDP’
-* Version: 0.0.0.2 +* Version: 0.0.0.3 * GitHub: NA * Source code: https://github.com/cran/BayesianFactorZoo -* Date/Publication: 2023-11-14 12:43:44 UTC -* Number of recursive dependencies: 75 +* Date/Publication: 2024-10-04 09:30:08 UTC +* Number of recursive dependencies: 74 Run `revdepcheck::cloud_details(, "BayesianFactorZoo")` for more info @@ -632,73 +694,71 @@ ERROR: lazy loading failed for package ‘BayesianFactorZoo’ * GitHub: https://github.com/ocbe-uio/BayesSurvive * Source code: https://github.com/cran/BayesSurvive * Date/Publication: 2024-06-04 13:20:12 UTC -* Number of recursive dependencies: 129 +* Number of recursive dependencies: 118 Run `revdepcheck::cloud_details(, "BayesSurvive")` for more info
-## In both - -* checking whether package ‘BayesSurvive’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/BayesSurvive/new/BayesSurvive.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BayesSurvive’ ... -** package ‘BayesSurvive’ successfully unpacked and MD5 sums checked -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether the compiler supports GNU C++... yes -checking whether g++ -std=gnu++17 accepts -g... yes +* using log directory ‘/tmp/workdir/BayesSurvive/new/BayesSurvive.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘BayesSurvive/DESCRIPTION’ ... OK ... -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘BayesSurvive’ -* removing ‘/tmp/workdir/BayesSurvive/new/BayesSurvive.Rcheck/BayesSurvive’ +* this is package ‘BayesSurvive’ version ‘0.0.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` ### CRAN ``` -* installing *source* package ‘BayesSurvive’ ... -** package ‘BayesSurvive’ successfully unpacked and MD5 sums checked -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether the compiler supports GNU C++... yes -checking whether g++ -std=gnu++17 accepts -g... yes +* using log directory ‘/tmp/workdir/BayesSurvive/old/BayesSurvive.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘BayesSurvive/DESCRIPTION’ ... OK ... -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘BayesSurvive’ -* removing ‘/tmp/workdir/BayesSurvive/old/BayesSurvive.Rcheck/BayesSurvive’ +* this is package ‘BayesSurvive’ version ‘0.0.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` @@ -710,7 +770,7 @@ ERROR: lazy loading failed for package ‘BayesSurvive’ * GitHub: NA * Source code: https://github.com/cran/BCClong * Date/Publication: 2024-06-24 00:00:02 UTC -* Number of recursive dependencies: 145 +* Number of recursive dependencies: 148 Run `revdepcheck::cloud_details(, "BCClong")` for more info @@ -733,11 +793,11 @@ Run `revdepcheck::cloud_details(, "BCClong")` for more info ** package ‘BCClong’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BCClong.so BCC.o Likelihood.o RcppExports.o c_which.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR ... ** R @@ -760,11 +820,11 @@ ERROR: lazy loading failed for package ‘BCClong’ ** package ‘BCClong’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c BCC.cpp -o BCC.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Likelihood.cpp -o Likelihood.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c c_which.cpp -o c_which.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BCClong.so BCC.o Likelihood.o RcppExports.o c_which.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR ... ** R @@ -784,11 +844,11 @@ ERROR: lazy loading failed for package ‘BCClong’
-* Version: 2.1.3 +* Version: 2.1.5 * GitHub: https://github.com/donaldRwilliams/BGGM * Source code: https://github.com/cran/BGGM -* Date/Publication: 2024-07-05 20:30:02 UTC -* Number of recursive dependencies: 209 +* Date/Publication: 2024-12-22 21:40:02 UTC +* Number of recursive dependencies: 211 Run `revdepcheck::cloud_details(, "BGGM")` for more info @@ -810,13 +870,13 @@ Run `revdepcheck::cloud_details(, "BGGM")` for more info * installing *source* package ‘BGGM’ ... ** package ‘BGGM’ successfully unpacked and MD5 sums checked ** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C++ compiler... yes -checking whether g++ -std=gnu++17 accepts -g... yes +configure: creating ./config.status +config.status: creating src/Makevars +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c bggm_fast.cpp -o bggm_fast.o ... ** data *** moving datasets to lazyload DB @@ -837,13 +897,13 @@ ERROR: lazy loading failed for package ‘BGGM’ * installing *source* package ‘BGGM’ ... ** package ‘BGGM’ successfully unpacked and MD5 sums checked ** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether we are using the GNU C++ compiler... yes -checking whether g++ -std=gnu++17 accepts -g... yes +configure: creating ./config.status +config.status: creating src/Makevars +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_NO_DEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppDist/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -I../inst/include -fpic -g -O2 -c bggm_fast.cpp -o bggm_fast.o ... ** data *** moving datasets to lazyload DB @@ -920,11 +980,11 @@ ERROR: lazy loading failed for package ‘binsreg’
-* Version: 1.0.0 +* Version: 1.0.1 * GitHub: https://github.com/statjs/bspcov * Source code: https://github.com/cran/bspcov -* Date/Publication: 2024-02-06 16:50:08 UTC -* Number of recursive dependencies: 122 +* Date/Publication: 2024-11-13 20:10:02 UTC +* Number of recursive dependencies: 111 Run `revdepcheck::cloud_details(, "bspcov")` for more info @@ -978,26 +1038,26 @@ ERROR: lazy loading failed for package ‘bspcov’ ``` -# bsub +# BSTZINB
-* Version: 1.1.0 -* GitHub: https://github.com/jokergoo/bsub -* Source code: https://github.com/cran/bsub -* Date/Publication: 2021-07-01 15:50:10 UTC -* Number of recursive dependencies: 79 +* Version: 1.0.1 +* GitHub: https://github.com/SumanM47/BSTZINB +* Source code: https://github.com/cran/BSTZINB +* Date/Publication: 2024-10-31 22:50:02 UTC +* Number of recursive dependencies: 110 -Run `revdepcheck::cloud_details(, "bsub")` for more info +Run `revdepcheck::cloud_details(, "BSTZINB")` for more info
## In both -* checking whether package ‘bsub’ can be installed ... ERROR +* checking whether package ‘BSTZINB’ can be installed ... ERROR ``` Installation failed. - See ‘/tmp/workdir/bsub/new/bsub.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/BSTZINB/new/BSTZINB.Rcheck/00install.out’ for details. ``` ## Installation @@ -1005,36 +1065,40 @@ Run `revdepcheck::cloud_details(, "bsub")` for more info ### Devel ``` -* installing *source* package ‘bsub’ ... -** package ‘bsub’ successfully unpacked and MD5 sums checked +* installing *source* package ‘BSTZINB’ ... +** package ‘BSTZINB’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rjson’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace Execution halted -ERROR: lazy loading failed for package ‘bsub’ -* removing ‘/tmp/workdir/bsub/new/bsub.Rcheck/bsub’ +ERROR: lazy loading failed for package ‘BSTZINB’ +* removing ‘/tmp/workdir/BSTZINB/new/BSTZINB.Rcheck/BSTZINB’ ``` ### CRAN ``` -* installing *source* package ‘bsub’ ... -** package ‘bsub’ successfully unpacked and MD5 sums checked +* installing *source* package ‘BSTZINB’ ... +** package ‘BSTZINB’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rjson’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace Execution halted -ERROR: lazy loading failed for package ‘bsub’ -* removing ‘/tmp/workdir/bsub/old/bsub.Rcheck/bsub’ +ERROR: lazy loading failed for package ‘BSTZINB’ +* removing ‘/tmp/workdir/BSTZINB/old/BSTZINB.Rcheck/BSTZINB’ ``` @@ -1042,81 +1106,155 @@ ERROR: lazy loading failed for package ‘bsub’
-* Version: 3.0.4 +* Version: 3.0.5 * GitHub: https://github.com/bozenne/BuyseTest * Source code: https://github.com/cran/BuyseTest -* Date/Publication: 2024-07-01 09:20:02 UTC -* Number of recursive dependencies: 133 +* Date/Publication: 2024-10-13 21:40:02 UTC +* Number of recursive dependencies: 132 Run `revdepcheck::cloud_details(, "BuyseTest")` for more info
-## In both - -* checking whether package ‘BuyseTest’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/BuyseTest/new/BuyseTest.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘BuyseTest’ ... -** package ‘BuyseTest’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_buyseTest.cpp -o FCT_buyseTest.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_precompute.cpp -o FCT_precompute.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c utils-from-riskRegression.cpp -o utils-from-riskRegression.o -g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BuyseTest.so FCT_buyseTest.o FCT_precompute.o RcppExports.o utils-from-riskRegression.o -L/opt/R/4.3.1/lib/R/lib -lR +* using log directory ‘/tmp/workdir/BuyseTest/new/BuyseTest.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘BuyseTest/DESCRIPTION’ ... OK ... -installing to /tmp/workdir/BuyseTest/new/BuyseTest.Rcheck/00LOCK-BuyseTest/00new/BuyseTest/libs -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Error: unable to load R code in package ‘BuyseTest’ -Execution halted -ERROR: lazy loading failed for package ‘BuyseTest’ -* removing ‘/tmp/workdir/BuyseTest/new/BuyseTest.Rcheck/BuyseTest’ +* this is package ‘BuyseTest’ version ‘3.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` ### CRAN ``` -* installing *source* package ‘BuyseTest’ ... -** package ‘BuyseTest’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_buyseTest.cpp -o FCT_buyseTest.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c FCT_precompute.cpp -o FCT_precompute.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c utils-from-riskRegression.cpp -o utils-from-riskRegression.o -g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o BuyseTest.so FCT_buyseTest.o FCT_precompute.o RcppExports.o utils-from-riskRegression.o -L/opt/R/4.3.1/lib/R/lib -lR +* using log directory ‘/tmp/workdir/BuyseTest/old/BuyseTest.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘BuyseTest/DESCRIPTION’ ... OK ... -installing to /tmp/workdir/BuyseTest/old/BuyseTest.Rcheck/00LOCK-BuyseTest/00new/BuyseTest/libs -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Error: unable to load R code in package ‘BuyseTest’ -Execution halted -ERROR: lazy loading failed for package ‘BuyseTest’ -* removing ‘/tmp/workdir/BuyseTest/old/BuyseTest.Rcheck/BuyseTest’ +* this is package ‘BuyseTest’ version ‘3.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -``` -# CARBayesST + + + + +``` +# CAESAR.Suite + +
+ +* Version: 0.1.0 +* GitHub: https://github.com/XiaoZhangryy/CAESAR.Suite +* Source code: https://github.com/cran/CAESAR.Suite +* Date/Publication: 2024-09-16 14:20:06 UTC +* Number of recursive dependencies: 269 + +Run `revdepcheck::cloud_details(, "CAESAR.Suite")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/CAESAR.Suite/new/CAESAR.Suite.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘CAESAR.Suite/DESCRIPTION’ ... OK +... +* this is package ‘CAESAR.Suite’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ProFAST’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/CAESAR.Suite/old/CAESAR.Suite.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘CAESAR.Suite/DESCRIPTION’ ... OK +... +* this is package ‘CAESAR.Suite’ version ‘0.1.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘ProFAST’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +# CARBayesST
@@ -1124,7 +1262,7 @@ ERROR: lazy loading failed for package ‘BuyseTest’ * GitHub: https://github.com/duncanplee/CARBayesST * Source code: https://github.com/cran/CARBayesST * Date/Publication: 2023-10-30 16:40:02 UTC -* Number of recursive dependencies: 118 +* Number of recursive dependencies: 106 Run `revdepcheck::cloud_details(, "CARBayesST")` for more info @@ -1147,9 +1285,9 @@ Run `revdepcheck::cloud_details(, "CARBayesST")` for more info ** package ‘CARBayesST’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o CARBayesST.so CARBayesST.o RcppExports.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/CARBayesST/new/CARBayesST.Rcheck/00LOCK-CARBayesST/00new/CARBayesST/libs ** R @@ -1171,9 +1309,9 @@ ERROR: lazy loading failed for package ‘CARBayesST’ ** package ‘CARBayesST’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CARBayesST.cpp -o CARBayesST.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o CARBayesST.so CARBayesST.o RcppExports.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/CARBayesST/old/CARBayesST.Rcheck/00LOCK-CARBayesST/00new/CARBayesST/libs ** R @@ -1187,6 +1325,66 @@ ERROR: lazy loading failed for package ‘CARBayesST’ * removing ‘/tmp/workdir/CARBayesST/old/CARBayesST.Rcheck/CARBayesST’ +``` +# Certara.VPCResults + +
+ +* Version: 3.0.2 +* GitHub: NA +* Source code: https://github.com/cran/Certara.VPCResults +* Date/Publication: 2024-12-02 15:30:02 UTC +* Number of recursive dependencies: 141 + +Run `revdepcheck::cloud_details(, "Certara.VPCResults")` for more info + +
+ +## In both + +* checking whether package ‘Certara.VPCResults’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/Certara.VPCResults/new/Certara.VPCResults.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘Certara.VPCResults’ ... +** package ‘Certara.VPCResults’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘Certara.VPCResults’ +* removing ‘/tmp/workdir/Certara.VPCResults/new/Certara.VPCResults.Rcheck/Certara.VPCResults’ + + +``` +### CRAN + +``` +* installing *source* package ‘Certara.VPCResults’ ... +** package ‘Certara.VPCResults’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘Certara.VPCResults’ +* removing ‘/tmp/workdir/Certara.VPCResults/old/Certara.VPCResults.Rcheck/Certara.VPCResults’ + + ``` # CGPfunctions @@ -1196,7 +1394,7 @@ ERROR: lazy loading failed for package ‘CARBayesST’ * GitHub: https://github.com/ibecav/CGPfunctions * Source code: https://github.com/cran/CGPfunctions * Date/Publication: 2020-11-12 14:50:09 UTC -* Number of recursive dependencies: 148 +* Number of recursive dependencies: 155 Run `revdepcheck::cloud_details(, "CGPfunctions")` for more info @@ -1252,17 +1450,16 @@ ERROR: lazy loading failed for package ‘CGPfunctions’ ``` -# chemodiv +# cia
-* Version: 0.3.0 -* GitHub: https://github.com/hpetren/chemodiv -* Source code: https://github.com/cran/chemodiv -* Date/Publication: 2023-08-17 17:52:33 UTC -* Number of recursive dependencies: 170 +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/cia +* Number of recursive dependencies: 122 -Run `revdepcheck::cloud_details(, "chemodiv")` for more info +Run `revdepcheck::cloud_details(, "cia")` for more info
@@ -1271,27 +1468,7 @@ Run `revdepcheck::cloud_details(, "chemodiv")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/chemodiv/new/chemodiv.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘chemodiv/DESCRIPTION’ ... OK -... -* this is package ‘chemodiv’ version ‘0.3.0’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'fmcsR', 'ChemmineR' -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR @@ -1301,27 +1478,7 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/chemodiv/old/chemodiv.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘chemodiv/DESCRIPTION’ ... OK -... -* this is package ‘chemodiv’ version ‘0.3.0’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'fmcsR', 'ChemmineR' -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR @@ -1336,7 +1493,7 @@ Status: 1 ERROR * GitHub: https://github.com/eonurk/cinaR * Source code: https://github.com/cran/cinaR * Date/Publication: 2022-05-18 14:00:09 UTC -* Number of recursive dependencies: 177 +* Number of recursive dependencies: 171 Run `revdepcheck::cloud_details(, "cinaR")` for more info @@ -1351,18 +1508,18 @@ Run `revdepcheck::cloud_details(, "cinaR")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘cinaR/DESCRIPTION’ ... OK ... +* this is package ‘cinaR’ version ‘0.2.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: - 'ChIPseeker', 'TxDb.Hsapiens.UCSC.hg38.knownGene', - 'TxDb.Hsapiens.UCSC.hg19.knownGene', - 'TxDb.Mmusculus.UCSC.mm10.knownGene' +Packages required but not available: 'ChIPseeker', 'fgsea' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -1381,18 +1538,18 @@ Status: 1 ERROR * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘cinaR/DESCRIPTION’ ... OK ... +* this is package ‘cinaR’ version ‘0.2.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: - 'ChIPseeker', 'TxDb.Hsapiens.UCSC.hg38.knownGene', - 'TxDb.Hsapiens.UCSC.hg19.knownGene', - 'TxDb.Mmusculus.UCSC.mm10.knownGene' +Packages required but not available: 'ChIPseeker', 'fgsea' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -1465,91 +1622,15 @@ ERROR: lazy loading failed for package ‘cmprskcoxmsm’ * removing ‘/tmp/workdir/cmprskcoxmsm/old/cmprskcoxmsm.Rcheck/cmprskcoxmsm’ -``` -# CNVScope - -
- -* Version: 3.7.2 -* GitHub: https://github.com/jamesdalg/CNVScope -* Source code: https://github.com/cran/CNVScope -* Date/Publication: 2022-03-30 23:40:08 UTC -* Number of recursive dependencies: 206 - -Run `revdepcheck::cloud_details(, "CNVScope")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/CNVScope/new/CNVScope.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘CNVScope/DESCRIPTION’ ... OK -... -Packages required but not available: 'GenomicInteractions', 'rtracklayer' - -Packages suggested but not available for checking: - 'ComplexHeatmap', 'HiCseg', 'GenomicFeatures', - 'BSgenome.Hsapiens.UCSC.hg19' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/CNVScope/old/CNVScope.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘CNVScope/DESCRIPTION’ ... OK -... -Packages required but not available: 'GenomicInteractions', 'rtracklayer' - -Packages suggested but not available for checking: - 'ComplexHeatmap', 'HiCseg', 'GenomicFeatures', - 'BSgenome.Hsapiens.UCSC.hg19' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - ``` # COMMA
-* Version: 1.0.0 +* Version: 1.1.1 * GitHub: NA * Source code: https://github.com/cran/COMMA -* Date/Publication: 2024-07-21 10:10:05 UTC +* Date/Publication: 2024-12-13 21:10:02 UTC * Number of recursive dependencies: 72 Run `revdepcheck::cloud_details(, "COMMA")` for more info @@ -1573,6 +1654,8 @@ Run `revdepcheck::cloud_details(, "COMMA")` for more info ** package ‘COMMA’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : @@ -1591,6 +1674,8 @@ ERROR: lazy loading failed for package ‘COMMA’ ** package ‘COMMA’ successfully unpacked and MD5 sums checked ** using staged installation ** R +** data +*** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : @@ -1602,17 +1687,17 @@ ERROR: lazy loading failed for package ‘COMMA’ ``` -# conos +# contsurvplot
-* Version: 1.5.2 -* GitHub: https://github.com/kharchenkolab/conos -* Source code: https://github.com/cran/conos -* Date/Publication: 2024-02-26 19:30:05 UTC -* Number of recursive dependencies: 240 +* Version: 0.2.1 +* GitHub: https://github.com/RobinDenz1/contsurvplot +* Source code: https://github.com/cran/contsurvplot +* Date/Publication: 2023-08-15 08:00:03 UTC +* Number of recursive dependencies: 156 -Run `revdepcheck::cloud_details(, "conos")` for more info +Run `revdepcheck::cloud_details(, "contsurvplot")` for more info
@@ -1621,22 +1706,22 @@ Run `revdepcheck::cloud_details(, "conos")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/conos/new/conos.Rcheck’ +* using log directory ‘/tmp/workdir/contsurvplot/new/contsurvplot.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘conos/DESCRIPTION’ ... OK +* checking for file ‘contsurvplot/DESCRIPTION’ ... OK ... +* this is package ‘contsurvplot’ version ‘0.2.1’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Package required but not available: ‘ComplexHeatmap’ - -Package suggested but not available for checking: ‘pagoda2’ +Package required but not available: ‘riskRegression’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -1651,22 +1736,22 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/conos/old/conos.Rcheck’ +* using log directory ‘/tmp/workdir/contsurvplot/old/contsurvplot.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘conos/DESCRIPTION’ ... OK +* checking for file ‘contsurvplot/DESCRIPTION’ ... OK ... +* this is package ‘contsurvplot’ version ‘0.2.1’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Package required but not available: ‘ComplexHeatmap’ - -Package suggested but not available for checking: ‘pagoda2’ +Package required but not available: ‘riskRegression’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -1682,11 +1767,11 @@ Status: 1 ERROR
-* Version: 0.1.4 +* Version: 0.1.6 * GitHub: https://github.com/dandls/counterfactuals * Source code: https://github.com/cran/counterfactuals -* Date/Publication: 2024-05-14 19:00:02 UTC -* Number of recursive dependencies: 227 +* Date/Publication: 2024-10-17 12:00:06 UTC +* Number of recursive dependencies: 217 Run `revdepcheck::cloud_details(, "counterfactuals")` for more info @@ -1701,9 +1786,9 @@ Run `revdepcheck::cloud_details(, "counterfactuals")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘counterfactuals/DESCRIPTION’ ... OK @@ -1731,9 +1816,9 @@ Status: 1 NOTE * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘counterfactuals/DESCRIPTION’ ... OK @@ -1758,89 +1843,151 @@ Status: 1 NOTE
-* Version: 0.3.0 +* Version: 0.3.2 * GitHub: https://github.com/khodosevichlab/CRMetrics * Source code: https://github.com/cran/CRMetrics -* Date/Publication: 2023-09-01 09:00:06 UTC -* Number of recursive dependencies: 239 +* Date/Publication: 2024-11-08 00:20:06 UTC +* Number of recursive dependencies: 242 Run `revdepcheck::cloud_details(, "CRMetrics")` for more info
-## Error before installation - -### Devel +## In both -``` -* using log directory ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘CRMetrics/DESCRIPTION’ ... OK -... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘CRMetrics’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE +* checking whether package ‘CRMetrics’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck/00install.out’ for details. + ``` +## Installation +### Devel +``` +* installing *source* package ‘CRMetrics’ ... +** package ‘CRMetrics’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘CRMetrics’ +* removing ‘/tmp/workdir/CRMetrics/new/CRMetrics.Rcheck/CRMetrics’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/CRMetrics/old/CRMetrics.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘CRMetrics/DESCRIPTION’ ... OK -... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘CRMetrics’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/CRMetrics/old/CRMetrics.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE +* installing *source* package ‘CRMetrics’ ... +** package ‘CRMetrics’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘CRMetrics’ +* removing ‘/tmp/workdir/CRMetrics/old/CRMetrics.Rcheck/CRMetrics’ +``` +# ctsem +
+* Version: 3.10.2 +* GitHub: https://github.com/cdriveraus/ctsem +* Source code: https://github.com/cran/ctsem +* Date/Publication: 2025-01-13 11:00:08 UTC +* Number of recursive dependencies: 160 + +Run `revdepcheck::cloud_details(, "ctsem")` for more info + +
+ +## In both + +* checking whether package ‘ctsem’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel ``` -# crosstalkr +* installing *source* package ‘ctsem’ ... +** package ‘ctsem’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 + + +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +... +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +g++: fatal error: Killed signal terminated program cc1plus +compilation terminated. +make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1 +ERROR: compilation failed for package ‘ctsem’ +* removing ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/ctsem’ + + +``` +### CRAN + +``` +* installing *source* package ‘ctsem’ ... +** package ‘ctsem’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 + + +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +... +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] + 654 | return internal::first_aligned::alignment),Derived>(m); + | ^~~~~~~~~ +g++: fatal error: Killed signal terminated program cc1plus +compilation terminated. +make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1 +ERROR: compilation failed for package ‘ctsem’ +* removing ‘/tmp/workdir/ctsem/old/ctsem.Rcheck/ctsem’ + + +``` +# dartR.base
-* Version: 1.0.5 +* Version: 0.98 * GitHub: NA -* Source code: https://github.com/cran/crosstalkr -* Date/Publication: 2024-05-17 11:40:09 UTC -* Number of recursive dependencies: 164 +* Source code: https://github.com/cran/dartR.base +* Date/Publication: 2024-09-19 13:20:02 UTC +* Number of recursive dependencies: 288 -Run `revdepcheck::cloud_details(, "crosstalkr")` for more info +Run `revdepcheck::cloud_details(, "dartR.base")` for more info
@@ -1849,22 +1996,22 @@ Run `revdepcheck::cloud_details(, "crosstalkr")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/crosstalkr/new/crosstalkr.Rcheck’ +* using log directory ‘/tmp/workdir/dartR.base/new/dartR.base.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘crosstalkr/DESCRIPTION’ ... OK +* checking for file ‘dartR.base/DESCRIPTION’ ... OK ... +* this is package ‘dartR.base’ version ‘0.98’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Package required but not available: ‘ensembldb’ - -Package suggested but not available for checking: ‘EnsDb.Hsapiens.v86’ +Package required but not available: ‘SNPassoc’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -1879,22 +2026,98 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/crosstalkr/old/crosstalkr.Rcheck’ +* using log directory ‘/tmp/workdir/dartR.base/old/dartR.base.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.base/DESCRIPTION’ ... OK +... +* this is package ‘dartR.base’ version ‘0.98’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘SNPassoc’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +# dartR.captive + +
+ +* Version: 0.75 +* GitHub: NA +* Source code: https://github.com/cran/dartR.captive +* Date/Publication: 2023-11-27 17:10:09 UTC +* Number of recursive dependencies: 152 + +Run `revdepcheck::cloud_details(, "dartR.captive")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/dartR.captive/new/dartR.captive.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘crosstalkr/DESCRIPTION’ ... OK +* checking for file ‘dartR.captive/DESCRIPTION’ ... OK ... +* this is package ‘dartR.captive’ version ‘0.75’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Package required but not available: ‘ensembldb’ +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -Package suggested but not available for checking: ‘EnsDb.Hsapiens.v86’ + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/dartR.captive/old/dartR.captive.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.captive/DESCRIPTION’ ... OK +... +* this is package ‘dartR.captive’ version ‘0.75’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -1906,81 +2129,307 @@ Status: 1 ERROR ``` -# ctsem +# dartR.popgen
-* Version: 3.10.1 -* GitHub: https://github.com/cdriveraus/ctsem -* Source code: https://github.com/cran/ctsem -* Date/Publication: 2024-08-19 14:40:06 UTC -* Number of recursive dependencies: 158 +* Version: 1.0.0 +* GitHub: NA +* Source code: https://github.com/cran/dartR.popgen +* Date/Publication: 2024-06-27 23:20:04 UTC +* Number of recursive dependencies: 175 -Run `revdepcheck::cloud_details(, "ctsem")` for more info +Run `revdepcheck::cloud_details(, "dartR.popgen")` for more info
-## In both +## Error before installation -* checking whether package ‘ctsem’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/00install.out’ for details. - ``` +### Devel -## Installation +``` +* using log directory ‘/tmp/workdir/dartR.popgen/new/dartR.popgen.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.popgen/DESCRIPTION’ ... OK +... +* this is package ‘dartR.popgen’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/dartR.popgen/old/dartR.popgen.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.popgen/DESCRIPTION’ ... OK +... +* this is package ‘dartR.popgen’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +# dartR.sexlinked + +
+ +* Version: 1.0.5 +* GitHub: NA +* Source code: https://github.com/cran/dartR.sexlinked +* Date/Publication: 2024-06-24 15:40:02 UTC +* Number of recursive dependencies: 120 + +Run `revdepcheck::cloud_details(, "dartR.sexlinked")` for more info + +
+ +## Error before installation ### Devel ``` -* installing *source* package ‘ctsem’ ... -** package ‘ctsem’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++17 +* using log directory ‘/tmp/workdir/dartR.sexlinked/new/dartR.sexlinked.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.sexlinked/DESCRIPTION’ ... OK +... +* this is package ‘dartR.sexlinked’ version ‘1.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205, + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/dartR.sexlinked/old/dartR.sexlinked.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.sexlinked/DESCRIPTION’ ... OK ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] - 654 | return internal::first_aligned::alignment),Derived>(m); - | ^~~~~~~~~ -g++: fatal error: Killed signal terminated program cc1plus -compilation terminated. -make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1 -ERROR: compilation failed for package ‘ctsem’ -* removing ‘/tmp/workdir/ctsem/new/ctsem.Rcheck/ctsem’ +* this is package ‘dartR.sexlinked’ version ‘1.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +# dartR.sim + +
+ +* Version: 0.70 +* GitHub: https://github.com/green-striped-gecko/dartR.sim +* Source code: https://github.com/cran/dartR.sim +* Date/Publication: 2023-11-20 19:30:02 UTC +* Number of recursive dependencies: 133 + +Run `revdepcheck::cloud_details(, "dartR.sim")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/dartR.sim/new/dartR.sim.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.sim/DESCRIPTION’ ... OK +... +* this is package ‘dartR.sim’ version ‘0.70’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` ### CRAN ``` -* installing *source* package ‘ctsem’ ... -** package ‘ctsem’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++17 +* using log directory ‘/tmp/workdir/dartR.sim/old/dartR.sim.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.sim/DESCRIPTION’ ... OK +... +* this is package ‘dartR.sim’ version ‘0.70’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205, + +``` +# dartR.spatial + +
+ +* Version: 0.78 +* GitHub: NA +* Source code: https://github.com/cran/dartR.spatial +* Date/Publication: 2023-11-15 00:50:02 UTC +* Number of recursive dependencies: 168 + +Run `revdepcheck::cloud_details(, "dartR.spatial")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/dartR.spatial/new/dartR.spatial.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.spatial/DESCRIPTION’ ... OK ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ctsm_namespace::model_ctsm; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] - 654 | return internal::first_aligned::alignment),Derived>(m); - | ^~~~~~~~~ -g++: fatal error: Killed signal terminated program cc1plus -compilation terminated. -make: *** [/opt/R/4.3.1/lib/R/etc/Makeconf:198: stanExports_ctsm.o] Error 1 -ERROR: compilation failed for package ‘ctsem’ -* removing ‘/tmp/workdir/ctsem/old/ctsem.Rcheck/ctsem’ +* this is package ‘dartR.spatial’ version ‘0.78’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/dartR.spatial/old/dartR.spatial.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dartR.spatial/DESCRIPTION’ ... OK +... +* this is package ‘dartR.spatial’ version ‘0.78’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘dartR.base’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` @@ -1992,7 +2441,7 @@ ERROR: compilation failed for package ‘ctsem’ * GitHub: https://github.com/zzawadz/DepthProc * Source code: https://github.com/cran/DepthProc * Date/Publication: 2022-02-03 20:30:02 UTC -* Number of recursive dependencies: 134 +* Number of recursive dependencies: 133 Run `revdepcheck::cloud_details(, "DepthProc")` for more info @@ -2015,12 +2464,12 @@ Run `revdepcheck::cloud_details(, "DepthProc")` for more info ** package ‘DepthProc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o ... installing to /tmp/workdir/DepthProc/new/DepthProc.Rcheck/00LOCK-DepthProc/00new/DepthProc/libs ** R @@ -2042,12 +2491,12 @@ ERROR: lazy loading failed for package ‘DepthProc’ ** package ‘DepthProc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Depth.cpp -o Depth.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationEstimators.cpp -o LocationEstimators.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepth.cpp -o LocationScaleDepth.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c LocationScaleDepthCPP.cpp -o LocationScaleDepthCPP.o ... installing to /tmp/workdir/DepthProc/old/DepthProc.Rcheck/00LOCK-DepthProc/00new/DepthProc/libs ** R @@ -2061,6 +2510,82 @@ ERROR: lazy loading failed for package ‘DepthProc’ * removing ‘/tmp/workdir/DepthProc/old/DepthProc.Rcheck/DepthProc’ +``` +# DFD + +
+ +* Version: 0.2.0 +* GitHub: https://github.com/MohmedSoudy/DFD +* Source code: https://github.com/cran/DFD +* Date/Publication: 2024-08-28 18:20:02 UTC +* Number of recursive dependencies: 207 + +Run `revdepcheck::cloud_details(, "DFD")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/DFD/new/DFD.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘DFD/DESCRIPTION’ ... OK +... +* this is package ‘DFD’ version ‘0.2.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘signatureSearch’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/DFD/old/DFD.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘DFD/DESCRIPTION’ ... OK +... +* this is package ‘DFD’ version ‘0.2.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘signatureSearch’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` # DR.SC @@ -2093,12 +2618,12 @@ Run `revdepcheck::cloud_details(, "DR.SC")` for more info ** package ‘DR.SC’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o ... ** R ** data @@ -2120,12 +2645,12 @@ ERROR: lazy loading failed for package ‘DR.SC’ ** package ‘DR.SC’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c getNB_fast.cpp -o getNB_fast.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job.cpp -o mt_paral_job.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -DARMA_64BIT_WORD -fpic -g -O2 -c mt_paral_job2.cpp -o mt_paral_job2.o ... ** R ** data @@ -2139,16 +2664,127 @@ ERROR: lazy loading failed for package ‘DR.SC’ * removing ‘/tmp/workdir/DR.SC/old/DR.SC.Rcheck/DR.SC’ +``` +# dscoreMSM + +
+ +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/dscoreMSM +* Date/Publication: 2024-12-13 16:40:02 UTC +* Number of recursive dependencies: 121 + +Run `revdepcheck::cloud_details(, "dscoreMSM")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/dscoreMSM/new/dscoreMSM.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dscoreMSM/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘dscoreMSM.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/dscoreMSM/old/dscoreMSM.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘dscoreMSM/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘dscoreMSM.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +# DynForest + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/DynForest +* Number of recursive dependencies: 143 + +Run `revdepcheck::cloud_details(, "DynForest")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + ``` # easybgm
-* Version: 0.1.2 +* Version: 0.2.1 * GitHub: https://github.com/KarolineHuth/easybgm * Source code: https://github.com/cran/easybgm -* Date/Publication: 2024-03-13 13:40:02 UTC -* Number of recursive dependencies: 175 +* Date/Publication: 2024-10-17 08:30:02 UTC +* Number of recursive dependencies: 180 Run `revdepcheck::cloud_details(, "easybgm")` for more info @@ -2206,7 +2842,7 @@ ERROR: lazy loading failed for package ‘easybgm’ * GitHub: https://github.com/CefasRepRes/EcoEnsemble * Source code: https://github.com/cran/EcoEnsemble * Date/Publication: 2024-08-19 17:20:06 UTC -* Number of recursive dependencies: 91 +* Number of recursive dependencies: 90 Run `revdepcheck::cloud_details(, "EcoEnsemble")` for more info @@ -2229,16 +2865,16 @@ Run `revdepcheck::cloud_details(, "EcoEnsemble")` for more info ** package ‘EcoEnsemble’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o -In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ g++: fatal error: Killed signal terminated program cc1plus @@ -2256,16 +2892,16 @@ ERROR: compilation failed for package ‘EcoEnsemble’ ** package ‘EcoEnsemble’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o -In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c KF_back.cpp -o KF_back.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_ensemble_model_hierarchical_namespace::model_ensemble_model_hierarchical; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ g++: fatal error: Killed signal terminated program cc1plus @@ -2284,7 +2920,7 @@ ERROR: compilation failed for package ‘EcoEnsemble’ * GitHub: https://github.com/frmunoz/ecolottery * Source code: https://github.com/cran/ecolottery * Date/Publication: 2017-07-03 11:01:29 UTC -* Number of recursive dependencies: 88 +* Number of recursive dependencies: 87 Run `revdepcheck::cloud_details(, "ecolottery")` for more info @@ -2335,82 +2971,6 @@ ERROR: lazy loading failed for package ‘ecolottery’ * removing ‘/tmp/workdir/ecolottery/old/ecolottery.Rcheck/ecolottery’ -``` -# EMAS - -
- -* Version: 0.2.2 -* GitHub: NA -* Source code: https://github.com/cran/EMAS -* Date/Publication: 2022-08-11 13:50:07 UTC -* Number of recursive dependencies: 186 - -Run `revdepcheck::cloud_details(, "EMAS")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/EMAS/new/EMAS.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘EMAS/DESCRIPTION’ ... OK -... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: - 'minfi', 'IlluminaHumanMethylationEPICanno.ilm10b4.hg19', - 'IlluminaHumanMethylation450kanno.ilmn12.hg19' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/EMAS/old/EMAS.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘EMAS/DESCRIPTION’ ... OK -... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: - 'minfi', 'IlluminaHumanMethylationEPICanno.ilm10b4.hg19', - 'IlluminaHumanMethylation450kanno.ilmn12.hg19' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - ``` # EpiEstim @@ -2420,7 +2980,7 @@ Status: 1 ERROR * GitHub: https://github.com/mrc-ide/EpiEstim * Source code: https://github.com/cran/EpiEstim * Date/Publication: 2021-01-07 16:20:10 UTC -* Number of recursive dependencies: 91 +* Number of recursive dependencies: 90 Run `revdepcheck::cloud_details(, "EpiEstim")` for more info @@ -2473,6 +3033,84 @@ ERROR: lazy loading failed for package ‘EpiEstim’ * removing ‘/tmp/workdir/EpiEstim/old/EpiEstim.Rcheck/EpiEstim’ +``` +# EpiNow2 + +
+ +* Version: 1.6.1 +* GitHub: https://github.com/epiforecasts/EpiNow2 +* Source code: https://github.com/cran/EpiNow2 +* Date/Publication: 2024-10-31 14:40:02 UTC +* Number of recursive dependencies: 131 + +Run `revdepcheck::cloud_details(, "EpiNow2")` for more info + +
+ +## In both + +* checking whether package ‘EpiNow2’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘EpiNow2’ ... +** package ‘EpiNow2’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 + + +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +... +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o EpiNow2.so RcppExports.o stanExports_dist_fit.o stanExports_estimate_infections.o stanExports_estimate_secondary.o stanExports_estimate_truncation.o stanExports_simulate_infections.o stanExports_simulate_secondary.o -L/usr/local/lib/R/site-library/RcppParallel/lib/ -Wl,-rpath,/usr/local/lib/R/site-library/RcppParallel/lib/ -ltbb -ltbbmalloc -L/opt/R/4.3.1/lib/R/lib -lR +/usr/bin/ld: stanExports_estimate_infections.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_estimate_secondary.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_estimate_truncation.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_truncation.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_simulate_infections.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_simulate_secondary.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +collect2: error: ld returned 1 exit status +make: *** [/opt/R/4.3.1/lib/R/share/make/shlib.mk:10: EpiNow2.so] Error 1 +ERROR: compilation failed for package ‘EpiNow2’ +* removing ‘/tmp/workdir/EpiNow2/new/EpiNow2.Rcheck/EpiNow2’ + + +``` +### CRAN + +``` +* installing *source* package ‘EpiNow2’ ... +** package ‘EpiNow2’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 + + +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +... +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o EpiNow2.so RcppExports.o stanExports_dist_fit.o stanExports_estimate_infections.o stanExports_estimate_secondary.o stanExports_estimate_truncation.o stanExports_simulate_infections.o stanExports_simulate_secondary.o -L/usr/local/lib/R/site-library/RcppParallel/lib/ -Wl,-rpath,/usr/local/lib/R/site-library/RcppParallel/lib/ -ltbb -ltbbmalloc -L/opt/R/4.3.1/lib/R/lib -lR +/usr/bin/ld: stanExports_estimate_infections.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_estimate_secondary.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_estimate_truncation.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_estimate_truncation.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_simulate_infections.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_infections.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +/usr/bin/ld: stanExports_simulate_secondary.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_simulate_secondary.h:29: multiple definition of `model_dist_fit_model_namespace::profiles__[abi:cxx11]'; stanExports_dist_fit.o:/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/00_pkg_src/EpiNow2/src/stanExports_dist_fit.h:29: first defined here +collect2: error: ld returned 1 exit status +make: *** [/opt/R/4.3.1/lib/R/share/make/shlib.mk:10: EpiNow2.so] Error 1 +ERROR: compilation failed for package ‘EpiNow2’ +* removing ‘/tmp/workdir/EpiNow2/old/EpiNow2.Rcheck/EpiNow2’ + + ``` # evolqg @@ -2482,7 +3120,7 @@ ERROR: lazy loading failed for package ‘EpiEstim’ * GitHub: https://github.com/lem-usp/evolqg * Source code: https://github.com/cran/evolqg * Date/Publication: 2023-12-05 15:20:12 UTC -* Number of recursive dependencies: 111 +* Number of recursive dependencies: 110 Run `revdepcheck::cloud_details(, "evolqg")` for more info @@ -2505,9 +3143,9 @@ Run `revdepcheck::cloud_details(, "evolqg")` for more info ** package ‘evolqg’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o evolqg.so RcppExports.o fast_RS.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/evolqg/new/evolqg.Rcheck/00LOCK-evolqg/00new/evolqg/libs ** R @@ -2525,39 +3163,75 @@ ERROR: lazy loading failed for package ‘evolqg’ ``` ### CRAN -``` -* installing *source* package ‘evolqg’ ... -** package ‘evolqg’ successfully unpacked and MD5 sums checked -** using staged installation -** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o -g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o evolqg.so RcppExports.o fast_RS.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR -installing to /tmp/workdir/evolqg/old/evolqg.Rcheck/00LOCK-evolqg/00new/evolqg/libs -** R -** data -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required -Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace -Execution halted -ERROR: lazy loading failed for package ‘evolqg’ -* removing ‘/tmp/workdir/evolqg/old/evolqg.Rcheck/evolqg’ +``` +* installing *source* package ‘evolqg’ ... +** package ‘evolqg’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c fast_RS.cpp -o fast_RS.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o evolqg.so RcppExports.o fast_RS.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/evolqg/old/evolqg.Rcheck/00LOCK-evolqg/00new/evolqg/libs +** R +** data +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘evolqg’ +* removing ‘/tmp/workdir/evolqg/old/evolqg.Rcheck/evolqg’ + + +``` +# EWSmethods + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/EWSmethods +* Number of recursive dependencies: 139 + +Run `revdepcheck::cloud_details(, "EWSmethods")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + ``` -# EWSmethods +# flexrsurv
-* Version: NA +* Version: 2.0.18 * GitHub: NA -* Source code: https://github.com/cran/EWSmethods -* Number of recursive dependencies: 140 +* Source code: https://github.com/cran/flexrsurv +* Date/Publication: 2024-02-09 16:10:02 UTC +* Number of recursive dependencies: 129 -Run `revdepcheck::cloud_details(, "EWSmethods")` for more info +Run `revdepcheck::cloud_details(, "flexrsurv")` for more info
@@ -2566,7 +3240,27 @@ Run `revdepcheck::cloud_details(, "EWSmethods")` for more info ### Devel ``` - +* using log directory ‘/tmp/workdir/flexrsurv/new/flexrsurv.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘flexrsurv/DESCRIPTION’ ... OK +... +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: OK @@ -2576,7 +3270,27 @@ Run `revdepcheck::cloud_details(, "EWSmethods")` for more info ### CRAN ``` - +* using log directory ‘/tmp/workdir/flexrsurv/old/flexrsurv.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘flexrsurv/DESCRIPTION’ ... OK +... +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: OK @@ -2626,7 +3340,7 @@ Run `revdepcheck::cloud_details(, "fmx")` for more info * GitHub: https://github.com/ceweiss/ForecastComb * Source code: https://github.com/cran/ForecastComb * Date/Publication: 2018-08-07 13:50:08 UTC -* Number of recursive dependencies: 74 +* Number of recursive dependencies: 73 Run `revdepcheck::cloud_details(, "ForecastComb")` for more info @@ -2679,82 +3393,6 @@ ERROR: lazy loading failed for package ‘ForecastComb’ * removing ‘/tmp/workdir/ForecastComb/old/ForecastComb.Rcheck/ForecastComb’ -``` -# GALLO - -
- -* Version: 1.5 -* GitHub: NA -* Source code: https://github.com/cran/GALLO -* Date/Publication: 2024-06-04 15:30:20 UTC -* Number of recursive dependencies: 142 - -Run `revdepcheck::cloud_details(, "GALLO")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/GALLO/new/GALLO.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘GALLO/DESCRIPTION’ ... OK -... -* this is package ‘GALLO’ version ‘1.5’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/GALLO/old/GALLO.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘GALLO/DESCRIPTION’ ... OK -... -* this is package ‘GALLO’ version ‘1.5’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - ``` # gap @@ -2764,7 +3402,7 @@ Status: 1 ERROR * GitHub: https://github.com/jinghuazhao/R * Source code: https://github.com/cran/gap * Date/Publication: 2024-08-27 04:40:06 UTC -* Number of recursive dependencies: 199 +* Number of recursive dependencies: 177 Run `revdepcheck::cloud_details(, "gap")` for more info @@ -2779,9 +3417,9 @@ Run `revdepcheck::cloud_details(, "gap")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘gap/DESCRIPTION’ ... OK @@ -2809,9 +3447,9 @@ Status: 4 NOTEs * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘gap/DESCRIPTION’ ... OK @@ -2840,7 +3478,7 @@ Status: 4 NOTEs * GitHub: https://github.com/florafauna/gapfill * Source code: https://github.com/cran/gapfill * Date/Publication: 2021-02-12 10:10:05 UTC -* Number of recursive dependencies: 71 +* Number of recursive dependencies: 70 Run `revdepcheck::cloud_details(, "gapfill")` for more info @@ -2869,9 +3507,9 @@ Run `revdepcheck::cloud_details(, "gapfill")` for more info ** package ‘gapfill’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o gapfill.so RcppExports.o gapfill.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/gapfill/new/gapfill.Rcheck/00LOCK-gapfill/00new/gapfill/libs ** R @@ -2896,9 +3534,9 @@ ERROR: lazy loading failed for package ‘gapfill’ ** package ‘gapfill’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c gapfill.cpp -o gapfill.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o gapfill.so RcppExports.o gapfill.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/gapfill/old/gapfill.Rcheck/00LOCK-gapfill/00new/gapfill/libs ** R @@ -2916,17 +3554,17 @@ ERROR: lazy loading failed for package ‘gapfill’ ``` -# geneHapR +# genekitr
-* Version: 1.2.4 -* GitHub: NA -* Source code: https://github.com/cran/geneHapR -* Date/Publication: 2024-03-01 14:32:40 UTC -* Number of recursive dependencies: 180 +* Version: 1.2.8 +* GitHub: https://github.com/GangLiLab/genekitr +* Source code: https://github.com/cran/genekitr +* Date/Publication: 2024-09-06 13:00:06 UTC +* Number of recursive dependencies: 199 -Run `revdepcheck::cloud_details(, "geneHapR")` for more info +Run `revdepcheck::cloud_details(, "genekitr")` for more info
@@ -2935,22 +3573,22 @@ Run `revdepcheck::cloud_details(, "geneHapR")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/geneHapR/new/geneHapR.Rcheck’ +* using log directory ‘/tmp/workdir/genekitr/new/genekitr.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘geneHapR/DESCRIPTION’ ... OK +* checking for file ‘genekitr/DESCRIPTION’ ... OK ... -* this is package ‘geneHapR’ version ‘1.2.4’ -* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ +Package required but not available: ‘clusterProfiler’ + +Package suggested but not available for checking: ‘fgsea’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -2965,22 +3603,22 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/geneHapR/old/geneHapR.Rcheck’ +* using log directory ‘/tmp/workdir/genekitr/old/genekitr.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘geneHapR/DESCRIPTION’ ... OK +* checking for file ‘genekitr/DESCRIPTION’ ... OK ... -* this is package ‘geneHapR’ version ‘1.2.4’ -* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ +Package required but not available: ‘clusterProfiler’ + +Package suggested but not available for checking: ‘fgsea’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -3000,7 +3638,7 @@ Status: 1 ERROR * GitHub: https://github.com/dzhakparov/GeneSelectR * Source code: https://github.com/cran/GeneSelectR * Date/Publication: 2024-02-03 14:00:05 UTC -* Number of recursive dependencies: 191 +* Number of recursive dependencies: 183 Run `revdepcheck::cloud_details(, "GeneSelectR")` for more info @@ -3015,9 +3653,9 @@ Run `revdepcheck::cloud_details(, "GeneSelectR")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘GeneSelectR/DESCRIPTION’ ... OK @@ -3045,9 +3683,9 @@ Status: 1 WARNING, 1 NOTE * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘GeneSelectR/DESCRIPTION’ ... OK @@ -3076,7 +3714,7 @@ Status: 1 WARNING, 1 NOTE * GitHub: https://github.com/ceweiss/GeomComb * Source code: https://github.com/cran/GeomComb * Date/Publication: 2016-11-27 16:02:26 -* Number of recursive dependencies: 75 +* Number of recursive dependencies: 74 Run `revdepcheck::cloud_details(, "GeomComb")` for more info @@ -3133,7 +3771,7 @@ ERROR: lazy loading failed for package ‘GeomComb’ * Version: NA * GitHub: NA * Source code: https://github.com/cran/geomorph -* Number of recursive dependencies: 72 +* Number of recursive dependencies: 71 Run `revdepcheck::cloud_details(, "geomorph")` for more info @@ -3160,6 +3798,197 @@ Run `revdepcheck::cloud_details(, "geomorph")` for more info +``` +# GeoTox + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/GeoTox +* Number of recursive dependencies: 143 + +Run `revdepcheck::cloud_details(, "GeoTox")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + +``` +# ggmosaic + +
+ +* Version: 0.3.3 +* GitHub: https://github.com/haleyjeppson/ggmosaic +* Source code: https://github.com/cran/ggmosaic +* Date/Publication: 2021-02-23 19:50:02 UTC +* Number of recursive dependencies: 76 + +Run `revdepcheck::cloud_details(, "ggmosaic")` for more info + +
+ +## Newly broken + +* checking whether package ‘ggmosaic’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/ggmosaic/new/ggmosaic.Rcheck/00install.out’ for details. + ``` + +## Newly fixed + +* checking dependencies in R code ... NOTE + ``` + ':::' call which should be '::': ‘scales:::censor’ + See the note in ?`:::` about the use of this operator. + Unexported object imported by a ':::' call: ‘productplots:::bound’ + See the note in ?`:::` about the use of this operator. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘ggmosaic’ ... +** package ‘ggmosaic’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in get(x, envir = ns, inherits = FALSE) : + object 'is.waive' not found +Error: unable to load R code in package ‘ggmosaic’ +Execution halted +ERROR: lazy loading failed for package ‘ggmosaic’ +* removing ‘/tmp/workdir/ggmosaic/new/ggmosaic.Rcheck/ggmosaic’ + + +``` +### CRAN + +``` +* installing *source* package ‘ggmosaic’ ... +** package ‘ggmosaic’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +*** copying figures +** building package indices +** installing vignettes +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (ggmosaic) + + +``` +# ggtern + +
+ +* Version: 3.5.0 +* GitHub: NA +* Source code: https://github.com/cran/ggtern +* Date/Publication: 2024-03-24 21:50:02 UTC +* Number of recursive dependencies: 42 + +Run `revdepcheck::cloud_details(, "ggtern")` for more info + +
+ +## Newly broken + +* checking whether package ‘ggtern’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/ggtern/new/ggtern.Rcheck/00install.out’ for details. + ``` + +## Newly fixed + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘chemometrics’ + ``` + +## In both + +* checking package dependencies ... NOTE + ``` + Package which this enhances but not available for checking: ‘sp’ + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘ggtern’ ... +** package ‘ggtern’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +** demo +** inst +** byte-compile and prepare package for lazy loading +Error in get(x, envir = ns, inherits = FALSE) : + object 'update_guides' not found +Error: unable to load R code in package ‘ggtern’ +Execution halted +ERROR: lazy loading failed for package ‘ggtern’ +* removing ‘/tmp/workdir/ggtern/new/ggtern.Rcheck/ggtern’ + + +``` +### CRAN + +``` +* installing *source* package ‘ggtern’ ... +** package ‘ggtern’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +** demo +** inst +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +** building package indices +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (ggtern) + + ``` # gJLS2 @@ -3224,6 +4053,158 @@ ERROR: lazy loading failed for package ‘gJLS2’ * removing ‘/tmp/workdir/gJLS2/old/gJLS2.Rcheck/gJLS2’ +``` +# grandR + +
+ +* Version: 0.2.5 +* GitHub: https://github.com/erhard-lab/grandR +* Source code: https://github.com/cran/grandR +* Date/Publication: 2024-02-15 15:30:02 UTC +* Number of recursive dependencies: 265 + +Run `revdepcheck::cloud_details(, "grandR")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/grandR/new/grandR.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘grandR/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘getting-started.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 2 NOTEs + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/grandR/old/grandR.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘grandR/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘getting-started.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 2 NOTEs + + + + + +``` +# GseaVis + +
+ +* Version: 0.0.5 +* GitHub: https://github.com/junjunlab/GseaVis +* Source code: https://github.com/cran/GseaVis +* Date/Publication: 2022-12-20 19:40:07 UTC +* Number of recursive dependencies: 104 + +Run `revdepcheck::cloud_details(, "GseaVis")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/GseaVis/new/GseaVis.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘GseaVis/DESCRIPTION’ ... OK +... +* this is package ‘GseaVis’ version ‘0.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘DOSE’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/GseaVis/old/GseaVis.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘GseaVis/DESCRIPTION’ ... OK +... +* this is package ‘GseaVis’ version ‘0.0.5’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘DOSE’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` # hettx @@ -3233,7 +4214,7 @@ ERROR: lazy loading failed for package ‘gJLS2’ * GitHub: https://github.com/bfifield/hettx * Source code: https://github.com/cran/hettx * Date/Publication: 2023-08-19 22:22:34 UTC -* Number of recursive dependencies: 85 +* Number of recursive dependencies: 84 Run `revdepcheck::cloud_details(, "hettx")` for more info @@ -3293,11 +4274,11 @@ ERROR: lazy loading failed for package ‘hettx’
-* Version: 5.1-3 +* Version: 5.2-2 * GitHub: NA * Source code: https://github.com/cran/Hmisc -* Date/Publication: 2024-05-28 07:10:02 UTC -* Number of recursive dependencies: 170 +* Date/Publication: 2025-01-10 23:30:03 UTC +* Number of recursive dependencies: 173 Run `revdepcheck::cloud_details(, "Hmisc")` for more info @@ -3312,9 +4293,9 @@ Run `revdepcheck::cloud_details(, "Hmisc")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘Hmisc/DESCRIPTION’ ... OK @@ -3328,7 +4309,7 @@ Run `revdepcheck::cloud_details(, "Hmisc")` for more info * checking compiled code ... OK * checking examples ... OK * DONE -Status: 4 NOTEs +Status: 3 NOTEs @@ -3342,9 +4323,9 @@ Status: 4 NOTEs * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘Hmisc/DESCRIPTION’ ... OK @@ -3373,7 +4354,7 @@ Status: 4 NOTEs * GitHub: https://github.com/hmsc-r/HMSC * Source code: https://github.com/cran/Hmsc * Date/Publication: 2022-08-11 14:10:14 UTC -* Number of recursive dependencies: 76 +* Number of recursive dependencies: 75 Run `revdepcheck::cloud_details(, "Hmsc")` for more info @@ -3433,11 +4414,11 @@ ERROR: lazy loading failed for package ‘Hmsc’
-* Version: 0.1.2 +* Version: 0.1.4 * GitHub: https://github.com/AbdalkarimA/iClusterVB * Source code: https://github.com/cran/iClusterVB -* Date/Publication: 2024-08-20 19:10:02 UTC -* Number of recursive dependencies: 127 +* Date/Publication: 2024-12-09 19:50:06 UTC +* Number of recursive dependencies: 128 Run `revdepcheck::cloud_details(, "iClusterVB")` for more info @@ -3460,9 +4441,9 @@ Run `revdepcheck::cloud_details(, "iClusterVB")` for more info ** package ‘iClusterVB’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o iClusterVB.so CAVI_algorithms.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/iClusterVB/new/iClusterVB.Rcheck/00LOCK-iClusterVB/00new/iClusterVB/libs ** R @@ -3487,9 +4468,9 @@ ERROR: lazy loading failed for package ‘iClusterVB’ ** package ‘iClusterVB’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c CAVI_algorithms.cpp -o CAVI_algorithms.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o iClusterVB.so CAVI_algorithms.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/iClusterVB/old/iClusterVB.Rcheck/00LOCK-iClusterVB/00new/iClusterVB/libs ** R @@ -3506,6 +4487,82 @@ ERROR: lazy loading failed for package ‘iClusterVB’ * removing ‘/tmp/workdir/iClusterVB/old/iClusterVB.Rcheck/iClusterVB’ +``` +# immcp + +
+ +* Version: 1.0.3 +* GitHub: https://github.com/YuanlongHu/immcp +* Source code: https://github.com/cran/immcp +* Date/Publication: 2022-05-12 05:50:02 UTC +* Number of recursive dependencies: 187 + +Run `revdepcheck::cloud_details(, "immcp")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/immcp/new/immcp.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘immcp/DESCRIPTION’ ... OK +... +* this is package ‘immcp’ version ‘1.0.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'clusterProfiler', 'DOSE' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/immcp/old/immcp.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘immcp/DESCRIPTION’ ... OK +... +* this is package ‘immcp’ version ‘1.0.3’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Packages required but not available: 'clusterProfiler', 'DOSE' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` # inventorize @@ -3565,6 +4622,66 @@ Warning in qgamma(service_level, alpha, beta) : NaNs produced * DONE (inventorize) +``` +# invivoPKfit + +
+ +* Version: 2.0.0 +* GitHub: NA +* Source code: https://github.com/cran/invivoPKfit +* Date/Publication: 2025-01-09 14:30:02 UTC +* Number of recursive dependencies: 172 + +Run `revdepcheck::cloud_details(, "invivoPKfit")` for more info + +
+ +## In both + +* checking whether package ‘invivoPKfit’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/invivoPKfit/new/invivoPKfit.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘invivoPKfit’ ... +** package ‘invivoPKfit’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘expand1’ is not exported by 'namespace:Matrix' +Execution halted +ERROR: lazy loading failed for package ‘invivoPKfit’ +* removing ‘/tmp/workdir/invivoPKfit/new/invivoPKfit.Rcheck/invivoPKfit’ + + +``` +### CRAN + +``` +* installing *source* package ‘invivoPKfit’ ... +** package ‘invivoPKfit’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘expand1’ is not exported by 'namespace:Matrix' +Execution halted +ERROR: lazy loading failed for package ‘invivoPKfit’ +* removing ‘/tmp/workdir/invivoPKfit/old/invivoPKfit.Rcheck/invivoPKfit’ + + ``` # iNZightPlots @@ -3574,7 +4691,7 @@ Warning in qgamma(service_level, alpha, beta) : NaNs produced * GitHub: https://github.com/iNZightVIT/iNZightPlots * Source code: https://github.com/cran/iNZightPlots * Date/Publication: 2023-10-14 05:00:02 UTC -* Number of recursive dependencies: 162 +* Number of recursive dependencies: 161 Run `revdepcheck::cloud_details(, "iNZightPlots")` for more info @@ -3634,7 +4751,7 @@ ERROR: lazy loading failed for package ‘iNZightPlots’ * GitHub: https://github.com/iNZightVIT/iNZightRegression * Source code: https://github.com/cran/iNZightRegression * Date/Publication: 2024-04-05 02:32:59 UTC -* Number of recursive dependencies: 159 +* Number of recursive dependencies: 162 Run `revdepcheck::cloud_details(, "iNZightRegression")` for more info @@ -3694,7 +4811,7 @@ ERROR: lazy loading failed for package ‘iNZightRegression’ * GitHub: https://github.com/vinhdizzo/IRexamples * Source code: https://github.com/cran/IRexamples * Date/Publication: 2023-10-06 06:40:02 UTC -* Number of recursive dependencies: 177 +* Number of recursive dependencies: 180 Run `revdepcheck::cloud_details(, "IRexamples")` for more info @@ -3764,61 +4881,75 @@ ERROR: lazy loading failed for package ‘IRexamples’
-* Version: 0.1.2 +* Version: 0.1.3 * GitHub: NA * Source code: https://github.com/cran/jmBIG -* Date/Publication: 2024-03-20 23:40:02 UTC -* Number of recursive dependencies: 184 +* Date/Publication: 2025-01-19 21:00:02 UTC +* Number of recursive dependencies: 187 Run `revdepcheck::cloud_details(, "jmBIG")` for more info -
+
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘jmBIG/DESCRIPTION’ ... OK +... +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘jmBIG’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR + -## In both -* checking whether package ‘jmBIG’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck/00install.out’ for details. - ``` -## Installation -### Devel +``` +### CRAN ``` -* installing *source* package ‘jmBIG’ ... -** package ‘jmBIG’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required -Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace -Execution halted -ERROR: lazy loading failed for package ‘jmBIG’ -* removing ‘/tmp/workdir/jmBIG/new/jmBIG.Rcheck/jmBIG’ +* using log directory ‘/tmp/workdir/jmBIG/old/jmBIG.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘jmBIG/DESCRIPTION’ ... OK +... +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘jmBIG’ can be installed ... ERROR +Installation failed. +See ‘/tmp/workdir/jmBIG/old/jmBIG.Rcheck/00install.out’ for details. +* DONE +Status: 1 ERROR -``` -### CRAN -``` -* installing *source* package ‘jmBIG’ ... -** package ‘jmBIG’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required -Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace -Execution halted -ERROR: lazy loading failed for package ‘jmBIG’ -* removing ‘/tmp/workdir/jmBIG/old/jmBIG.Rcheck/jmBIG’ ``` @@ -3830,7 +4961,7 @@ ERROR: lazy loading failed for package ‘jmBIG’ * GitHub: https://github.com/graemeleehickey/joineRML * Source code: https://github.com/cran/joineRML * Date/Publication: 2023-01-20 04:50:02 UTC -* Number of recursive dependencies: 91 +* Number of recursive dependencies: 93 Run `revdepcheck::cloud_details(, "joineRML")` for more info @@ -3853,12 +4984,12 @@ Run `revdepcheck::cloud_details(, "joineRML")` for more info ** package ‘joineRML’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o ... ** data *** moving datasets to lazyload DB @@ -3880,12 +5011,12 @@ ERROR: lazy loading failed for package ‘joineRML’ ** package ‘joineRML’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c expW.cpp -o expW.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c gammaUpdate.cpp -o gammaUpdate.o ... ** data *** moving datasets to lazyload DB @@ -3900,17 +5031,17 @@ ERROR: lazy loading failed for package ‘joineRML’ ``` -# kibior +# jsmodule
-* Version: 0.1.1 -* GitHub: https://github.com/regisoc/kibior -* Source code: https://github.com/cran/kibior -* Date/Publication: 2021-01-28 15:20:02 UTC -* Number of recursive dependencies: 140 +* Version: 1.6.1 +* GitHub: https://github.com/jinseob2kim/jsmodule +* Source code: https://github.com/cran/jsmodule +* Date/Publication: 2025-01-08 13:10:02 UTC +* Number of recursive dependencies: 241 -Run `revdepcheck::cloud_details(, "kibior")` for more info +Run `revdepcheck::cloud_details(, "jsmodule")` for more info
@@ -3919,27 +5050,27 @@ Run `revdepcheck::cloud_details(, "kibior")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/kibior/new/kibior.Rcheck’ +* using log directory ‘/tmp/workdir/jsmodule/new/jsmodule.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘kibior/DESCRIPTION’ ... OK +* checking for file ‘jsmodule/DESCRIPTION’ ... OK ... -* this is package ‘kibior’ version ‘0.1.1’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘jsmodule.Rmd’ using ‘UTF-8’... OK + ‘jsmodule_subgroup_cmprsk.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK * DONE -Status: 1 ERROR +Status: OK @@ -3949,27 +5080,27 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/kibior/old/kibior.Rcheck’ +* using log directory ‘/tmp/workdir/jsmodule/old/jsmodule.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘kibior/DESCRIPTION’ ... OK +* checking for file ‘jsmodule/DESCRIPTION’ ... OK ... -* this is package ‘kibior’ version ‘0.1.1’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘jsmodule.Rmd’ using ‘UTF-8’... OK + ‘jsmodule_subgroup_cmprsk.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK * DONE -Status: 1 ERROR +Status: OK @@ -3984,7 +5115,7 @@ Status: 1 ERROR * GitHub: https://github.com/yfyang86/kmc * Source code: https://github.com/cran/kmc * Date/Publication: 2022-11-22 08:30:02 UTC -* Number of recursive dependencies: 61 +* Number of recursive dependencies: 60 Run `revdepcheck::cloud_details(, "kmc")` for more info @@ -4007,12 +5138,12 @@ Run `revdepcheck::cloud_details(, "kmc")` for more info ** package ‘kmc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o kmc.so RcppExport.o kmc.o kmc_init.o surv2.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/kmc/new/kmc.Rcheck/00LOCK-kmc/00new/kmc/libs ** R @@ -4032,12 +5163,12 @@ ERROR: lazy loading failed for package ‘kmc’ ** package ‘kmc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExport.cpp -o RcppExport.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc.cpp -o kmc.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c kmc_init.c -o kmc_init.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c surv2.c -o surv2.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o kmc.so RcppExport.o kmc.o kmc_init.o surv2.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/kmc/old/kmc.Rcheck/00LOCK-kmc/00new/kmc/libs ** R @@ -4049,6 +5180,82 @@ ERROR: lazy loading failed for package ‘kmc’ * removing ‘/tmp/workdir/kmc/old/kmc.Rcheck/kmc’ +``` +# KMunicate + +
+ +* Version: 0.2.5 +* GitHub: https://github.com/ellessenne/KMunicate-package +* Source code: https://github.com/cran/KMunicate +* Date/Publication: 2024-05-16 11:50:08 UTC +* Number of recursive dependencies: 171 + +Run `revdepcheck::cloud_details(, "KMunicate")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/KMunicate/new/KMunicate.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘KMunicate/DESCRIPTION’ ... OK +... +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘KMunicate.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/KMunicate/old/KMunicate.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘KMunicate/DESCRIPTION’ ... OK +... +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘KMunicate.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + ``` # L2E @@ -4072,43 +5279,195 @@ Run `revdepcheck::cloud_details(, "L2E")` for more info See ‘/tmp/workdir/L2E/new/L2E.Rcheck/00install.out’ for details. ``` -## Installation +## Installation + +### Devel + +``` +* installing *source* package ‘L2E’ ... +** package ‘L2E’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required +Execution halted +ERROR: lazy loading failed for package ‘L2E’ +* removing ‘/tmp/workdir/L2E/new/L2E.Rcheck/L2E’ + + +``` +### CRAN + +``` +* installing *source* package ‘L2E’ ... +** package ‘L2E’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required +Execution halted +ERROR: lazy loading failed for package ‘L2E’ +* removing ‘/tmp/workdir/L2E/old/L2E.Rcheck/L2E’ + + +``` +# Landmarking + +
+ +* Version: 1.0.0 +* GitHub: https://github.com/isobelbarrott/Landmarking +* Source code: https://github.com/cran/Landmarking +* Date/Publication: 2022-02-15 20:00:07 UTC +* Number of recursive dependencies: 122 + +Run `revdepcheck::cloud_details(, "Landmarking")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/Landmarking/new/Landmarking.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘Landmarking/DESCRIPTION’ ... OK +... +* this is package ‘Landmarking’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/Landmarking/old/Landmarking.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘Landmarking/DESCRIPTION’ ... OK +... +* this is package ‘Landmarking’ version ‘1.0.0’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +# lavaSearch2 + +
+ +* Version: 2.0.3 +* GitHub: https://github.com/bozenne/lavaSearch2 +* Source code: https://github.com/cran/lavaSearch2 +* Date/Publication: 2024-02-23 09:10:02 UTC +* Number of recursive dependencies: 149 + +Run `revdepcheck::cloud_details(, "lavaSearch2")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/lavaSearch2/new/lavaSearch2.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘lavaSearch2/DESCRIPTION’ ... OK +... + [ FAIL 1 | WARN 1 | SKIP 0 | PASS 266 ] + Error: Test failures + Execution halted +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘overview.pdf.asis’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 1 ERROR, 1 NOTE + -### Devel -``` -* installing *source* package ‘L2E’ ... -** package ‘L2E’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): - namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required -Execution halted -ERROR: lazy loading failed for package ‘L2E’ -* removing ‘/tmp/workdir/L2E/new/L2E.Rcheck/L2E’ ``` ### CRAN ``` -* installing *source* package ‘L2E’ ... -** package ‘L2E’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error: package or namespace load failed for ‘osqp’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): - namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.1 is required -Execution halted -ERROR: lazy loading failed for package ‘L2E’ -* removing ‘/tmp/workdir/L2E/old/L2E.Rcheck/L2E’ +* using log directory ‘/tmp/workdir/lavaSearch2/old/lavaSearch2.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘lavaSearch2/DESCRIPTION’ ... OK +... + [ FAIL 1 | WARN 1 | SKIP 0 | PASS 266 ] + Error: Test failures + Execution halted +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘overview.pdf.asis’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 1 ERROR, 1 NOTE + + + ``` @@ -4174,17 +5533,17 @@ ERROR: lazy loading failed for package ‘llbayesireg’ ``` -# locuszoomr +# lnmixsurv
-* Version: 0.3.4 -* GitHub: https://github.com/myles-lewis/locuszoomr -* Source code: https://github.com/cran/locuszoomr -* Date/Publication: 2024-09-06 10:10:02 UTC -* Number of recursive dependencies: 132 +* Version: 3.1.6 +* GitHub: NA +* Source code: https://github.com/cran/lnmixsurv +* Date/Publication: 2024-09-03 15:20:08 UTC +* Number of recursive dependencies: 195 -Run `revdepcheck::cloud_details(, "locuszoomr")` for more info +Run `revdepcheck::cloud_details(, "lnmixsurv")` for more info
@@ -4193,27 +5552,27 @@ Run `revdepcheck::cloud_details(, "locuszoomr")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/locuszoomr/new/locuszoomr.Rcheck’ +* using log directory ‘/tmp/workdir/lnmixsurv/new/lnmixsurv.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘locuszoomr/DESCRIPTION’ ... OK +* checking for file ‘lnmixsurv/DESCRIPTION’ ... OK ... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'ensembldb', 'rtracklayer' +--- finished re-building ‘parallel_computation.Rmd’ -Package suggested but not available for checking: ‘EnsDb.Hsapiens.v75’ +SUMMARY: processing the following file failed: + ‘expectation_maximization.Rmd’ + +Error: Vignette re-building failed. +Execution halted -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. * DONE -Status: 1 ERROR +Status: 2 ERRORs, 5 NOTEs @@ -4223,27 +5582,27 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/locuszoomr/old/locuszoomr.Rcheck’ +* using log directory ‘/tmp/workdir/lnmixsurv/old/lnmixsurv.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘locuszoomr/DESCRIPTION’ ... OK +* checking for file ‘lnmixsurv/DESCRIPTION’ ... OK ... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'ensembldb', 'rtracklayer' - -Package suggested but not available for checking: ‘EnsDb.Hsapiens.v75’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘compare.Rmd’ using ‘UTF-8’... OK + ‘expectation_maximization.Rmd’ using ‘UTF-8’... OK + ‘intercept_only.Rmd’ using ‘UTF-8’... OK + ‘lnmixsurv.Rmd’ using ‘UTF-8’... OK + ‘parallel_computation.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK * DONE -Status: 1 ERROR +Status: 4 NOTEs @@ -4254,10 +5613,10 @@ Status: 1 ERROR
-* Version: 2.0.0 +* Version: 2.1.0 * GitHub: https://github.com/AlJacq/LorenzRegression * Source code: https://github.com/cran/LorenzRegression -* Date/Publication: 2024-09-09 11:20:33 UTC +* Date/Publication: 2024-10-11 16:50:02 UTC * Number of recursive dependencies: 83 Run `revdepcheck::cloud_details(, "LorenzRegression")` for more info @@ -4281,12 +5640,12 @@ Run `revdepcheck::cloud_details(, "LorenzRegression")` for more info ** package ‘LorenzRegression’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o ... ** data *** moving datasets to lazyload DB @@ -4308,12 +5667,12 @@ ERROR: lazy loading failed for package ‘LorenzRegression’ ** package ‘LorenzRegression’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_fitness.cpp -o GA_fitness.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c GA_meanrank.cpp -o GA_meanrank.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_derivative.cpp -o PLR_derivative.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c PLR_loss.cpp -o PLR_loss.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o ... ** data *** moving datasets to lazyload DB @@ -4336,7 +5695,7 @@ ERROR: lazy loading failed for package ‘LorenzRegression’ * GitHub: NA * Source code: https://github.com/cran/lsirm12pl * Date/Publication: 2024-08-28 23:00:02 UTC -* Number of recursive dependencies: 124 +* Number of recursive dependencies: 123 Run `revdepcheck::cloud_details(, "lsirm12pl")` for more info @@ -4359,12 +5718,12 @@ Run `revdepcheck::cloud_details(, "lsirm12pl")` for more info ** package ‘lsirm12pl’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o ... ** R ** data @@ -4386,12 +5745,12 @@ ERROR: lazy loading failed for package ‘lsirm12pl’ ** package ‘lsirm12pl’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm1pl.cpp -o lsirm1pl.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsirm2pl.cpp -o lsirm2pl.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c lsm.cpp -o lsm.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c utility_cpp.cpp -o utility_cpp.o ... ** R ** data @@ -4449,7 +5808,7 @@ Run `revdepcheck::cloud_details(, "MantaID")` for more info * GitHub: NA * Source code: https://github.com/cran/MARVEL * Date/Publication: 2022-10-31 10:22:50 UTC -* Number of recursive dependencies: 231 +* Number of recursive dependencies: 229 Run `revdepcheck::cloud_details(, "MARVEL")` for more info @@ -4464,9 +5823,9 @@ Run `revdepcheck::cloud_details(, "MARVEL")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘MARVEL/DESCRIPTION’ ... OK @@ -4494,9 +5853,9 @@ Status: 1 NOTE * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘MARVEL/DESCRIPTION’ ... OK @@ -4516,6 +5875,70 @@ Status: 1 NOTE +``` +# MaxWiK + +
+ +* Version: 1.0.5 +* GitHub: NA +* Source code: https://github.com/cran/MaxWiK +* Date/Publication: 2024-11-25 11:40:13 UTC +* Number of recursive dependencies: 57 + +Run `revdepcheck::cloud_details(, "MaxWiK")` for more info + +
+ +## In both + +* checking whether package ‘MaxWiK’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/MaxWiK/new/MaxWiK.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘MaxWiK’ ... +** package ‘MaxWiK’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘MaxWiK’ +* removing ‘/tmp/workdir/MaxWiK/new/MaxWiK.Rcheck/MaxWiK’ + + +``` +### CRAN + +``` +* installing *source* package ‘MaxWiK’ ... +** package ‘MaxWiK’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘MaxWiK’ +* removing ‘/tmp/workdir/MaxWiK/old/MaxWiK.Rcheck/MaxWiK’ + + ``` # mbsts @@ -4525,7 +5948,7 @@ Status: 1 NOTE * GitHub: NA * Source code: https://github.com/cran/mbsts * Date/Publication: 2023-01-07 01:10:02 UTC -* Number of recursive dependencies: 82 +* Number of recursive dependencies: 81 Run `revdepcheck::cloud_details(, "mbsts")` for more info @@ -4577,79 +6000,75 @@ ERROR: lazy loading failed for package ‘mbsts’ ``` -# MitoHEAR +# MendelianRandomization
-* Version: 0.1.0 +* Version: 0.10.0 * GitHub: NA -* Source code: https://github.com/cran/MitoHEAR -* Date/Publication: 2022-03-01 21:20:02 UTC -* Number of recursive dependencies: 183 +* Source code: https://github.com/cran/MendelianRandomization +* Date/Publication: 2024-04-12 10:10:02 UTC +* Number of recursive dependencies: 88 -Run `revdepcheck::cloud_details(, "MitoHEAR")` for more info +Run `revdepcheck::cloud_details(, "MendelianRandomization")` for more info
-## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/MitoHEAR/new/MitoHEAR.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘MitoHEAR/DESCRIPTION’ ... OK -... -* checking package dependencies ... ERROR -Package required but not available: ‘ComplexHeatmap’ - -Packages suggested but not available for checking: - 'karyoploteR', 'regioneR' +## In both -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR +* checking whether package ‘MendelianRandomization’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/MendelianRandomization/new/MendelianRandomization.Rcheck/00install.out’ for details. + ``` +## Installation +### Devel +``` +* installing *source* package ‘MendelianRandomization’ ... +** package ‘MendelianRandomization’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c mvmrcML.cpp -o mvmrcML.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o MendelianRandomization.so RcppExports.o mvmrcML.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/MendelianRandomization/new/MendelianRandomization.Rcheck/00LOCK-MendelianRandomization/00new/MendelianRandomization/libs +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘MendelianRandomization’ +* removing ‘/tmp/workdir/MendelianRandomization/new/MendelianRandomization.Rcheck/MendelianRandomization’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/MitoHEAR/old/MitoHEAR.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘MitoHEAR/DESCRIPTION’ ... OK -... -* checking package dependencies ... ERROR -Package required but not available: ‘ComplexHeatmap’ - -Packages suggested but not available for checking: - 'karyoploteR', 'regioneR' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - +* installing *source* package ‘MendelianRandomization’ ... +** package ‘MendelianRandomization’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c mvmrcML.cpp -o mvmrcML.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o MendelianRandomization.so RcppExports.o mvmrcML.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/MendelianRandomization/old/MendelianRandomization.Rcheck/00LOCK-MendelianRandomization/00new/MendelianRandomization/libs +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘MendelianRandomization’ +* removing ‘/tmp/workdir/MendelianRandomization/old/MendelianRandomization.Rcheck/MendelianRandomization’ ``` @@ -4661,7 +6080,7 @@ Status: 1 ERROR * GitHub: https://github.com/phargarten2/miWQS * Source code: https://github.com/cran/miWQS * Date/Publication: 2021-04-02 21:50:02 UTC -* Number of recursive dependencies: 152 +* Number of recursive dependencies: 151 Run `revdepcheck::cloud_details(, "miWQS")` for more info @@ -4725,7 +6144,7 @@ ERROR: lazy loading failed for package ‘miWQS’ * GitHub: NA * Source code: https://github.com/cran/mlmts * Date/Publication: 2024-08-18 08:40:06 UTC -* Number of recursive dependencies: 242 +* Number of recursive dependencies: 244 Run `revdepcheck::cloud_details(, "mlmts")` for more info @@ -4789,7 +6208,7 @@ ERROR: lazy loading failed for package ‘mlmts’ * GitHub: https://github.com/mlr-org/mlr * Source code: https://github.com/cran/mlr * Date/Publication: 2024-06-12 10:50:02 UTC -* Number of recursive dependencies: 362 +* Number of recursive dependencies: 365 Run `revdepcheck::cloud_details(, "mlr")` for more info @@ -4804,99 +6223,23 @@ Run `revdepcheck::cloud_details(, "mlr")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘mlr/DESCRIPTION’ ... OK -... -* checking for unstated dependencies in ‘tests’ ... OK -* checking tests ... OK - Running ‘testthat.R’ -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘mlr.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 2 NOTEs - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/mlr/old/mlr.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘mlr/DESCRIPTION’ ... OK ... * checking for unstated dependencies in ‘tests’ ... OK -* checking tests ... OK - Running ‘testthat.R’ -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘mlr.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 2 NOTEs - - - - - -``` -# MOCHA - -
- -* Version: 1.1.0 -* GitHub: NA -* Source code: https://github.com/cran/MOCHA -* Date/Publication: 2024-01-25 12:20:12 UTC -* Number of recursive dependencies: 249 - -Run `revdepcheck::cloud_details(, "MOCHA")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/MOCHA/new/MOCHA.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘MOCHA/DESCRIPTION’ ... OK -... - -Packages suggested but not available for checking: - 'ArchR', 'motifmatchr', 'TxDb.Hsapiens.UCSC.hg38.refGene', - 'TxDb.Hsapiens.UCSC.hg19.knownGene', 'BSgenome.Hsapiens.UCSC.hg19', - 'chromVAR', 'rtracklayer' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘mlr.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK * DONE -Status: 1 ERROR +Status: 2 NOTEs @@ -4906,27 +6249,27 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/MOCHA/old/MOCHA.Rcheck’ +* using log directory ‘/tmp/workdir/mlr/old/mlr.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘MOCHA/DESCRIPTION’ ... OK +* checking for file ‘mlr/DESCRIPTION’ ... OK ... - -Packages suggested but not available for checking: - 'ArchR', 'motifmatchr', 'TxDb.Hsapiens.UCSC.hg38.refGene', - 'TxDb.Hsapiens.UCSC.hg19.knownGene', 'BSgenome.Hsapiens.UCSC.hg19', - 'chromVAR', 'rtracklayer' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘mlr.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK * DONE -Status: 1 ERROR +Status: 2 NOTEs @@ -4990,6 +6333,82 @@ ERROR: lazy loading failed for package ‘MRZero’ * removing ‘/tmp/workdir/MRZero/old/MRZero.Rcheck/MRZero’ +``` +# mstate + +
+ +* Version: 0.3.3 +* GitHub: https://github.com/hputter/mstate +* Source code: https://github.com/cran/mstate +* Date/Publication: 2024-07-11 21:30:06 UTC +* Number of recursive dependencies: 113 + +Run `revdepcheck::cloud_details(, "mstate")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/mstate/new/mstate.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘mstate/DESCRIPTION’ ... OK +... +--- failed re-building ‘Tutorial.Rnw’ + +SUMMARY: processing the following file failed: + ‘Tutorial.Rnw’ + +Error: Vignette re-building failed. +Execution halted + +* DONE +Status: 1 NOTE + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/mstate/old/mstate.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘mstate/DESCRIPTION’ ... OK +... +--- failed re-building ‘Tutorial.Rnw’ + +SUMMARY: processing the following file failed: + ‘Tutorial.Rnw’ + +Error: Vignette re-building failed. +Execution halted + +* DONE +Status: 1 NOTE + + + + + ``` # multilevelTools @@ -4999,7 +6418,7 @@ ERROR: lazy loading failed for package ‘MRZero’ * GitHub: https://github.com/JWiley/multilevelTools * Source code: https://github.com/cran/multilevelTools * Date/Publication: 2020-03-04 09:50:02 UTC -* Number of recursive dependencies: 168 +* Number of recursive dependencies: 170 Run `revdepcheck::cloud_details(, "multilevelTools")` for more info @@ -5065,11 +6484,11 @@ ERROR: lazy loading failed for package ‘multilevelTools’
-* Version: 0.7.1 +* Version: 0.7.2 * GitHub: https://github.com/dmphillippo/multinma * Source code: https://github.com/cran/multinma -* Date/Publication: 2024-06-11 12:20:06 UTC -* Number of recursive dependencies: 152 +* Date/Publication: 2024-09-16 12:20:02 UTC +* Number of recursive dependencies: 151 Run `revdepcheck::cloud_details(, "multinma")` for more info @@ -5092,16 +6511,16 @@ Run `revdepcheck::cloud_details(, "multinma")` for more info ** package ‘multinma’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ g++: fatal error: Killed signal terminated program cc1plus @@ -5119,16 +6538,16 @@ ERROR: compilation failed for package ‘multinma’ ** package ‘multinma’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/opt/R/4.3.1/lib/R/site-library/BH/include' -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppEigen/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -I'/opt/R/4.3.1/lib/R/site-library/rstan/include' -I'/opt/R/4.3.1/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/opt/R/4.3.1/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -In file included from /opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/Core:205, +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I"../inst/include" -I"/usr/local/lib/R/site-library/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error -DUSE_STANC3 -D_HAS_AUTO_PTR_ETC=0 -I'/usr/local/lib/R/site-library/BH/include' -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppParallel/include' -I'/usr/local/lib/R/site-library/rstan/include' -I'/usr/local/lib/R/site-library/StanHeaders/include' -I/usr/local/include -I'/usr/local/lib/R/site-library/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:56: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:10: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:22:0: required from ‘double stan::mcmc::dense_e_metric::T(stan::mcmc::dense_e_point&) [with Model = model_survival_param_namespace::model_survival_param; BaseRNG = boost::random::additive_combine_engine, boost::random::linear_congruential_engine >]’ +/usr/local/lib/R/site-library/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ g++: fatal error: Killed signal terminated program cc1plus @@ -5138,16 +6557,168 @@ ERROR: compilation failed for package ‘multinma’ * removing ‘/tmp/workdir/multinma/old/multinma.Rcheck/multinma’ +``` +# multipleOutcomes + +
+ +* Version: 0.4 +* GitHub: NA +* Source code: https://github.com/cran/multipleOutcomes +* Date/Publication: 2024-05-30 15:00:03 UTC +* Number of recursive dependencies: 176 + +Run `revdepcheck::cloud_details(, "multipleOutcomes")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/multipleOutcomes/new/multipleOutcomes.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘multipleOutcomes/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘test.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/multipleOutcomes/old/multipleOutcomes.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘multipleOutcomes/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘test.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +# MuPETFlow + +
+ +* Version: 0.1.1 +* GitHub: NA +* Source code: https://github.com/cran/MuPETFlow +* Date/Publication: 2025-01-15 19:40:19 UTC +* Number of recursive dependencies: 85 + +Run `revdepcheck::cloud_details(, "MuPETFlow")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/MuPETFlow/new/MuPETFlow.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘MuPETFlow/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘MuPETFlow.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 1 NOTE + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/MuPETFlow/old/MuPETFlow.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘MuPETFlow/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘MuPETFlow.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 1 NOTE + + + + + ``` # NCA
-* Version: 4.0.1 +* Version: 4.0.2 * GitHub: NA * Source code: https://github.com/cran/NCA -* Date/Publication: 2024-02-23 09:30:15 UTC -* Number of recursive dependencies: 99 +* Date/Publication: 2024-11-09 18:10:02 UTC +* Number of recursive dependencies: 98 Run `revdepcheck::cloud_details(, "NCA")` for more info @@ -5207,7 +6778,7 @@ ERROR: lazy loading failed for package ‘NCA’ * GitHub: NA * Source code: https://github.com/cran/netcmc * Date/Publication: 2022-11-08 22:30:15 UTC -* Number of recursive dependencies: 61 +* Number of recursive dependencies: 60 Run `revdepcheck::cloud_details(, "netcmc")` for more info @@ -5230,14 +6801,14 @@ Run `revdepcheck::cloud_details(, "netcmc")` for more info ** package ‘netcmc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o ... -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o netcmc.so RcppExports.o choleskyDecompositionRcppConversion.o doubleMatrixMultiplicationRcpp.o doubleVectorMultiplicationRcpp.o eigenValuesRcppConversion.o getDiagonalMatrix.o getExp.o getExpDividedByOnePlusExp.o getMeanCenteredRandomEffects.o getMultivariateBinomialNetworkLerouxDIC.o getMultivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariateGaussianNetworkLerouxDIC.o getMultivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariatePoissonNetworkLerouxDIC.o getMultivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getNonZeroEntries.o getSubvector.o getSubvectorIndecies.o getSumExpNetwork.o getSumExpNetworkIndecies.o getSumExpNetworkLeroux.o getSumExpNetworkLerouxIndecies.o getSumLogExp.o getSumLogExpIndecies.o getSumVector.o getTripletForm.o getUnivariateBinomialNetworkLerouxDIC.o getUnivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariateGaussianNetworkLerouxDIC.o getUnivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkDIC.o getUnivariatePoissonNetworkFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkLerouxDIC.o getUnivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getVectorMean.o matrixInverseRcppConversion.o matrixMatrixAdditionRcpp.o matrixMatrixSubtractionRcpp.o matrixVectorMultiplicationRcpp.o multivariateBinomialNetworkLerouxAllUpdate.o multivariateBinomialNetworkLerouxBetaUpdate.o multivariateBinomialNetworkLerouxRhoUpdate.o multivariateBinomialNetworkLerouxSingleUpdate.o multivariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o multivariateBinomialNetworkLerouxTauSquaredUpdate.o multivariateBinomialNetworkLerouxURandomEffectsUpdate.o multivariateBinomialNetworkLerouxVRandomEffectsUpdate.o multivariateBinomialNetworkLerouxVarianceCovarianceUUpdate.o multivariateBinomialNetworkRandAllUpdate.o multivariateBinomialNetworkRandSingleUpdate.o multivariateGaussianNetworkLerouxAllMHUpdate.o multivariateGaussianNetworkLerouxBetaUpdate.o multivariateGaussianNetworkLerouxRhoUpdate.o multivariateGaussianNetworkLerouxSigmaSquaredEUpdate.o multivariateGaussianNetworkLerouxSingleMHUpdate.o multivariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o multivariateGaussianNetworkLerouxTauSquaredUpdate.o multivariateGaussianNetworkLerouxURandomEffectsUpdate.o multivariateGaussianNetworkLerouxVarianceCovarianceUUpdate.o multivariateGaussianNetworkRandAllUpdate.o multivariateGaussianNetworkRandSingleUpdate.o multivariateGaussianNetworkRandVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxAllUpdate.o multivariatePoissonNetworkLerouxBetaUpdate.o multivariatePoissonNetworkLerouxRhoUpdate.o multivariatePoissonNetworkLerouxSingleUpdate.o multivariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o multivariatePoissonNetworkLerouxTauSquaredUpdate.o multivariatePoissonNetworkLerouxURandomEffectsUpdate.o multivariatePoissonNetworkLerouxVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxVarianceCovarianceUUpdate.o multivariatePoissonNetworkRandAllUpdate.o multivariatePoissonNetworkRandSingleUpdate.o sumMatrix.o univariateBinomialNetworkLerouxAllUpdate.o univariateBinomialNetworkLerouxBetaUpdate.o univariateBinomialNetworkLerouxRhoUpdate.o univariateBinomialNetworkLerouxSigmaSquaredUpdate.o univariateBinomialNetworkLerouxSingleUpdate.o univariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o univariateBinomialNetworkLerouxTauSquaredUpdate.o univariateBinomialNetworkLerouxURandomEffectsUpdate.o univariateGaussianNetworkLerouxAllMHUpdate.o univariateGaussianNetworkLerouxBetaUpdate.o univariateGaussianNetworkLerouxRhoUpdate.o univariateGaussianNetworkLerouxSigmaSquaredEUpdate.o univariateGaussianNetworkLerouxSigmaSquaredUUpdate.o univariateGaussianNetworkLerouxSingleMHUpdate.o univariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o univariateGaussianNetworkLerouxTauSquaredUpdate.o univariateGaussianNetworkLerouxURandomEffectsUpdate.o univariatePoissonNetworkLerouxAllUpdate.o univariatePoissonNetworkLerouxBetaUpdate.o univariatePoissonNetworkLerouxRhoUpdate.o univariatePoissonNetworkLerouxSigmaSquaredUpdate.o univariatePoissonNetworkLerouxSingleUpdate.o univariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o univariatePoissonNetworkLerouxTauSquaredUpdate.o univariatePoissonNetworkLerouxURandomEffectsUpdate.o vectorTransposeVectorMultiplicationRcpp.o vectorVectorTransposeMultiplicationRcpp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/netcmc/new/netcmc.Rcheck/00LOCK-netcmc/00new/netcmc/libs ** R @@ -5257,14 +6828,14 @@ ERROR: lazy loading failed for package ‘netcmc’ ** package ‘netcmc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c choleskyDecompositionRcppConversion.cpp -o choleskyDecompositionRcppConversion.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleMatrixMultiplicationRcpp.cpp -o doubleMatrixMultiplicationRcpp.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c doubleVectorMultiplicationRcpp.cpp -o doubleVectorMultiplicationRcpp.o ... -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c vectorVectorTransposeMultiplicationRcpp.cpp -o vectorVectorTransposeMultiplicationRcpp.o g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o netcmc.so RcppExports.o choleskyDecompositionRcppConversion.o doubleMatrixMultiplicationRcpp.o doubleVectorMultiplicationRcpp.o eigenValuesRcppConversion.o getDiagonalMatrix.o getExp.o getExpDividedByOnePlusExp.o getMeanCenteredRandomEffects.o getMultivariateBinomialNetworkLerouxDIC.o getMultivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariateGaussianNetworkLerouxDIC.o getMultivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getMultivariatePoissonNetworkLerouxDIC.o getMultivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getNonZeroEntries.o getSubvector.o getSubvectorIndecies.o getSumExpNetwork.o getSumExpNetworkIndecies.o getSumExpNetworkLeroux.o getSumExpNetworkLerouxIndecies.o getSumLogExp.o getSumLogExpIndecies.o getSumVector.o getTripletForm.o getUnivariateBinomialNetworkLerouxDIC.o getUnivariateBinomialNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariateGaussianNetworkLerouxDIC.o getUnivariateGaussianNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkDIC.o getUnivariatePoissonNetworkFittedValuesAndLikelihoodForDICEveryIteration.o getUnivariatePoissonNetworkLerouxDIC.o getUnivariatePoissonNetworkLerouxFittedValuesAndLikelihoodForDICEveryIteration.o getVectorMean.o matrixInverseRcppConversion.o matrixMatrixAdditionRcpp.o matrixMatrixSubtractionRcpp.o matrixVectorMultiplicationRcpp.o multivariateBinomialNetworkLerouxAllUpdate.o multivariateBinomialNetworkLerouxBetaUpdate.o multivariateBinomialNetworkLerouxRhoUpdate.o multivariateBinomialNetworkLerouxSingleUpdate.o multivariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o multivariateBinomialNetworkLerouxTauSquaredUpdate.o multivariateBinomialNetworkLerouxURandomEffectsUpdate.o multivariateBinomialNetworkLerouxVRandomEffectsUpdate.o multivariateBinomialNetworkLerouxVarianceCovarianceUUpdate.o multivariateBinomialNetworkRandAllUpdate.o multivariateBinomialNetworkRandSingleUpdate.o multivariateGaussianNetworkLerouxAllMHUpdate.o multivariateGaussianNetworkLerouxBetaUpdate.o multivariateGaussianNetworkLerouxRhoUpdate.o multivariateGaussianNetworkLerouxSigmaSquaredEUpdate.o multivariateGaussianNetworkLerouxSingleMHUpdate.o multivariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o multivariateGaussianNetworkLerouxTauSquaredUpdate.o multivariateGaussianNetworkLerouxURandomEffectsUpdate.o multivariateGaussianNetworkLerouxVarianceCovarianceUUpdate.o multivariateGaussianNetworkRandAllUpdate.o multivariateGaussianNetworkRandSingleUpdate.o multivariateGaussianNetworkRandVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxAllUpdate.o multivariatePoissonNetworkLerouxBetaUpdate.o multivariatePoissonNetworkLerouxRhoUpdate.o multivariatePoissonNetworkLerouxSingleUpdate.o multivariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o multivariatePoissonNetworkLerouxTauSquaredUpdate.o multivariatePoissonNetworkLerouxURandomEffectsUpdate.o multivariatePoissonNetworkLerouxVRandomEffectsUpdate.o multivariatePoissonNetworkLerouxVarianceCovarianceUUpdate.o multivariatePoissonNetworkRandAllUpdate.o multivariatePoissonNetworkRandSingleUpdate.o sumMatrix.o univariateBinomialNetworkLerouxAllUpdate.o univariateBinomialNetworkLerouxBetaUpdate.o univariateBinomialNetworkLerouxRhoUpdate.o univariateBinomialNetworkLerouxSigmaSquaredUpdate.o univariateBinomialNetworkLerouxSingleUpdate.o univariateBinomialNetworkLerouxSpatialRandomEffectsUpdate.o univariateBinomialNetworkLerouxTauSquaredUpdate.o univariateBinomialNetworkLerouxURandomEffectsUpdate.o univariateGaussianNetworkLerouxAllMHUpdate.o univariateGaussianNetworkLerouxBetaUpdate.o univariateGaussianNetworkLerouxRhoUpdate.o univariateGaussianNetworkLerouxSigmaSquaredEUpdate.o univariateGaussianNetworkLerouxSigmaSquaredUUpdate.o univariateGaussianNetworkLerouxSingleMHUpdate.o univariateGaussianNetworkLerouxSpatialRandomEffectsMHUpdate.o univariateGaussianNetworkLerouxTauSquaredUpdate.o univariateGaussianNetworkLerouxURandomEffectsUpdate.o univariatePoissonNetworkLerouxAllUpdate.o univariatePoissonNetworkLerouxBetaUpdate.o univariatePoissonNetworkLerouxRhoUpdate.o univariatePoissonNetworkLerouxSigmaSquaredUpdate.o univariatePoissonNetworkLerouxSingleUpdate.o univariatePoissonNetworkLerouxSpatialRandomEffectsUpdate.o univariatePoissonNetworkLerouxTauSquaredUpdate.o univariatePoissonNetworkLerouxURandomEffectsUpdate.o vectorTransposeVectorMultiplicationRcpp.o vectorVectorTransposeMultiplicationRcpp.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/netcmc/old/netcmc.Rcheck/00LOCK-netcmc/00new/netcmc/libs ** R @@ -5285,7 +6856,7 @@ ERROR: lazy loading failed for package ‘netcmc’ * GitHub: https://github.com/jongheepark/NetworkChange * Source code: https://github.com/cran/NetworkChange * Date/Publication: 2022-03-04 07:30:02 UTC -* Number of recursive dependencies: 133 +* Number of recursive dependencies: 122 Run `revdepcheck::cloud_details(, "NetworkChange")` for more info @@ -5366,10 +6937,10 @@ Run `revdepcheck::cloud_details(, "nlmeVPC")` for more info ** package ‘nlmeVPC’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o nlmeVPC.so Misc.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/nlmeVPC/new/nlmeVPC.Rcheck/00LOCK-nlmeVPC/00new/nlmeVPC/libs ** R @@ -5391,10 +6962,10 @@ ERROR: lazy loading failed for package ‘nlmeVPC’ ** package ‘nlmeVPC’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Misc.cpp -o Misc.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o nlmeVPC.so Misc.o RcppExports.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/nlmeVPC/old/nlmeVPC.Rcheck/00LOCK-nlmeVPC/00new/nlmeVPC/libs ** R @@ -5417,7 +6988,7 @@ ERROR: lazy loading failed for package ‘nlmeVPC’ * GitHub: NA * Source code: https://github.com/cran/NMADiagT * Date/Publication: 2020-02-26 07:00:02 UTC -* Number of recursive dependencies: 79 +* Number of recursive dependencies: 78 Run `revdepcheck::cloud_details(, "NMADiagT")` for more info @@ -5454,32 +7025,108 @@ ERROR: lazy loading failed for package ‘NMADiagT’ ### CRAN ``` -* installing *source* package ‘NMADiagT’ ... -** package ‘NMADiagT’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required -Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace -Execution halted -ERROR: lazy loading failed for package ‘NMADiagT’ -* removing ‘/tmp/workdir/NMADiagT/old/NMADiagT.Rcheck/NMADiagT’ +* installing *source* package ‘NMADiagT’ ... +** package ‘NMADiagT’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘NMADiagT’ +* removing ‘/tmp/workdir/NMADiagT/old/NMADiagT.Rcheck/NMADiagT’ + + +``` +# obliqueRSF + +
+ +* Version: 0.1.2 +* GitHub: NA +* Source code: https://github.com/cran/obliqueRSF +* Date/Publication: 2022-08-28 20:50:02 UTC +* Number of recursive dependencies: 117 + +Run `revdepcheck::cloud_details(, "obliqueRSF")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/obliqueRSF/new/obliqueRSF.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘obliqueRSF/DESCRIPTION’ ... OK +... +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: OK + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/obliqueRSF/old/obliqueRSF.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘obliqueRSF/DESCRIPTION’ ... OK +... +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: OK + + + ``` -# ohun +# OlinkAnalyze
-* Version: 1.0.2 -* GitHub: https://github.com/ropensci/ohun -* Source code: https://github.com/cran/ohun -* Date/Publication: 2024-08-19 18:40:02 UTC -* Number of recursive dependencies: 100 +* Version: 4.0.2 +* GitHub: https://github.com/Olink-Proteomics/OlinkRPackage +* Source code: https://github.com/cran/OlinkAnalyze +* Date/Publication: 2024-11-22 16:20:02 UTC +* Number of recursive dependencies: 210 -Run `revdepcheck::cloud_details(, "ohun")` for more info +Run `revdepcheck::cloud_details(, "OlinkAnalyze")` for more info
@@ -5488,27 +7135,27 @@ Run `revdepcheck::cloud_details(, "ohun")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/ohun/new/ohun.Rcheck’ +* using log directory ‘/tmp/workdir/OlinkAnalyze/new/OlinkAnalyze.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘ohun/DESCRIPTION’ ... OK +* checking for file ‘OlinkAnalyze/DESCRIPTION’ ... OK ... -* this is package ‘ohun’ version ‘1.0.2’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘warbleR’ +--- finished re-building ‘plate_randomizer.Rmd’ + +SUMMARY: processing the following file failed: + ‘Vignett.Rmd’ + +Error: Vignette re-building failed. +Execution halted -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. * DONE -Status: 1 ERROR +Status: 1 ERROR, 2 NOTEs @@ -5518,27 +7165,27 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/ohun/old/ohun.Rcheck’ +* using log directory ‘/tmp/workdir/OlinkAnalyze/old/OlinkAnalyze.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘ohun/DESCRIPTION’ ... OK +* checking for file ‘OlinkAnalyze/DESCRIPTION’ ... OK ... -* this is package ‘ohun’ version ‘1.0.2’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘warbleR’ +--- finished re-building ‘plate_randomizer.Rmd’ + +SUMMARY: processing the following file failed: + ‘Vignett.Rmd’ + +Error: Vignette re-building failed. +Execution halted -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. * DONE -Status: 1 ERROR +Status: 1 ERROR, 2 NOTEs @@ -5611,7 +7258,7 @@ ERROR: lazy loading failed for package ‘optweight’ * GitHub: NA * Source code: https://github.com/cran/OVtool * Date/Publication: 2021-11-02 08:10:07 UTC -* Number of recursive dependencies: 157 +* Number of recursive dependencies: 156 Run `revdepcheck::cloud_details(, "OVtool")` for more info @@ -5665,17 +7312,17 @@ ERROR: lazy loading failed for package ‘OVtool’ ``` -# pagoda2 +# pammtools
-* Version: 1.0.12 -* GitHub: https://github.com/kharchenkolab/pagoda2 -* Source code: https://github.com/cran/pagoda2 -* Date/Publication: 2024-02-27 00:50:02 UTC -* Number of recursive dependencies: 162 +* Version: 0.5.93 +* GitHub: https://github.com/adibender/pammtools +* Source code: https://github.com/cran/pammtools +* Date/Publication: 2024-02-25 10:10:02 UTC +* Number of recursive dependencies: 124 -Run `revdepcheck::cloud_details(, "pagoda2")` for more info +Run `revdepcheck::cloud_details(, "pammtools")` for more info
@@ -5684,27 +7331,27 @@ Run `revdepcheck::cloud_details(, "pagoda2")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/pagoda2/new/pagoda2.Rcheck’ +* using log directory ‘/tmp/workdir/pammtools/new/pammtools.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘pagoda2/DESCRIPTION’ ... OK +* checking for file ‘pammtools/DESCRIPTION’ ... OK ... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rjson’ - -Package suggested but not available for checking: ‘scde’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking data for non-ASCII characters ... OK +* checking LazyData ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ * DONE -Status: 1 ERROR +Status: OK @@ -5714,154 +7361,30 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/pagoda2/old/pagoda2.Rcheck’ +* using log directory ‘/tmp/workdir/pammtools/old/pammtools.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘pagoda2/DESCRIPTION’ ... OK +* checking for file ‘pammtools/DESCRIPTION’ ... OK ... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rjson’ - -Package suggested but not available for checking: ‘scde’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. +* checking data for non-ASCII characters ... OK +* checking LazyData ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking R/sysdata.rda ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ * DONE -Status: 1 ERROR - - - - - -``` -# PAMpal - -
- -* Version: 1.2.1 -* GitHub: NA -* Source code: https://github.com/cran/PAMpal -* Date/Publication: 2024-07-11 22:50:02 UTC -* Number of recursive dependencies: 118 - -Run `revdepcheck::cloud_details(, "PAMpal")` for more info - -
- -## In both - -* checking whether package ‘PAMpal’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/PAMpal/new/PAMpal.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘PAMpal’ ... -** package ‘PAMpal’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rjson’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘PAMpal’ -* removing ‘/tmp/workdir/PAMpal/new/PAMpal.Rcheck/PAMpal’ - - -``` -### CRAN - -``` -* installing *source* package ‘PAMpal’ ... -** package ‘PAMpal’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rjson’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘PAMpal’ -* removing ‘/tmp/workdir/PAMpal/old/PAMpal.Rcheck/PAMpal’ - - -``` -# PAMscapes - -
- -* Version: 0.6.0 -* GitHub: NA -* Source code: https://github.com/cran/PAMscapes -* Date/Publication: 2024-07-09 22:50:02 UTC -* Number of recursive dependencies: 110 - -Run `revdepcheck::cloud_details(, "PAMscapes")` for more info - -
- -## In both - -* checking whether package ‘PAMscapes’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/PAMscapes/new/PAMscapes.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘PAMscapes’ ... -** package ‘PAMscapes’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rjson’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘PAMscapes’ -* removing ‘/tmp/workdir/PAMscapes/new/PAMscapes.Rcheck/PAMscapes’ +Status: OK -``` -### CRAN -``` -* installing *source* package ‘PAMscapes’ ... -** package ‘PAMscapes’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rjson’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘PAMscapes’ -* removing ‘/tmp/workdir/PAMscapes/old/PAMscapes.Rcheck/PAMscapes’ ``` @@ -5936,7 +7459,7 @@ ERROR: lazy loading failed for package ‘paths’ * Version: NA * GitHub: NA * Source code: https://github.com/cran/PathwaySpace -* Number of recursive dependencies: 70 +* Number of recursive dependencies: 69 Run `revdepcheck::cloud_details(, "PathwaySpace")` for more info @@ -5968,11 +7491,11 @@ Run `revdepcheck::cloud_details(, "PathwaySpace")` for more info
-* Version: 1.0.0 +* Version: 1.1.1.0 * GitHub: https://github.com/danforthcenter/pcvr * Source code: https://github.com/cran/pcvr -* Date/Publication: 2024-09-05 17:30:02 UTC -* Number of recursive dependencies: 189 +* Date/Publication: 2024-11-06 20:50:02 UTC +* Number of recursive dependencies: 192 Run `revdepcheck::cloud_details(, "pcvr")` for more info @@ -6007,182 +7530,120 @@ Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[ Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace Execution halted ERROR: lazy loading failed for package ‘pcvr’ -* removing ‘/tmp/workdir/pcvr/new/pcvr.Rcheck/pcvr’ - - -``` -### CRAN - -``` -* installing *source* package ‘pcvr’ ... -** package ‘pcvr’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Warning in check_dep_version() : - ABI version mismatch: -lme4 was built with Matrix ABI version 1 -Current Matrix ABI version is 0 -Please re-install lme4 from source or restore original ‘Matrix’ package -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required -Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace -Execution halted -ERROR: lazy loading failed for package ‘pcvr’ -* removing ‘/tmp/workdir/pcvr/old/pcvr.Rcheck/pcvr’ - - -``` -# PlasmaMutationDetector - -
- -* Version: 1.7.2 -* GitHub: NA -* Source code: https://github.com/cran/PlasmaMutationDetector -* Date/Publication: 2018-06-11 07:43:09 UTC -* Number of recursive dependencies: 91 - -Run `revdepcheck::cloud_details(, "PlasmaMutationDetector")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/PlasmaMutationDetector/new/PlasmaMutationDetector.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘PlasmaMutationDetector/DESCRIPTION’ ... OK -... -* this is package ‘PlasmaMutationDetector’ version ‘1.7.2’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'VariantAnnotation', 'rtracklayer' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/PlasmaMutationDetector/old/PlasmaMutationDetector.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘PlasmaMutationDetector/DESCRIPTION’ ... OK -... -* this is package ‘PlasmaMutationDetector’ version ‘1.7.2’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'VariantAnnotation', 'rtracklayer' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR +* removing ‘/tmp/workdir/pcvr/new/pcvr.Rcheck/pcvr’ +``` +### CRAN +``` +* installing *source* package ‘pcvr’ ... +** package ‘pcvr’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Warning in check_dep_version() : + ABI version mismatch: +lme4 was built with Matrix ABI version 1 +Current Matrix ABI version is 0 +Please re-install lme4 from source or restore original ‘Matrix’ package +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘pcvr’ +* removing ‘/tmp/workdir/pcvr/old/pcvr.Rcheck/pcvr’ ``` -# PlasmaMutationDetector2 +# PieGlyph
-* Version: 1.1.11 -* GitHub: NA -* Source code: https://github.com/cran/PlasmaMutationDetector2 -* Date/Publication: 2022-05-03 10:00:08 UTC -* Number of recursive dependencies: 91 +* Version: 1.0.0 +* GitHub: https://github.com/rishvish/PieGlyph +* Source code: https://github.com/cran/PieGlyph +* Date/Publication: 2024-06-28 12:00:02 UTC +* Number of recursive dependencies: 90 -Run `revdepcheck::cloud_details(, "PlasmaMutationDetector2")` for more info +Run `revdepcheck::cloud_details(, "PieGlyph")` for more info
-## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/PlasmaMutationDetector2/new/PlasmaMutationDetector2.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘PlasmaMutationDetector2/DESCRIPTION’ ... OK -... -* this is package ‘PlasmaMutationDetector2’ version ‘1.1.11’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'VariantAnnotation', 'rtracklayer' +## Newly broken -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR +* checking whether package ‘PieGlyph’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/PieGlyph/new/PieGlyph.Rcheck/00install.out’ for details. + ``` + +## Newly fixed + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘time-series-example.Rmd’ + ... + 135 92 1506 720 323 16155 0.1073748 10 0 1980.167 + 136 100 1360 646 310 16585 0.1116954 4 0 1980.250 + 137 95 1453 765 424 18117 0.1106382 8 0 1980.333 + 138 114 1522 820 403 17552 0.1118552 8 0 1980.417 + + > knitr::include_graphics("../man/figures/scatterpie-1.png") + + ... + before plotting. + Execution halted + + ‘PieGlyph.Rmd’ using ‘UTF-8’... OK + ‘interactive-pie-glyphs.Rmd’ using ‘UTF-8’... OK + ‘multinomial-classification-example.Rmd’ using ‘UTF-8’... OK + ‘pie-lollipop-example.Rmd’ using ‘UTF-8’... OK + ‘spatial-example.Rmd’ using ‘UTF-8’... OK + ‘time-series-example.Rmd’ using ‘UTF-8’... failed + ‘unusual-situations.Rmd’ using ‘UTF-8’... failed + ``` +## Installation +### Devel +``` +* installing *source* package ‘PieGlyph’ ... +** package ‘PieGlyph’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in get(x, envir = ns, inherits = FALSE) : + object 'is.waive' not found +Error: unable to load R code in package ‘PieGlyph’ +Execution halted +ERROR: lazy loading failed for package ‘PieGlyph’ +* removing ‘/tmp/workdir/PieGlyph/new/PieGlyph.Rcheck/PieGlyph’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/PlasmaMutationDetector2/old/PlasmaMutationDetector2.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘PlasmaMutationDetector2/DESCRIPTION’ ... OK -... -* this is package ‘PlasmaMutationDetector2’ version ‘1.1.11’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'VariantAnnotation', 'rtracklayer' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - +* installing *source* package ‘PieGlyph’ ... +** package ‘PieGlyph’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +*** copying figures +** building package indices +** installing vignettes +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (PieGlyph) ``` @@ -6194,7 +7655,7 @@ Status: 1 ERROR * GitHub: NA * Source code: https://github.com/cran/PLMIX * Date/Publication: 2019-09-04 11:50:02 UTC -* Number of recursive dependencies: 139 +* Number of recursive dependencies: 128 Run `revdepcheck::cloud_details(, "PLMIX")` for more info @@ -6217,12 +7678,12 @@ Run `revdepcheck::cloud_details(, "PLMIX")` for more info ** package ‘PLMIX’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o ... ** data *** moving datasets to lazyload DB @@ -6244,12 +7705,12 @@ ERROR: lazy loading failed for package ‘PLMIX’ ** package ‘PLMIX’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompProbZpartial.cpp -o CompProbZpartial.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateP.cpp -o CompRateP.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c CompRateYpartial.cpp -o CompRateYpartial.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c Estep.cpp -o Estep.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c PLMIXsim.cpp -o PLMIXsim.o ... ** data *** moving datasets to lazyload DB @@ -6263,82 +7724,6 @@ ERROR: lazy loading failed for package ‘PLMIX’ * removing ‘/tmp/workdir/PLMIX/old/PLMIX.Rcheck/PLMIX’ -``` -# polyRAD - -
- -* Version: 2.0.0 -* GitHub: https://github.com/lvclark/polyRAD -* Source code: https://github.com/cran/polyRAD -* Date/Publication: 2022-11-06 21:50:02 UTC -* Number of recursive dependencies: 135 - -Run `revdepcheck::cloud_details(, "polyRAD")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/polyRAD/new/polyRAD.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘polyRAD/DESCRIPTION’ ... OK -... - - When sourcing ‘polyRADtutorial.R’: -Error: Probabilities must be finite and non-negative! -Execution halted - - ‘isolocus_sorting.Rmd’ using ‘UTF-8’... OK - ‘polyRADtutorial.Rmd’ using ‘UTF-8’... failed -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 ERROR, 3 NOTEs - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/polyRAD/old/polyRAD.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘polyRAD/DESCRIPTION’ ... OK -... - - When sourcing ‘polyRADtutorial.R’: -Error: Probabilities must be finite and non-negative! -Execution halted - - ‘isolocus_sorting.Rmd’ using ‘UTF-8’... OK - ‘polyRADtutorial.Rmd’ using ‘UTF-8’... failed -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 ERROR, 3 NOTEs - - - - - ``` # popstudy @@ -6348,7 +7733,7 @@ Status: 1 ERROR, 3 NOTEs * GitHub: NA * Source code: https://github.com/cran/popstudy * Date/Publication: 2023-10-17 23:50:02 UTC -* Number of recursive dependencies: 240 +* Number of recursive dependencies: 242 Run `revdepcheck::cloud_details(, "popstudy")` for more info @@ -6418,53 +7803,65 @@ Run `revdepcheck::cloud_details(, "pould")` for more info
-## In both - -* checking whether package ‘pould’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/pould/new/pould.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘pould’ ... -** package ‘pould’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘pould’ -* removing ‘/tmp/workdir/pould/new/pould.Rcheck/pould’ +* using log directory ‘/tmp/workdir/pould/new/pould.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘pould/DESCRIPTION’ ... OK +... +* this is package ‘pould’ version ‘1.0.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘haplo.stats’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` ### CRAN ``` -* installing *source* package ‘pould’ ... -** package ‘pould’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘pould’ -* removing ‘/tmp/workdir/pould/old/pould.Rcheck/pould’ +* using log directory ‘/tmp/workdir/pould/old/pould.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘pould/DESCRIPTION’ ... OK +... +* this is package ‘pould’ version ‘1.0.1’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘haplo.stats’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` @@ -6540,7 +7937,7 @@ ERROR: lazy loading failed for package ‘PoweREST’ * GitHub: https://github.com/mihaiconstantin/powerly * Source code: https://github.com/cran/powerly * Date/Publication: 2022-09-09 14:10:01 UTC -* Number of recursive dependencies: 181 +* Number of recursive dependencies: 169 Run `revdepcheck::cloud_details(, "powerly")` for more info @@ -6610,7 +8007,7 @@ ERROR: lazy loading failed for package ‘powerly’ * GitHub: https://github.com/marjoleinF/pre * Source code: https://github.com/cran/pre * Date/Publication: 2024-01-12 19:30:02 UTC -* Number of recursive dependencies: 151 +* Number of recursive dependencies: 153 Run `revdepcheck::cloud_details(, "pre")` for more info @@ -6674,7 +8071,7 @@ ERROR: lazy loading failed for package ‘pre’ * GitHub: https://github.com/feiyoung/ProFAST * Source code: https://github.com/cran/ProFAST * Date/Publication: 2024-03-18 08:10:06 UTC -* Number of recursive dependencies: 245 +* Number of recursive dependencies: 248 Run `revdepcheck::cloud_details(, "ProFAST")` for more info @@ -6689,9 +8086,9 @@ Run `revdepcheck::cloud_details(, "ProFAST")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘ProFAST/DESCRIPTION’ ... OK @@ -6719,9 +8116,9 @@ Status: 1 ERROR * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘ProFAST/DESCRIPTION’ ... OK @@ -6750,73 +8147,71 @@ Status: 1 ERROR * GitHub: https://github.com/ocbe-uio/psbcSpeedUp * Source code: https://github.com/cran/psbcSpeedUp * Date/Publication: 2024-07-01 09:00:02 UTC -* Number of recursive dependencies: 130 +* Number of recursive dependencies: 119 Run `revdepcheck::cloud_details(, "psbcSpeedUp")` for more info
-## In both - -* checking whether package ‘psbcSpeedUp’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/psbcSpeedUp/new/psbcSpeedUp.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘psbcSpeedUp’ ... -** package ‘psbcSpeedUp’ successfully unpacked and MD5 sums checked -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether the compiler supports GNU C++... yes -checking whether g++ -std=gnu++17 accepts -g... yes +* using log directory ‘/tmp/workdir/psbcSpeedUp/new/psbcSpeedUp.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘psbcSpeedUp/DESCRIPTION’ ... OK ... -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘psbcSpeedUp’ -* removing ‘/tmp/workdir/psbcSpeedUp/new/psbcSpeedUp.Rcheck/psbcSpeedUp’ +* this is package ‘psbcSpeedUp’ version ‘2.0.7’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` ### CRAN ``` -* installing *source* package ‘psbcSpeedUp’ ... -** package ‘psbcSpeedUp’ successfully unpacked and MD5 sums checked -** using staged installation -checking whether the C++ compiler works... yes -checking for C++ compiler default output file name... a.out -checking for suffix of executables... -checking whether we are cross compiling... no -checking for suffix of object files... o -checking whether the compiler supports GNU C++... yes -checking whether g++ -std=gnu++17 accepts -g... yes +* using log directory ‘/tmp/workdir/psbcSpeedUp/old/psbcSpeedUp.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘psbcSpeedUp/DESCRIPTION’ ... OK ... -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘psbcSpeedUp’ -* removing ‘/tmp/workdir/psbcSpeedUp/old/psbcSpeedUp.Rcheck/psbcSpeedUp’ +* this is package ‘psbcSpeedUp’ version ‘2.0.7’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘riskRegression’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` @@ -6828,7 +8223,7 @@ ERROR: lazy loading failed for package ‘psbcSpeedUp’ * GitHub: https://github.com/JWiley/score-project * Source code: https://github.com/cran/pscore * Date/Publication: 2022-05-13 22:30:02 UTC -* Number of recursive dependencies: 169 +* Number of recursive dependencies: 171 Run `revdepcheck::cloud_details(, "pscore")` for more info @@ -6891,6 +8286,41 @@ ERROR: lazy loading failed for package ‘pscore’ * removing ‘/tmp/workdir/pscore/old/pscore.Rcheck/pscore’ +``` +# pubh + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/pubh +* Number of recursive dependencies: 160 + +Run `revdepcheck::cloud_details(, "pubh")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + ``` # qPCRtools @@ -6900,7 +8330,7 @@ ERROR: lazy loading failed for package ‘pscore’ * GitHub: https://github.com/lixiang117423/qPCRtools * Source code: https://github.com/cran/qPCRtools * Date/Publication: 2023-11-02 13:10:05 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 110 Run `revdepcheck::cloud_details(, "qPCRtools")` for more info @@ -6960,7 +8390,7 @@ ERROR: lazy loading failed for package ‘qPCRtools’ * GitHub: https://github.com/Kyuhyun07/qris * Source code: https://github.com/cran/qris * Date/Publication: 2024-03-05 14:40:03 UTC -* Number of recursive dependencies: 55 +* Number of recursive dependencies: 54 Run `revdepcheck::cloud_details(, "qris")` for more info @@ -6983,12 +8413,12 @@ Run `revdepcheck::cloud_details(, "qris")` for more info ** package ‘qris’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o ... installing to /tmp/workdir/qris/new/qris.Rcheck/00LOCK-qris/00new/qris/libs ** R @@ -7010,12 +8440,12 @@ ERROR: lazy loading failed for package ‘qris’ ** package ‘qris’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++11 -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Amat.cpp -o Amat.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++11 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c ghat.cpp -o ghat.o ... installing to /tmp/workdir/qris/old/qris.Rcheck/00LOCK-qris/00new/qris/libs ** R @@ -7038,7 +8468,7 @@ ERROR: lazy loading failed for package ‘qris’ * GitHub: NA * Source code: https://github.com/cran/qte * Date/Publication: 2022-09-01 14:30:02 UTC -* Number of recursive dependencies: 87 +* Number of recursive dependencies: 123 Run `revdepcheck::cloud_details(, "qte")` for more info @@ -7164,7 +8594,7 @@ ERROR: lazy loading failed for package ‘quantilogram’ * GitHub: NA * Source code: https://github.com/cran/quid * Date/Publication: 2021-12-09 09:00:02 UTC -* Number of recursive dependencies: 95 +* Number of recursive dependencies: 94 Run `revdepcheck::cloud_details(, "quid")` for more info @@ -7228,7 +8658,7 @@ ERROR: lazy loading failed for package ‘quid’ * GitHub: NA * Source code: https://github.com/cran/RcmdrPlugin.RiskDemo * Date/Publication: 2024-02-06 09:20:02 UTC -* Number of recursive dependencies: 200 +* Number of recursive dependencies: 201 Run `revdepcheck::cloud_details(, "RcmdrPlugin.RiskDemo")` for more info @@ -7300,7 +8730,7 @@ ERROR: lazy loading failed for package ‘RcmdrPlugin.RiskDemo’ * GitHub: https://github.com/bquast/rddtools * Source code: https://github.com/cran/rddtools * Date/Publication: 2022-01-10 12:42:49 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 108 Run `revdepcheck::cloud_details(, "rddtools")` for more info @@ -7352,16 +8782,17 @@ ERROR: lazy loading failed for package ‘rddtools’ ``` -# RGraphSpace +# relsurv
-* Version: NA +* Version: 2.3-1 * GitHub: NA -* Source code: https://github.com/cran/RGraphSpace -* Number of recursive dependencies: 65 +* Source code: https://github.com/cran/relsurv +* Date/Publication: 2025-01-20 15:40:01 UTC +* Number of recursive dependencies: 112 -Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info +Run `revdepcheck::cloud_details(, "relsurv")` for more info
@@ -7370,7 +8801,27 @@ Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info ### Devel ``` - +* using log directory ‘/tmp/workdir/relsurv/new/relsurv.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘relsurv/DESCRIPTION’ ... OK +... +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking use of PKG_*FLAGS in Makefiles ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: OK @@ -7380,23 +8831,119 @@ Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info ### CRAN ``` +* using log directory ‘/tmp/workdir/relsurv/old/relsurv.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘relsurv/DESCRIPTION’ ... OK +... +* checking line endings in C/C++/Fortran sources/headers ... OK +* checking line endings in Makefiles ... OK +* checking compilation flags in Makevars ... OK +* checking for GNU extensions in Makefiles ... OK +* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK +* checking use of PKG_*FLAGS in Makefiles ... OK +* checking compiled code ... OK +* checking examples ... OK +* DONE +Status: OK + + + + + +``` +# ReporterScore + +
+* Version: 0.1.9 +* GitHub: https://github.com/Asa12138/ReporterScore +* Source code: https://github.com/cran/ReporterScore +* Date/Publication: 2024-11-28 14:10:06 UTC +* Number of recursive dependencies: 250 +Run `revdepcheck::cloud_details(, "ReporterScore")` for more info +
+## Error before installation +### Devel ``` -# rms +* using log directory ‘/tmp/workdir/ReporterScore/new/ReporterScore.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘ReporterScore/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘ReporterScore.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 1 NOTE + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/ReporterScore/old/ReporterScore.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘ReporterScore/DESCRIPTION’ ... OK +... +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘ReporterScore.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 1 NOTE + + + + + +``` +# RGraphSpace
* Version: NA * GitHub: NA -* Source code: https://github.com/cran/rms -* Number of recursive dependencies: 145 +* Source code: https://github.com/cran/RGraphSpace +* Number of recursive dependencies: 64 -Run `revdepcheck::cloud_details(, "rms")` for more info +Run `revdepcheck::cloud_details(, "RGraphSpace")` for more info
@@ -7422,17 +8969,17 @@ Run `revdepcheck::cloud_details(, "rms")` for more info ``` -# RNAseqQC +# riskRegression
-* Version: 0.2.1 -* GitHub: https://github.com/frederikziebell/RNAseqQC -* Source code: https://github.com/cran/RNAseqQC -* Date/Publication: 2024-07-15 14:40:02 UTC -* Number of recursive dependencies: 162 +* Version: 2023.12.21 +* GitHub: https://github.com/tagteam/riskRegression +* Source code: https://github.com/cran/riskRegression +* Date/Publication: 2023-12-19 17:00:02 UTC +* Number of recursive dependencies: 185 -Run `revdepcheck::cloud_details(, "RNAseqQC")` for more info +Run `revdepcheck::cloud_details(, "riskRegression")` for more info
@@ -7441,22 +8988,22 @@ Run `revdepcheck::cloud_details(, "RNAseqQC")` for more info ### Devel ``` -* using log directory ‘/tmp/workdir/RNAseqQC/new/RNAseqQC.Rcheck’ +* using log directory ‘/tmp/workdir/riskRegression/new/riskRegression.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘RNAseqQC/DESCRIPTION’ ... OK +* checking for file ‘riskRegression/DESCRIPTION’ ... OK ... +* this is package ‘riskRegression’ version ‘2023.12.21’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: 'ensembldb', 'ComplexHeatmap' - -Package suggested but not available for checking: ‘recount3’ +Package required but not available: ‘rms’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -7471,27 +9018,173 @@ Status: 1 ERROR ### CRAN ``` -* using log directory ‘/tmp/workdir/RNAseqQC/old/RNAseqQC.Rcheck’ +* using log directory ‘/tmp/workdir/riskRegression/old/riskRegression.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ -* checking for file ‘RNAseqQC/DESCRIPTION’ ... OK +* checking for file ‘riskRegression/DESCRIPTION’ ... OK ... +* this is package ‘riskRegression’ version ‘2023.12.21’ +* package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: 'ensembldb', 'ComplexHeatmap' - -Package suggested but not available for checking: ‘recount3’ +Package required but not available: ‘rms’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. * DONE -Status: 1 ERROR +Status: 1 ERROR + + + + + +``` +# rmlnomogram + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/rmlnomogram +* Number of recursive dependencies: 181 + +Run `revdepcheck::cloud_details(, "rmlnomogram")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + +``` +# rms + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/rms +* Number of recursive dependencies: 148 + +Run `revdepcheck::cloud_details(, "rms")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + +``` +# robber + +
+ +* Version: 0.2.4 +* GitHub: https://github.com/Chabert-Liddell/robber +* Source code: https://github.com/cran/robber +* Date/Publication: 2024-02-07 13:50:02 UTC +* Number of recursive dependencies: 143 + +Run `revdepcheck::cloud_details(, "robber")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/robber/new/robber.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘robber/DESCRIPTION’ ... OK +... +* checking tests ... OK + Running ‘spelling.R’ + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘topological-analysis.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/robber/old/robber.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘robber/DESCRIPTION’ ... OK +... +* checking tests ... OK + Running ‘spelling.R’ + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... OK + ‘topological-analysis.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: OK @@ -7502,11 +9195,11 @@ Status: 1 ERROR
-* Version: 1.0.2 +* Version: 1.2.0 * GitHub: https://github.com/aalfons/robmed * Source code: https://github.com/cran/robmed -* Date/Publication: 2023-06-16 23:00:02 UTC -* Number of recursive dependencies: 60 +* Date/Publication: 2024-12-10 00:00:02 UTC +* Number of recursive dependencies: 59 Run `revdepcheck::cloud_details(, "robmed")` for more info @@ -7566,11 +9259,11 @@ ERROR: lazy loading failed for package ‘robmed’
-* Version: 0.1.0 +* Version: 0.1.1 * GitHub: https://github.com/aalfons/robmedExtra * Source code: https://github.com/cran/robmedExtra -* Date/Publication: 2023-06-02 14:40:02 UTC -* Number of recursive dependencies: 90 +* Date/Publication: 2024-11-03 12:10:01 UTC +* Number of recursive dependencies: 91 Run `revdepcheck::cloud_details(, "robmedExtra")` for more info @@ -7690,7 +9383,7 @@ ERROR: lazy loading failed for package ‘RPPanalyzer’ * GitHub: NA * Source code: https://github.com/cran/RQdeltaCT * Date/Publication: 2024-04-17 15:50:02 UTC -* Number of recursive dependencies: 166 +* Number of recursive dependencies: 163 Run `revdepcheck::cloud_details(, "RQdeltaCT")` for more info @@ -7753,7 +9446,7 @@ ERROR: lazy loading failed for package ‘RQdeltaCT’ * Version: NA * GitHub: NA * Source code: https://github.com/cran/RRPP -* Number of recursive dependencies: 68 +* Number of recursive dependencies: 67 Run `revdepcheck::cloud_details(, "RRPP")` for more info @@ -7789,7 +9482,7 @@ Run `revdepcheck::cloud_details(, "RRPP")` for more info * GitHub: https://github.com/stan-dev/rstanarm * Source code: https://github.com/cran/rstanarm * Date/Publication: 2024-01-18 23:00:03 UTC -* Number of recursive dependencies: 138 +* Number of recursive dependencies: 140 Run `revdepcheck::cloud_details(, "rstanarm")` for more info @@ -7812,15 +9505,15 @@ Run `revdepcheck::cloud_details(, "rstanarm")` for more info ** package ‘rstanarm’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 "/opt/R/4.3.1/lib/R/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/bernoulli.stan Wrote C++ file "stan_files/bernoulli.cc" ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:16: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/usr/local/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ g++: fatal error: Killed signal terminated program cc1plus @@ -7839,15 +9532,15 @@ ERROR: compilation failed for package ‘rstanarm’ ** package ‘rstanarm’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ using C++17 "/opt/R/4.3.1/lib/R/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/bernoulli.stan Wrote C++ file "stan_files/bernoulli.cc" ... -/opt/R/4.3.1/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:16: required from here -/opt/R/4.3.1/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] +/usr/local/lib/R/site-library/StanHeaders/include/stan/math/rev/fun/quad_form.hpp:88:0: required from here +/usr/local/lib/R/site-library/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ g++: fatal error: Killed signal terminated program cc1plus @@ -7858,92 +9551,16 @@ ERROR: compilation failed for package ‘rstanarm’ * removing ‘/tmp/workdir/rstanarm/old/rstanarm.Rcheck/rstanarm’ -``` -# RTIGER - -
- -* Version: 2.1.0 -* GitHub: NA -* Source code: https://github.com/cran/RTIGER -* Date/Publication: 2023-03-29 09:20:02 UTC -* Number of recursive dependencies: 160 - -Run `revdepcheck::cloud_details(, "RTIGER")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/RTIGER/new/RTIGER.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘RTIGER/DESCRIPTION’ ... OK -... -* checking installed files from ‘inst/doc’ ... OK -* checking files in ‘vignettes’ ... OK -* checking examples ... OK -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘tutorial_RTIGER.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 NOTE - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/RTIGER/old/RTIGER.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘RTIGER/DESCRIPTION’ ... OK -... -* checking installed files from ‘inst/doc’ ... OK -* checking files in ‘vignettes’ ... OK -* checking examples ... OK -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘tutorial_RTIGER.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 NOTE - - - - - ``` # rTwig
-* Version: 1.1.0 +* Version: 1.3.0 * GitHub: https://github.com/aidanmorales/rTwig * Source code: https://github.com/cran/rTwig -* Date/Publication: 2024-08-21 00:50:02 UTC -* Number of recursive dependencies: 147 +* Date/Publication: 2024-11-21 21:30:02 UTC +* Number of recursive dependencies: 141 Run `revdepcheck::cloud_details(, "rTwig")` for more info @@ -7966,12 +9583,12 @@ Run `revdepcheck::cloud_details(, "rTwig")` for more info ** package ‘rTwig’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c box_counting.cpp -o box_counting.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c colors.cpp -o colors.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cylinder_mesh.cpp -o cylinder_mesh.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c box_counting.cpp -o box_counting.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cluster_cloud.cpp -o cluster_cloud.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c colors.cpp -o colors.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o ... ** data *** moving datasets to lazyload DB @@ -7993,12 +9610,12 @@ ERROR: lazy loading failed for package ‘rTwig’ ** package ‘rTwig’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c box_counting.cpp -o box_counting.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c colors.cpp -o colors.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cylinder_mesh.cpp -o cylinder_mesh.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c box_counting.cpp -o box_counting.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cluster_cloud.cpp -o cluster_cloud.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c colors.cpp -o colors.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c convex_hull.cpp -o convex_hull.o ... ** data *** moving datasets to lazyload DB @@ -8021,7 +9638,7 @@ ERROR: lazy loading failed for package ‘rTwig’ * GitHub: https://github.com/THERMOSTATS/RVA * Source code: https://github.com/cran/RVA * Date/Publication: 2021-11-01 21:40:02 UTC -* Number of recursive dependencies: 207 +* Number of recursive dependencies: 210 Run `revdepcheck::cloud_details(, "RVA")` for more info @@ -8036,9 +9653,9 @@ Run `revdepcheck::cloud_details(, "RVA")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘RVA/DESCRIPTION’ ... OK @@ -8047,7 +9664,7 @@ Run `revdepcheck::cloud_details(, "RVA")` for more info * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: 'ComplexHeatmap', 'rWikiPathways' +Package required but not available: ‘clusterProfiler’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -8066,9 +9683,9 @@ Status: 1 ERROR * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘RVA/DESCRIPTION’ ... OK @@ -8077,7 +9694,7 @@ Status: 1 ERROR * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... ERROR -Packages required but not available: 'ComplexHeatmap', 'rWikiPathways' +Package required but not available: ‘clusterProfiler’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. @@ -8089,79 +9706,132 @@ Status: 1 ERROR ``` -# scCustomize +# S4DM
-* Version: 2.1.2 -* GitHub: https://github.com/samuel-marsh/scCustomize -* Source code: https://github.com/cran/scCustomize -* Date/Publication: 2024-02-28 19:40:02 UTC -* Number of recursive dependencies: 267 +* Version: 0.0.1 +* GitHub: NA +* Source code: https://github.com/cran/S4DM +* Date/Publication: 2025-01-10 21:00:02 UTC +* Number of recursive dependencies: 138 -Run `revdepcheck::cloud_details(, "scCustomize")` for more info +Run `revdepcheck::cloud_details(, "S4DM")` for more info
-## Error before installation +## In both + +* checking whether package ‘S4DM’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/S4DM/new/S4DM.Rcheck/00install.out’ for details. + ``` + +## Installation ### Devel ``` -* using log directory ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘scCustomize/DESCRIPTION’ ... OK -... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘scCustomize’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE +* installing *source* package ‘S4DM’ ... +** package ‘S4DM’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘S4DM’ +* removing ‘/tmp/workdir/S4DM/new/S4DM.Rcheck/S4DM’ +``` +### CRAN +``` +* installing *source* package ‘S4DM’ ... +** package ‘S4DM’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘S4DM’ +* removing ‘/tmp/workdir/S4DM/old/S4DM.Rcheck/S4DM’ ``` -### CRAN +# scCustomize + +
+ +* Version: 3.0.1 +* GitHub: https://github.com/samuel-marsh/scCustomize +* Source code: https://github.com/cran/scCustomize +* Date/Publication: 2024-12-18 18:40:02 UTC +* Number of recursive dependencies: 272 + +Run `revdepcheck::cloud_details(, "scCustomize")` for more info + +
+ +## In both + +* checking whether package ‘scCustomize’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck/00install.out’ for details. + ``` + +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘Nebulosa’ + ``` + +## Installation + +### Devel ``` -* using log directory ‘/tmp/workdir/scCustomize/old/scCustomize.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘scCustomize/DESCRIPTION’ ... OK -... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘scCustomize’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/scCustomize/old/scCustomize.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE +* installing *source* package ‘scCustomize’ ... +** package ‘scCustomize’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** byte-compile and prepare package for lazy loading +Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required +Execution halted +ERROR: lazy loading failed for package ‘scCustomize’ +* removing ‘/tmp/workdir/scCustomize/new/scCustomize.Rcheck/scCustomize’ +``` +### CRAN +``` +* installing *source* package ‘scCustomize’ ... +** package ‘scCustomize’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** byte-compile and prepare package for lazy loading +Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required +Execution halted +ERROR: lazy loading failed for package ‘scCustomize’ +* removing ‘/tmp/workdir/scCustomize/old/scCustomize.Rcheck/scCustomize’ ``` @@ -8173,7 +9843,7 @@ Status: 1 ERROR, 1 NOTE * GitHub: https://github.com/Liuy12/SCdeconR * Source code: https://github.com/cran/SCdeconR * Date/Publication: 2024-03-22 19:20:02 UTC -* Number of recursive dependencies: 236 +* Number of recursive dependencies: 237 Run `revdepcheck::cloud_details(, "SCdeconR")` for more info @@ -8231,7 +9901,7 @@ ERROR: lazy loading failed for package ‘SCdeconR’ * GitHub: https://github.com/carmonalab/scGate * Source code: https://github.com/cran/scGate * Date/Publication: 2024-04-23 08:50:02 UTC -* Number of recursive dependencies: 179 +* Number of recursive dependencies: 180 Run `revdepcheck::cloud_details(, "scGate")` for more info @@ -8326,9 +9996,9 @@ Run `revdepcheck::cloud_details(, "SCIntRuler")` for more info ** package ‘SCIntRuler’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SCIntRuler.so RcppExports.o crossdist.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/SCIntRuler/new/SCIntRuler.Rcheck/00LOCK-SCIntRuler/00new/SCIntRuler/libs ** R @@ -8353,99 +10023,23 @@ ERROR: lazy loading failed for package ‘SCIntRuler’ ** package ‘SCIntRuler’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c crossdist.cpp -o crossdist.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SCIntRuler.so RcppExports.o crossdist.o -L/opt/R/4.3.1/lib/R/lib -lR -installing to /tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/00LOCK-SCIntRuler/00new/SCIntRuler/libs -** R -... -** data -*** moving datasets to lazyload DB -** inst -** byte-compile and prepare package for lazy loading -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required -Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace -Execution halted -ERROR: lazy loading failed for package ‘SCIntRuler’ -* removing ‘/tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/SCIntRuler’ - - -``` -# scITD - -
- -* Version: 1.0.4 -* GitHub: NA -* Source code: https://github.com/cran/scITD -* Date/Publication: 2023-09-08 16:00:02 UTC -* Number of recursive dependencies: 233 - -Run `revdepcheck::cloud_details(, "scITD")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/scITD/new/scITD.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘scITD/DESCRIPTION’ ... OK -... -* checking package dependencies ... ERROR -Package required but not available: ‘ComplexHeatmap’ - -Packages suggested but not available for checking: - 'simplifyEnrichment', 'conos', 'pagoda2' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/scITD/old/scITD.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘scITD/DESCRIPTION’ ... OK -... -* checking package dependencies ... ERROR -Package required but not available: ‘ComplexHeatmap’ - -Packages suggested but not available for checking: - 'simplifyEnrichment', 'conos', 'pagoda2' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - +installing to /tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/00LOCK-SCIntRuler/00new/SCIntRuler/libs +** R +... +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘SCIntRuler’ +* removing ‘/tmp/workdir/SCIntRuler/old/SCIntRuler.Rcheck/SCIntRuler’ ``` @@ -8517,11 +10111,11 @@ ERROR: lazy loading failed for package ‘scMappR’
-* Version: 2.2.5 +* Version: 2.2.6 * GitHub: NA * Source code: https://github.com/cran/scpi -* Date/Publication: 2023-11-01 06:10:07 UTC -* Number of recursive dependencies: 98 +* Date/Publication: 2024-11-11 23:40:02 UTC +* Number of recursive dependencies: 96 Run `revdepcheck::cloud_details(, "scpi")` for more info @@ -8590,6 +10184,82 @@ ERROR: lazy loading failed for package ‘scpi’ * removing ‘/tmp/workdir/scpi/old/scpi.Rcheck/scpi’ +``` +# SCpubr + +
+ +* Version: 2.0.2 +* GitHub: https://github.com/enblacar/SCpubr +* Source code: https://github.com/cran/SCpubr +* Date/Publication: 2023-10-11 09:50:02 UTC +* Number of recursive dependencies: 301 + +Run `revdepcheck::cloud_details(, "SCpubr")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/SCpubr/new/SCpubr.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘SCpubr/DESCRIPTION’ ... OK +... +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘reference_manual.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 2 NOTEs + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/SCpubr/old/SCpubr.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘SCpubr/DESCRIPTION’ ... OK +... +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... OK + Running ‘testthat.R’ +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... NONE + ‘reference_manual.Rmd’ using ‘UTF-8’... OK +* checking re-building of vignette outputs ... OK +* DONE +Status: 2 NOTEs + + + + + ``` # scRNAstat @@ -8732,82 +10402,6 @@ ERROR: lazy loading failed for package ‘sectorgap’ * removing ‘/tmp/workdir/sectorgap/old/sectorgap.Rcheck/sectorgap’ -``` -# SeedMatchR - -
- -* Version: 1.1.1 -* GitHub: NA -* Source code: https://github.com/cran/SeedMatchR -* Date/Publication: 2023-10-24 20:30:02 UTC -* Number of recursive dependencies: 167 - -Run `revdepcheck::cloud_details(, "SeedMatchR")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/SeedMatchR/new/SeedMatchR.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘SeedMatchR/DESCRIPTION’ ... OK -... -* this is package ‘SeedMatchR’ version ‘1.1.1’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'msa', 'GenomicFeatures' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/SeedMatchR/old/SeedMatchR.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘SeedMatchR/DESCRIPTION’ ... OK -... -* this is package ‘SeedMatchR’ version ‘1.1.1’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Packages required but not available: 'msa', 'GenomicFeatures' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - ``` # SEERaBomb @@ -8840,11 +10434,11 @@ Run `revdepcheck::cloud_details(, "SEERaBomb")` for more info ** package ‘SEERaBomb’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SEERaBomb.so RcppExports.o SEERaBomb_init.o fillPYM.o -L/opt/R/4.3.1/lib/R/lib -lR ... ** R @@ -8867,11 +10461,11 @@ ERROR: lazy loading failed for package ‘SEERaBomb’ ** package ‘SEERaBomb’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c SEERaBomb_init.c -o SEERaBomb_init.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c fillPYM.cpp -o fillPYM.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SEERaBomb.so RcppExports.o SEERaBomb_init.o fillPYM.o -L/opt/R/4.3.1/lib/R/lib -lR ... ** R @@ -8953,7 +10547,7 @@ ERROR: lazy loading failed for package ‘semicmprskcoxmsm’ * GitHub: https://github.com/IbtihelRebhi/SensMap * Source code: https://github.com/cran/SensMap * Date/Publication: 2022-07-04 19:00:02 UTC -* Number of recursive dependencies: 145 +* Number of recursive dependencies: 148 Run `revdepcheck::cloud_details(, "SensMap")` for more info @@ -9008,156 +10602,82 @@ ERROR: lazy loading failed for package ‘SensMap’ * removing ‘/tmp/workdir/SensMap/old/SensMap.Rcheck/SensMap’ -``` -# sephora - -
- -* Version: 0.1.31 -* GitHub: NA -* Source code: https://github.com/cran/sephora -* Date/Publication: 2024-01-17 18:40:02 UTC -* Number of recursive dependencies: 139 - -Run `revdepcheck::cloud_details(, "sephora")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/sephora/new/sephora.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘sephora/DESCRIPTION’ ... OK -... -* this is package ‘sephora’ version ‘0.1.31’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘spiralize’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/sephora/old/sephora.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘sephora/DESCRIPTION’ ... OK -... -* this is package ‘sephora’ version ‘0.1.31’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘spiralize’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - ``` # Seurat
-* Version: 5.1.0 +* Version: 5.2.0 * GitHub: https://github.com/satijalab/seurat * Source code: https://github.com/cran/Seurat -* Date/Publication: 2024-05-10 17:23:17 UTC -* Number of recursive dependencies: 267 +* Date/Publication: 2025-01-13 23:20:01 UTC +* Number of recursive dependencies: 281 Run `revdepcheck::cloud_details(, "Seurat")` for more info
-## Error before installation +## In both + +* checking whether package ‘Seurat’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/Seurat/new/Seurat.Rcheck/00install.out’ for details. + ``` + +## Installation ### Devel ``` -* using log directory ‘/tmp/workdir/Seurat/new/Seurat.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘Seurat/DESCRIPTION’ ... OK +* installing *source* package ‘Seurat’ ... +** package ‘Seurat’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c ModularityOptimizer.cpp -o ModularityOptimizer.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RModularityOptimizer.cpp -o RModularityOptimizer.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, ... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘Seurat’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/Seurat/new/Seurat.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE - - - +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required +Execution halted +ERROR: lazy loading failed for package ‘Seurat’ +* removing ‘/tmp/workdir/Seurat/new/Seurat.Rcheck/Seurat’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/Seurat/old/Seurat.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘Seurat/DESCRIPTION’ ... OK +* installing *source* package ‘Seurat’ ... +** package ‘Seurat’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +using C++17 +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c ModularityOptimizer.cpp -o ModularityOptimizer.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppEigen/include' -I'/usr/local/lib/R/site-library/RcppProgress/include' -I/usr/local/include -fpic -g -O2 -c RModularityOptimizer.cpp -o RModularityOptimizer.o +In file included from /usr/local/lib/R/site-library/RcppEigen/include/Eigen/Core:205, ... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘Seurat’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/Seurat/old/Seurat.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE - - - +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error: package or namespace load failed for ‘SeuratObject’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is being loaded, but >= 1.6.4 is required +Execution halted +ERROR: lazy loading failed for package ‘Seurat’ +* removing ‘/tmp/workdir/Seurat/old/Seurat.Rcheck/Seurat’ ``` @@ -9169,7 +10689,7 @@ Status: 1 ERROR, 1 NOTE * GitHub: https://github.com/YuLab-SMU/shinyTempSignal * Source code: https://github.com/cran/shinyTempSignal * Date/Publication: 2024-03-06 08:00:02 UTC -* Number of recursive dependencies: 137 +* Number of recursive dependencies: 134 Run `revdepcheck::cloud_details(, "shinyTempSignal")` for more info @@ -9229,7 +10749,7 @@ ERROR: lazy loading failed for package ‘shinyTempSignal’ * GitHub: https://github.com/mjuraska/sievePH * Source code: https://github.com/cran/sievePH * Date/Publication: 2024-05-17 23:40:02 UTC -* Number of recursive dependencies: 72 +* Number of recursive dependencies: 76 Run `revdepcheck::cloud_details(, "sievePH")` for more info @@ -9252,13 +10772,14 @@ Run `revdepcheck::cloud_details(, "sievePH")` for more info ** package ‘sievePH’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sievePH.so RcppExports.o kernel_sievePH_utils.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/sievePH/new/sievePH.Rcheck/00LOCK-sievePH/00new/sievePH/libs ** R ** byte-compile and prepare package for lazy loading +Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘sievePH’ Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace @@ -9275,9 +10796,9 @@ ERROR: lazy loading failed for package ‘sievePH’ ** package ‘sievePH’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c kernel_sievePH_utils.cpp -o kernel_sievePH_utils.o g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sievePH.so RcppExports.o kernel_sievePH_utils.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/sievePH/old/sievePH.Rcheck/00LOCK-sievePH/00new/sievePH/libs ** R @@ -9291,79 +10812,81 @@ ERROR: lazy loading failed for package ‘sievePH’ ``` -# sigminer +# SiFINeT + +
+ +* Version: 1.13 +* GitHub: NA +* Source code: https://github.com/cran/SiFINeT +* Date/Publication: 2025-01-16 15:10:05 UTC +* Number of recursive dependencies: 75 -
+Run `revdepcheck::cloud_details(, "SiFINeT")` for more info -* Version: 2.3.1 -* GitHub: https://github.com/ShixiangWang/sigminer -* Source code: https://github.com/cran/sigminer -* Date/Publication: 2024-05-11 08:50:02 UTC -* Number of recursive dependencies: 209 +
-Run `revdepcheck::cloud_details(, "sigminer")` for more info +## In both -
+* checking whether package ‘SiFINeT’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/SiFINeT/new/SiFINeT.Rcheck/00install.out’ for details. + ``` -## Error before installation +## Installation ### Devel ``` -* using log directory ‘/tmp/workdir/sigminer/new/sigminer.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘sigminer/DESCRIPTION’ ... OK +* installing *source* package ‘SiFINeT’ ... +** package ‘SiFINeT’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c EstNull.cpp -o EstNull.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp.cpp -o cal_coexp.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp_sp.cpp -o cal_coexp_sp.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_conn.cpp -o cal_conn.o ... - 18. └─rlang::abort(...) +installing to /tmp/workdir/SiFINeT/new/SiFINeT.Rcheck/00LOCK-SiFINeT/00new/SiFINeT/libs +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace Execution halted -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘cnsignature.Rmd’ using ‘UTF-8’... OK - ‘sigminer.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 ERROR, 2 NOTEs - - - +ERROR: lazy loading failed for package ‘SiFINeT’ +* removing ‘/tmp/workdir/SiFINeT/new/SiFINeT.Rcheck/SiFINeT’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/sigminer/old/sigminer.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘sigminer/DESCRIPTION’ ... OK +* installing *source* package ‘SiFINeT’ ... +** package ‘SiFINeT’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c EstNull.cpp -o EstNull.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp.cpp -o cal_coexp.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_coexp_sp.cpp -o cal_coexp_sp.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c cal_conn.cpp -o cal_conn.o ... -* checking files in ‘vignettes’ ... OK -* checking examples ... OK -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘cnsignature.Rmd’ using ‘UTF-8’... OK - ‘sigminer.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 2 NOTEs - - - +installing to /tmp/workdir/SiFINeT/old/SiFINeT.Rcheck/00LOCK-SiFINeT/00new/SiFINeT/libs +** R +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘SiFINeT’ +* removing ‘/tmp/workdir/SiFINeT/old/SiFINeT.Rcheck/SiFINeT’ ``` @@ -9375,71 +10898,73 @@ Status: 2 NOTEs * GitHub: https://github.com/stuart-lab/signac * Source code: https://github.com/cran/Signac * Date/Publication: 2024-08-21 07:40:02 UTC -* Number of recursive dependencies: 247 +* Number of recursive dependencies: 246 Run `revdepcheck::cloud_details(, "Signac")` for more info
-## Error before installation +## In both + +* checking whether package ‘Signac’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/Signac/new/Signac.Rcheck/00install.out’ for details. + ``` + +## Installation ### Devel ``` -* using log directory ‘/tmp/workdir/Signac/new/Signac.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘Signac/DESCRIPTION’ ... OK +* installing *source* package ‘Signac’ ... +** package ‘Signac’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c filter.cpp -o filter.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c group.cpp -o group.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c split.cpp -o split.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c validate.cpp -o validate.o ... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘Signac’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/Signac/new/Signac.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE - - - +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘Signac’ +* removing ‘/tmp/workdir/Signac/new/Signac.Rcheck/Signac’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/Signac/old/Signac.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘Signac/DESCRIPTION’ ... OK +* installing *source* package ‘Signac’ ... +** package ‘Signac’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c filter.cpp -o filter.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c group.cpp -o group.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c split.cpp -o split.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c validate.cpp -o validate.o ... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘Signac’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/Signac/old/Signac.Rcheck/00install.out’ for details. -* DONE -Status: 1 ERROR, 1 NOTE - - - +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘Signac’ +* removing ‘/tmp/workdir/Signac/old/Signac.Rcheck/Signac’ ``` @@ -9451,7 +10976,7 @@ Status: 1 ERROR, 1 NOTE * GitHub: https://github.com/arcaldwell49/SimplyAgree * Source code: https://github.com/cran/SimplyAgree * Date/Publication: 2024-03-21 14:20:06 UTC -* Number of recursive dependencies: 115 +* Number of recursive dependencies: 118 Run `revdepcheck::cloud_details(, "SimplyAgree")` for more info @@ -9516,16 +11041,51 @@ ERROR: lazy loading failed for package ‘SimplyAgree’ * removing ‘/tmp/workdir/SimplyAgree/old/SimplyAgree.Rcheck/SimplyAgree’ +``` +# smer + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/smer +* Number of recursive dependencies: 114 + +Run `revdepcheck::cloud_details(, "smer")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + ``` # SNPassoc
-* Version: 2.1-0 +* Version: 2.1-2 * GitHub: https://github.com/isglobal-brge/SNPassoc * Source code: https://github.com/cran/SNPassoc -* Date/Publication: 2022-12-14 20:20:02 UTC -* Number of recursive dependencies: 168 +* Date/Publication: 2024-10-28 17:30:02 UTC +* Number of recursive dependencies: 164 Run `revdepcheck::cloud_details(, "SNPassoc")` for more info @@ -9540,23 +11100,23 @@ Run `revdepcheck::cloud_details(, "SNPassoc")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘SNPassoc/DESCRIPTION’ ... OK ... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘SNPassoc’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/SNPassoc/new/SNPassoc.Rcheck/00install.out’ for details. +* this is package ‘SNPassoc’ version ‘2.1-2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘haplo.stats’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. * DONE -Status: 1 ERROR, 1 NOTE +Status: 1 ERROR @@ -9570,23 +11130,23 @@ Status: 1 ERROR, 1 NOTE * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘SNPassoc/DESCRIPTION’ ... OK ... -* checking if there is a namespace ... OK -* checking for executable files ... OK -* checking for hidden files and directories ... OK -* checking for portable file names ... OK -* checking for sufficient/correct file permissions ... OK -* checking whether package ‘SNPassoc’ can be installed ... ERROR -Installation failed. -See ‘/tmp/workdir/SNPassoc/old/SNPassoc.Rcheck/00install.out’ for details. +* this is package ‘SNPassoc’ version ‘2.1-2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘haplo.stats’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. * DONE -Status: 1 ERROR, 1 NOTE +Status: 1 ERROR @@ -9601,7 +11161,7 @@ Status: 1 ERROR, 1 NOTE * GitHub: NA * Source code: https://github.com/cran/snplinkage * Date/Publication: 2024-09-09 19:10:02 UTC -* Number of recursive dependencies: 153 +* Number of recursive dependencies: 155 Run `revdepcheck::cloud_details(, "snplinkage")` for more info @@ -9616,9 +11176,9 @@ Run `revdepcheck::cloud_details(, "snplinkage")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘snplinkage/DESCRIPTION’ ... OK @@ -9646,9 +11206,9 @@ Status: 1 ERROR * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘snplinkage/DESCRIPTION’ ... OK @@ -9677,7 +11237,7 @@ Status: 1 ERROR * GitHub: https://github.com/constantAmateur/SoupX * Source code: https://github.com/cran/SoupX * Date/Publication: 2022-11-01 14:00:03 UTC -* Number of recursive dependencies: 201 +* Number of recursive dependencies: 202 Run `revdepcheck::cloud_details(, "SoupX")` for more info @@ -9733,26 +11293,26 @@ ERROR: lazy loading failed for package ‘SoupX’ ``` -# sparsereg +# SpaCCI
-* Version: 1.2 +* Version: 1.0.3 * GitHub: NA -* Source code: https://github.com/cran/sparsereg -* Date/Publication: 2016-03-10 23:32:18 -* Number of recursive dependencies: 50 +* Source code: https://github.com/cran/SpaCCI +* Date/Publication: 2025-01-18 23:10:02 UTC +* Number of recursive dependencies: 151 -Run `revdepcheck::cloud_details(, "sparsereg")` for more info +Run `revdepcheck::cloud_details(, "SpaCCI")` for more info
## In both -* checking whether package ‘sparsereg’ can be installed ... ERROR +* checking whether package ‘SpaCCI’ can be installed ... ERROR ``` Installation failed. - See ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/00install.out’ for details. + See ‘/tmp/workdir/SpaCCI/new/SpaCCI.Rcheck/00install.out’ for details. ``` ## Installation @@ -9760,126 +11320,124 @@ Run `revdepcheck::cloud_details(, "sparsereg")` for more info ### Devel ``` -* installing *source* package ‘sparsereg’ ... -** package ‘sparsereg’ successfully unpacked and MD5 sums checked +* installing *source* package ‘SpaCCI’ ... +** package ‘SpaCCI’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o -g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR -installing to /tmp/workdir/sparsereg/new/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c permutation_func.cpp -o permutation_func.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SpaCCI.so RcppExports.o permutation_func.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/SpaCCI/new/SpaCCI.Rcheck/00LOCK-SpaCCI/00new/SpaCCI/libs ** R +** data +** inst ** byte-compile and prepare package for lazy loading Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace Execution halted -ERROR: lazy loading failed for package ‘sparsereg’ -* removing ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/sparsereg’ +ERROR: lazy loading failed for package ‘SpaCCI’ +* removing ‘/tmp/workdir/SpaCCI/new/SpaCCI.Rcheck/SpaCCI’ ``` ### CRAN ``` -* installing *source* package ‘sparsereg’ ... -** package ‘sparsereg’ successfully unpacked and MD5 sums checked +* installing *source* package ‘SpaCCI’ ... +** package ‘SpaCCI’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.3.1/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o -g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR -installing to /tmp/workdir/sparsereg/old/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c permutation_func.cpp -o permutation_func.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o SpaCCI.so RcppExports.o permutation_func.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/SpaCCI/old/SpaCCI.Rcheck/00LOCK-SpaCCI/00new/SpaCCI/libs ** R +** data +** inst ** byte-compile and prepare package for lazy loading Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.4 is required Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace Execution halted -ERROR: lazy loading failed for package ‘sparsereg’ -* removing ‘/tmp/workdir/sparsereg/old/sparsereg.Rcheck/sparsereg’ +ERROR: lazy loading failed for package ‘SpaCCI’ +* removing ‘/tmp/workdir/SpaCCI/old/SpaCCI.Rcheck/SpaCCI’ ``` -# SpatialDDLS +# sparsereg
-* Version: 1.0.2 -* GitHub: https://github.com/diegommcc/SpatialDDLS -* Source code: https://github.com/cran/SpatialDDLS -* Date/Publication: 2024-04-26 16:10:02 UTC -* Number of recursive dependencies: 207 +* Version: 1.2 +* GitHub: NA +* Source code: https://github.com/cran/sparsereg +* Date/Publication: 2016-03-10 23:32:18 +* Number of recursive dependencies: 50 -Run `revdepcheck::cloud_details(, "SpatialDDLS")` for more info +Run `revdepcheck::cloud_details(, "sparsereg")` for more info
-## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/SpatialDDLS/new/SpatialDDLS.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘SpatialDDLS/DESCRIPTION’ ... OK -... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘SpatialExperiment’ - -Package suggested but not available for checking: ‘ComplexHeatmap’ +## In both -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR +* checking whether package ‘sparsereg’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/00install.out’ for details. + ``` +## Installation +### Devel +``` +* installing *source* package ‘sparsereg’ ... +** package ‘sparsereg’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/sparsereg/new/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs +** R +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘sparsereg’ +* removing ‘/tmp/workdir/sparsereg/new/sparsereg.Rcheck/sparsereg’ ``` ### CRAN ``` -* using log directory ‘/tmp/workdir/SpatialDDLS/old/SpatialDDLS.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘SpatialDDLS/DESCRIPTION’ ... OK -... -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘SpatialExperiment’ - -Package suggested but not available for checking: ‘ComplexHeatmap’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - +* installing *source* package ‘sparsereg’ ... +** package ‘sparsereg’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makeinter.cpp -o makeinter.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c makethreeinter.cpp -o makethreeinter.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c subgroup.cpp -o subgroup.o +g++ -std=gnu++17 -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o sparsereg.so RcppExports.o makeinter.o makethreeinter.o subgroup.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR +installing to /tmp/workdir/sparsereg/old/sparsereg.Rcheck/00LOCK-sparsereg/00new/sparsereg/libs +** R +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘sparsereg’ +* removing ‘/tmp/workdir/sparsereg/old/sparsereg.Rcheck/sparsereg’ ``` @@ -9887,10 +11445,10 @@ Status: 1 ERROR
-* Version: 1.1-19 +* Version: 1.1-20 * GitHub: https://github.com/fabian-s/spikeSlabGAM * Source code: https://github.com/cran/spikeSlabGAM -* Date/Publication: 2022-06-10 15:50:07 UTC +* Date/Publication: 2024-10-22 17:30:02 UTC * Number of recursive dependencies: 77 Run `revdepcheck::cloud_details(, "spikeSlabGAM")` for more info @@ -9914,7 +11472,7 @@ Run `revdepcheck::cloud_details(, "spikeSlabGAM")` for more info ** package ‘spikeSlabGAM’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sampler.c -o sampler.o gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c spikeSlabGAM_init.c -o spikeSlabGAM_init.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o spikeSlabGAM.so sampler.o spikeSlabGAM_init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR @@ -9938,7 +11496,7 @@ ERROR: lazy loading failed for package ‘spikeSlabGAM’ ** package ‘spikeSlabGAM’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sampler.c -o sampler.o gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c spikeSlabGAM_init.c -o spikeSlabGAM_init.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o spikeSlabGAM.so sampler.o spikeSlabGAM_init.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR @@ -9954,6 +11512,70 @@ ERROR: lazy loading failed for package ‘spikeSlabGAM’ * removing ‘/tmp/workdir/spikeSlabGAM/old/spikeSlabGAM.Rcheck/spikeSlabGAM’ +``` +# stabiliser + +
+ +* Version: 1.0.6 +* GitHub: NA +* Source code: https://github.com/cran/stabiliser +* Date/Publication: 2023-05-17 11:00:05 UTC +* Number of recursive dependencies: 151 + +Run `revdepcheck::cloud_details(, "stabiliser")` for more info + +
+ +## In both + +* checking whether package ‘stabiliser’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/stabiliser/new/stabiliser.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘stabiliser’ ... +** package ‘stabiliser’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘maditr’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +ERROR: lazy loading failed for package ‘stabiliser’ +* removing ‘/tmp/workdir/stabiliser/new/stabiliser.Rcheck/stabiliser’ + + +``` +### CRAN + +``` +* installing *source* package ‘stabiliser’ ... +** package ‘stabiliser’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : + there is no package called ‘maditr’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +ERROR: lazy loading failed for package ‘stabiliser’ +* removing ‘/tmp/workdir/stabiliser/old/stabiliser.Rcheck/stabiliser’ + + ``` # statsr @@ -9963,7 +11585,7 @@ ERROR: lazy loading failed for package ‘spikeSlabGAM’ * GitHub: https://github.com/StatsWithR/statsr * Source code: https://github.com/cran/statsr * Date/Publication: 2021-01-22 20:40:03 UTC -* Number of recursive dependencies: 97 +* Number of recursive dependencies: 96 Run `revdepcheck::cloud_details(, "statsr")` for more info @@ -10021,11 +11643,11 @@ ERROR: lazy loading failed for package ‘statsr’
-* Version: 1.5 +* Version: 1.5-9 * GitHub: NA * Source code: https://github.com/cran/streamDAG -* Date/Publication: 2023-10-06 18:50:02 UTC -* Number of recursive dependencies: 132 +* Date/Publication: 2025-01-14 21:50:02 UTC +* Number of recursive dependencies: 139 Run `revdepcheck::cloud_details(, "streamDAG")` for more info @@ -10040,13 +11662,13 @@ Run `revdepcheck::cloud_details(, "streamDAG")` for more info * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘streamDAG/DESCRIPTION’ ... OK -* this is package ‘streamDAG’ version ‘1.5’ +* this is package ‘streamDAG’ version ‘1.5-9’ * checking package namespace information ... OK * checking package dependencies ... ERROR Package required but not available: ‘asbio’ @@ -10068,13 +11690,13 @@ Status: 1 ERROR * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * using option ‘--no-manual’ * checking for file ‘streamDAG/DESCRIPTION’ ... OK -* this is package ‘streamDAG’ version ‘1.5’ +* this is package ‘streamDAG’ version ‘1.5-9’ * checking package namespace information ... OK * checking package dependencies ... ERROR Package required but not available: ‘asbio’ @@ -10088,6 +11710,158 @@ Status: 1 ERROR +``` +# survex + +
+ +* Version: 1.2.0 +* GitHub: https://github.com/ModelOriented/survex +* Source code: https://github.com/cran/survex +* Date/Publication: 2023-10-24 18:50:07 UTC +* Number of recursive dependencies: 182 + +Run `revdepcheck::cloud_details(, "survex")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/survex/new/survex.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘survex/DESCRIPTION’ ... OK +... +  A new explainer has been created!  +> +> y <- cph_exp$y +> times <- cph_exp$times +> surv <- cph_exp$predict_survival_function(cph, cph_exp$data, times) +Error in loadNamespace(x) : there is no package called ‘riskRegression’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +* DONE +Status: 1 ERROR, 1 NOTE + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/survex/old/survex.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘survex/DESCRIPTION’ ... OK +... +  A new explainer has been created!  +> +> y <- cph_exp$y +> times <- cph_exp$times +> surv <- cph_exp$predict_survival_function(cph, cph_exp$data, times) +Error in loadNamespace(x) : there is no package called ‘riskRegression’ +Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart +Execution halted +* DONE +Status: 1 ERROR, 1 NOTE + + + + + +``` +# survHE + +
+ +* Version: 2.0.2 +* GitHub: https://github.com/giabaio/survHE +* Source code: https://github.com/cran/survHE +* Date/Publication: 2024-10-04 09:50:02 UTC +* Number of recursive dependencies: 129 + +Run `revdepcheck::cloud_details(, "survHE")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/survHE/new/survHE.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘survHE/DESCRIPTION’ ... OK +... +* checking package dependencies ... ERROR +Package required but not available: ‘rms’ + +Packages suggested but not available for checking: + 'survHEinla', 'survHEhmc' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/survHE/old/survHE.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘survHE/DESCRIPTION’ ... OK +... +* checking package dependencies ... ERROR +Package required but not available: ‘rms’ + +Packages suggested but not available for checking: + 'survHEinla', 'survHEhmc' + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + ``` # survidm @@ -10120,9 +11894,9 @@ Run `revdepcheck::cloud_details(, "survidm")` for more info ** package ‘survidm’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o survidm.so survidm_init.o survivalBIV.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/survidm/new/survidm.Rcheck/00LOCK-survidm/00new/survidm/libs ** R @@ -10145,9 +11919,9 @@ ERROR: lazy loading failed for package ‘survidm’ ** package ‘survidm’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o -gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survidm_init.c -o survidm_init.o +gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c survivalBIV.c -o survivalBIV.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o survidm.so survidm_init.o survivalBIV.o -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/survidm/old/survidm.Rcheck/00LOCK-survidm/00new/survidm/libs ** R @@ -10229,69 +12003,75 @@ ERROR: lazy loading failed for package ‘tempted’
-* Version: 1.1.1 +* Version: 1.1.2 * GitHub: https://github.com/jiangyouxiang/TestAnaAPP * Source code: https://github.com/cran/TestAnaAPP -* Date/Publication: 2024-09-10 07:30:02 UTC -* Number of recursive dependencies: 250 +* Date/Publication: 2024-11-09 04:00:02 UTC +* Number of recursive dependencies: 255 Run `revdepcheck::cloud_details(, "TestAnaAPP")` for more info
-## In both - -* checking whether package ‘TestAnaAPP’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/TestAnaAPP/new/TestAnaAPP.Rcheck/00install.out’ for details. - ``` - -## Installation +## Error before installation ### Devel ``` -* installing *source* package ‘TestAnaAPP’ ... -** package ‘TestAnaAPP’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Warning in check_dep_version() : - ABI version mismatch: -lme4 was built with Matrix ABI version 1 -Current Matrix ABI version is 0 -Please re-install lme4 from source or restore original ‘Matrix’ package -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘TestAnaAPP’ -* removing ‘/tmp/workdir/TestAnaAPP/new/TestAnaAPP.Rcheck/TestAnaAPP’ +* using log directory ‘/tmp/workdir/TestAnaAPP/new/TestAnaAPP.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘TestAnaAPP/DESCRIPTION’ ... OK +... +* this is package ‘TestAnaAPP’ version ‘1.1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘lordif’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` ### CRAN ``` -* installing *source* package ‘TestAnaAPP’ ... -** package ‘TestAnaAPP’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** inst -** byte-compile and prepare package for lazy loading -Warning in check_dep_version() : - ABI version mismatch: -lme4 was built with Matrix ABI version 1 -Current Matrix ABI version is 0 -Please re-install lme4 from source or restore original ‘Matrix’ package -Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : - there is no package called ‘rms’ -Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart -Execution halted -ERROR: lazy loading failed for package ‘TestAnaAPP’ -* removing ‘/tmp/workdir/TestAnaAPP/old/TestAnaAPP.Rcheck/TestAnaAPP’ +* using log directory ‘/tmp/workdir/TestAnaAPP/old/TestAnaAPP.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘TestAnaAPP/DESCRIPTION’ ... OK +... +* this is package ‘TestAnaAPP’ version ‘1.1.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘lordif’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + ``` @@ -10365,7 +12145,7 @@ ERROR: lazy loading failed for package ‘tidydr’ * GitHub: NA * Source code: https://github.com/cran/tidyEdSurvey * Date/Publication: 2024-05-14 20:20:03 UTC -* Number of recursive dependencies: 111 +* Number of recursive dependencies: 113 Run `revdepcheck::cloud_details(, "tidyEdSurvey")` for more info @@ -10431,7 +12211,7 @@ ERROR: lazy loading failed for package ‘tidyEdSurvey’ * GitHub: https://github.com/stemangiola/tidyseurat * Source code: https://github.com/cran/tidyseurat * Date/Publication: 2024-01-10 04:50:02 UTC -* Number of recursive dependencies: 208 +* Number of recursive dependencies: 196 Run `revdepcheck::cloud_details(, "tidyseurat")` for more info @@ -10489,11 +12269,11 @@ ERROR: lazy loading failed for package ‘tidyseurat’
-* Version: 1.5.1 +* Version: 1.5.2 * GitHub: https://github.com/certara/tidyvpc * Source code: https://github.com/cran/tidyvpc -* Date/Publication: 2024-01-18 13:10:02 UTC -* Number of recursive dependencies: 176 +* Date/Publication: 2024-11-21 23:10:02 UTC +* Number of recursive dependencies: 180 Run `revdepcheck::cloud_details(, "tidyvpc")` for more info @@ -10548,6 +12328,160 @@ ERROR: lazy loading failed for package ‘tidyvpc’ * removing ‘/tmp/workdir/tidyvpc/old/tidyvpc.Rcheck/tidyvpc’ +``` +# tinyarray + +
+ +* Version: 2.4.2 +* GitHub: https://github.com/xjsun1221/tinyarray +* Source code: https://github.com/cran/tinyarray +* Date/Publication: 2024-06-13 14:20:02 UTC +* Number of recursive dependencies: 250 + +Run `revdepcheck::cloud_details(, "tinyarray")` for more info + +
+ +## Error before installation + +### Devel + +``` +* using log directory ‘/tmp/workdir/tinyarray/new/tinyarray.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘tinyarray/DESCRIPTION’ ... OK +... +* this is package ‘tinyarray’ version ‘2.4.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘clusterProfiler’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +### CRAN + +``` +* using log directory ‘/tmp/workdir/tinyarray/old/tinyarray.Rcheck’ +* using R version 4.3.1 (2023-06-16) +* using platform: x86_64-pc-linux-gnu (64-bit) +* R was compiled by + gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 + GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 +* running under: Ubuntu 24.04.1 LTS +* using session charset: UTF-8 +* using option ‘--no-manual’ +* checking for file ‘tinyarray/DESCRIPTION’ ... OK +... +* this is package ‘tinyarray’ version ‘2.4.2’ +* package encoding: UTF-8 +* checking package namespace information ... OK +* checking package dependencies ... ERROR +Package required but not available: ‘clusterProfiler’ + +See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ +manual. +* DONE +Status: 1 ERROR + + + + + +``` +# treeclim + +
+ +* Version: 2.0.7.1 +* GitHub: https://github.com/cszang/treeclim +* Source code: https://github.com/cran/treeclim +* Date/Publication: 2024-12-16 16:20:02 UTC +* Number of recursive dependencies: 60 + +Run `revdepcheck::cloud_details(, "treeclim")` for more info + +
+ +## In both + +* checking whether package ‘treeclim’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/treeclim/new/treeclim.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘treeclim’ ... +** package ‘treeclim’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun.cpp -o corfun.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_exact.cpp -o corfun_exact.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_noboot.cpp -o corfun_noboot.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c pcor.cpp -o pcor.o +... +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘treeclim’ +* removing ‘/tmp/workdir/treeclim/new/treeclim.Rcheck/treeclim’ + + +``` +### CRAN + +``` +* installing *source* package ‘treeclim’ ... +** package ‘treeclim’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun.cpp -o corfun.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_exact.cpp -o corfun_exact.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c corfun_noboot.cpp -o corfun_noboot.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -c pcor.cpp -o pcor.o +... +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required +Calls: ... namespaceImportFrom -> asNamespace -> loadNamespace +Execution halted +ERROR: lazy loading failed for package ‘treeclim’ +* removing ‘/tmp/workdir/treeclim/old/treeclim.Rcheck/treeclim’ + + ``` # TriDimRegression @@ -10557,7 +12491,7 @@ ERROR: lazy loading failed for package ‘tidyvpc’ * GitHub: https://github.com/alexander-pastukhov/tridim-regression * Source code: https://github.com/cran/TriDimRegression * Date/Publication: 2023-09-13 14:10:03 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 98 Run `revdepcheck::cloud_details(, "TriDimRegression")` for more info @@ -10609,7 +12543,7 @@ ERROR: configuration failed for package ‘TriDimRegression’ * GitHub: https://github.com/PetoLau/TSrepr * Source code: https://github.com/cran/TSrepr * Date/Publication: 2020-07-13 06:50:15 UTC -* Number of recursive dependencies: 72 +* Number of recursive dependencies: 71 Run `revdepcheck::cloud_details(, "TSrepr")` for more info @@ -10632,12 +12566,12 @@ Run `revdepcheck::cloud_details(, "TSrepr")` for more info ** package ‘TSrepr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o ... ** data *** moving datasets to lazyload DB @@ -10659,12 +12593,12 @@ ERROR: lazy loading failed for package ‘TSrepr’ ** package ‘TSrepr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o -g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/opt/R/4.3.1/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o +using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c FeatureClippingTrending.cpp -o FeatureClippingTrending.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helpers.cpp -o helpers.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c measures.cpp -o measures.o +g++ -std=gnu++17 -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c normalizations.cpp -o normalizations.o ... ** data *** moving datasets to lazyload DB @@ -10710,7 +12644,7 @@ Run `revdepcheck::cloud_details(, "twang")` for more info ** package ‘twang’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c ks.c -o ks.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o twang.so init.o ks.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR @@ -10735,7 +12669,7 @@ ERROR: lazy loading failed for package ‘twang’ ** package ‘twang’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c ks.c -o ks.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o twang.so init.o ks.o -llapack -lblas -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR @@ -10752,158 +12686,6 @@ ERROR: lazy loading failed for package ‘twang’ * removing ‘/tmp/workdir/twang/old/twang.Rcheck/twang’ -``` -# updog - -
- -* Version: 2.1.5 -* GitHub: https://github.com/dcgerard/updog -* Source code: https://github.com/cran/updog -* Date/Publication: 2023-11-29 15:50:02 UTC -* Number of recursive dependencies: 138 - -Run `revdepcheck::cloud_details(, "updog")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/updog/new/updog.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘updog/DESCRIPTION’ ... OK -... -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘multidog.Rmd’ using ‘UTF-8’... OK - ‘oracle_calculations.Rmd’ using ‘UTF-8’... OK - ‘simulate_ngs.Rmd’ using ‘UTF-8’... OK - ‘smells_like_updog.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 2 NOTEs - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/updog/old/updog.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘updog/DESCRIPTION’ ... OK -... -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... OK - ‘multidog.Rmd’ using ‘UTF-8’... OK - ‘oracle_calculations.Rmd’ using ‘UTF-8’... OK - ‘simulate_ngs.Rmd’ using ‘UTF-8’... OK - ‘smells_like_updog.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 2 NOTEs - - - - - -``` -# valr - -
- -* Version: 0.8.2 -* GitHub: https://github.com/rnabioco/valr -* Source code: https://github.com/cran/valr -* Date/Publication: 2024-08-30 22:10:03 UTC -* Number of recursive dependencies: 176 - -Run `revdepcheck::cloud_details(, "valr")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/valr/new/valr.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘valr/DESCRIPTION’ ... OK -... -* this is package ‘valr’ version ‘0.8.2’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/valr/old/valr.Rcheck’ -* using R version 4.3.1 (2023-06-16) -* using platform: x86_64-pc-linux-gnu (64-bit) -* R was compiled by - gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 - GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 -* running under: Ubuntu 22.04.4 LTS -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘valr/DESCRIPTION’ ... OK -... -* this is package ‘valr’ version ‘0.8.2’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘rtracklayer’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - ``` # vdg @@ -10936,7 +12718,7 @@ Run `revdepcheck::cloud_details(, "vdg")` for more info ** package ‘vdg’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using Fortran compiler: ‘GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using Fortran compiler: ‘GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gfortran -fpic -g -O2 -c FDS.f -o FDS.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o vdg.so FDS.o -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/vdg/new/vdg.Rcheck/00LOCK-vdg/00new/vdg/libs @@ -10960,7 +12742,7 @@ ERROR: lazy loading failed for package ‘vdg’ ** package ‘vdg’ successfully unpacked and MD5 sums checked ** using staged installation ** libs -using Fortran compiler: ‘GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ +using Fortran compiler: ‘GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ gfortran -fpic -g -O2 -c FDS.f -o FDS.o gcc -shared -L/opt/R/4.3.1/lib/R/lib -L/usr/local/lib -o vdg.so FDS.o -lgfortran -lm -lquadmath -L/opt/R/4.3.1/lib/R/lib -lR installing to /tmp/workdir/vdg/old/vdg.Rcheck/00LOCK-vdg/00new/vdg/libs @@ -10976,6 +12758,41 @@ ERROR: lazy loading failed for package ‘vdg’ * removing ‘/tmp/workdir/vdg/old/vdg.Rcheck/vdg’ +``` +# VecDep + +
+ +* Version: NA +* GitHub: NA +* Source code: https://github.com/cran/VecDep +* Number of recursive dependencies: 100 + +Run `revdepcheck::cloud_details(, "VecDep")` for more info + +
+ +## Error before installation + +### Devel + +``` + + + + + + +``` +### CRAN + +``` + + + + + + ``` # visa @@ -10985,7 +12802,7 @@ ERROR: lazy loading failed for package ‘vdg’ * GitHub: https://github.com/kang-yu/visa * Source code: https://github.com/cran/visa * Date/Publication: 2021-04-20 07:20:02 UTC -* Number of recursive dependencies: 140 +* Number of recursive dependencies: 139 Run `revdepcheck::cloud_details(, "visa")` for more info @@ -11048,7 +12865,7 @@ ERROR: lazy loading failed for package ‘visa’ * Version: NA * GitHub: NA * Source code: https://github.com/cran/VisualizeSimon2Stage -* Number of recursive dependencies: 30 +* Number of recursive dependencies: 36 Run `revdepcheck::cloud_details(, "VisualizeSimon2Stage")` for more info diff --git a/revdep/problems.md b/revdep/problems.md index 73ee83725d..2a54d17a17 100644 --- a/revdep/problems.md +++ b/revdep/problems.md @@ -1,63 +1,11 @@ -# activAnalyzer - -
- -* Version: 2.1.1 -* GitHub: https://github.com/pydemull/activAnalyzer -* Source code: https://github.com/cran/activAnalyzer -* Date/Publication: 2024-05-05 22:40:03 UTC -* Number of recursive dependencies: 148 - -Run `revdepcheck::cloud_details(, "activAnalyzer")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘activAnalyzer.Rmd’ - ... - > p3 <- accum_metrics_sed$p_UBD - - > p4 <- accum_metrics_sed$p_gini - - > (p1 | p2)/(p3 | p4) + plot_layout(guides = "collect") & - + theme(legend.position = "bottom") - - When sourcing ‘activAnalyzer.R’: - Error: object is not a unit - Execution halted - - ‘activAnalyzer.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘activAnalyzer.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.8Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 1.0Mb - extdata 2.0Mb - ``` - # actxps
-* Version: 1.5.0 +* Version: 1.6.0 * GitHub: https://github.com/mattheaphy/actxps * Source code: https://github.com/cran/actxps -* Date/Publication: 2024-06-25 12:40:02 UTC +* Date/Publication: 2025-01-07 13:00:02 UTC * Number of recursive dependencies: 130 Run `revdepcheck::cloud_details(, "actxps")` for more info @@ -116,17 +64,17 @@ Run `revdepcheck::cloud_details(, "actxps")` for more info Execution halted ``` -# adaptr +# adklakedata
-* Version: 1.4.0 -* GitHub: https://github.com/INCEPTdk/adaptr -* Source code: https://github.com/cran/adaptr -* Date/Publication: 2024-05-03 12:10:02 UTC -* Number of recursive dependencies: 74 +* Version: 0.6.1 +* GitHub: https://github.com/lawinslow/adklakedata +* Source code: https://github.com/cran/adklakedata +* Date/Publication: 2018-02-16 19:08:16 UTC +* Number of recursive dependencies: 64 -Run `revdepcheck::cloud_details(, "adaptr")` for more info +Run `revdepcheck::cloud_details(, "adklakedata")` for more info
@@ -134,79 +82,130 @@ Run `revdepcheck::cloud_details(, "adaptr")` for more info * checking examples ... ERROR ``` - Running examples in ‘adaptr-Ex.R’ failed + Running examples in ‘adklakedata-Ex.R’ failed The error most likely occurred in: - > ### Name: plot_history - > ### Title: Plot trial metric history - > ### Aliases: plot_history plot_history.trial_result - > ### plot_history.trial_results + > ### Name: adk_lake_shapes + > ### Title: Return path to Lake Polygons Shapefile + > ### Aliases: adk_lake_shapes > > ### ** Examples > - ... - + # Run a single simulation with a fixed random seed - + res <- run_trial(binom_trial, seed = 12345) - + - + # Plot total allocations to each arm according to overall total allocations - + plot_history(res, x_value = "total n", y_value = "n") - + - + } - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_history ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > library(sf) + Linking to GEOS 3.12.1, GDAL 3.8.4, PROJ 9.4.0; sf_use_s2() is TRUE + > bl = read_sf(adklakedata::adk_shape()) + Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, : + package tibble not available: install first? + Calls: read_sf ... st_read -> st_read.character -> process_cpl_read_ogr Execution halted ``` -* checking tests ... ERROR +## In both + +* checking LazyData ... NOTE ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(adaptr) - Loading 'adaptr' package v1.4.0. - For instructions, type 'help("adaptr")' - or see https://inceptdk.github.io/adaptr/. - > - > test_check("adaptr") - ... - • plot_history/history-plot-binomial-single-ratio-ys-look.svg - • plot_metrics_ecdf/errors.svg - • plot_metrics_ecdf/selected.svg - • plot_metrics_ecdf/size-only.svg - • plot_metrics_ecdf/superior.svg - • plot_status/status-plot-across-arms-binomial.svg - • plot_status/status-plot-for-all-arms-binomial.svg - • plot_status/status-plot-for-arm-c-binom.svg - Error: Test failures - Execution halted + 'LazyData' is specified without a 'data' directory + ``` + +# AdverseEvents + +
+ +* Version: 0.0.4 +* GitHub: https://github.com/dungtsa/AdverseEvents +* Source code: https://github.com/cran/AdverseEvents +* Date/Publication: 2024-11-20 22:50:02 UTC +* Number of recursive dependencies: 176 + +Run `revdepcheck::cloud_details(, "AdverseEvents")` for more info + +
+ +## Newly broken + +* checking whether package ‘AdverseEvents’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘AdverseEvents’ + See ‘/tmp/workdir/AdverseEvents/new/AdverseEvents.Rcheck/00install.out’ for details. + ``` + +# adw + +
+ +* Version: 0.4.0 +* GitHub: https://github.com/PanfengZhang/adw +* Source code: https://github.com/cran/adw +* Date/Publication: 2024-04-15 19:10:16 UTC +* Number of recursive dependencies: 62 + +Run `revdepcheck::cloud_details(, "adw")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘adw-Ex.R’ failed + The error most likely occurred in: + + > ### Name: adw + > ### Title: Angular Distance Weighting Interpolation. + > ### Aliases: adw + > + > ### ** Examples + > + > set.seed(2) + ... + 4 111.75 31.25 -0.47570806 + 5 112.25 31.25 -1.57521787 + 6 112.75 31.25 -1.10541492 + > + > # example 2 + > hmap <- cnmap::getMap(code = "410000") |> sf::st_make_valid() # return a 'sf' object. + Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, : + package tibble not available: install first? + Calls: ... st_read -> st_read.character -> process_cpl_read_ogr + Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Overview.Rmd’ + when running code in ‘Introduction.Rmd’ ... - > plot_convergence(calibrated_binom_trial$best_sims, - + metrics = c("size mean", "prob_superior", "prob_equivalence"), - + n_split = 4) + > tavg <- data.frame(lon = runif(100, min = 110, max = 117), + + lat = runif(100, min = 31, max = 37), value = runif(100, + + min = 20, max .... [TRUNCATED] - > plot_status(calibrated_binom_trial$best_sims, x_value = "total n") + > hmap <- getMap(name = "河南省", returnClass = "sf") - When sourcing ‘Overview.R’: - Error: argument is of length zero + When sourcing ‘Introduction.R’: + Error: package tibble not available: install first? Execution halted - ‘Advanced-example.Rmd’ using ‘UTF-8’... OK - ‘Basic-examples.Rmd’ using ‘UTF-8’... OK - ‘Overview.Rmd’ using ‘UTF-8’... failed + ‘Introduction.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘Advanced-example.Rmd’ using rmarkdown + ... + --- re-building ‘Introduction.Rmd’ using rmarkdown + + Quitting from lines 48-74 [unnamed-chunk-3] (Introduction.Rmd) + Error: processing vignette 'Introduction.Rmd' failed with diagnostics: + package tibble not available: install first? + --- failed re-building ‘Introduction.Rmd’ + + SUMMARY: processing the following file failed: + ‘Introduction.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` # AeRobiology @@ -217,7 +216,7 @@ Run `revdepcheck::cloud_details(, "adaptr")` for more info * GitHub: NA * Source code: https://github.com/cran/AeRobiology * Date/Publication: 2019-06-03 06:20:03 UTC -* Number of recursive dependencies: 98 +* Number of recursive dependencies: 97 Run `revdepcheck::cloud_details(, "AeRobiology")` for more info @@ -225,14 +224,6 @@ Run `revdepcheck::cloud_details(, "AeRobiology")` for more info ## Newly broken -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘my-vignette.Rmd’ using rmarkdown - ``` - -## In both - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: @@ -252,6 +243,12 @@ Run `revdepcheck::cloud_details(, "AeRobiology")` for more info ‘my-vignette.Rmd’ using ‘UTF-8’... failed ``` +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘my-vignette.Rmd’ using rmarkdown + ``` + # agricolaeplotr
@@ -260,7 +257,7 @@ Run `revdepcheck::cloud_details(, "AeRobiology")` for more info * GitHub: https://github.com/jensharbers/agricolaeplotr * Source code: https://github.com/cran/agricolaeplotr * Date/Publication: 2024-01-17 16:42:04 UTC -* Number of recursive dependencies: 144 +* Number of recursive dependencies: 143 Run `revdepcheck::cloud_details(, "agricolaeplotr")` for more info @@ -293,60 +290,17 @@ Run `revdepcheck::cloud_details(, "agricolaeplotr")` for more info Execution halted ``` -# alien - -
- -* Version: 1.0.2 -* GitHub: NA -* Source code: https://github.com/cran/alien -* Date/Publication: 2024-06-19 16:20:02 UTC -* Number of recursive dependencies: 91 - -Run `revdepcheck::cloud_details(, "alien")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘basic_usage.Rmd’ - ... - 2 0.3330822 6.848124e-06 1.620061e+04 - 3 0.3377835 1.902532e-07 5.997150e+05 - 4 0.3425512 5.285577e-09 2.220028e+07 - - > plot_snc(model, cumulative = T) + coord_cartesian(ylim = c(0, - + 150)) + scale_y_continuous(breaks = seq(0, 150, 50)) + ylab("Cumulative discove ..." ... [TRUNCATED] - - When sourcing ‘basic_usage.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘basic_usage.Rmd’ using ‘UTF-8’... failed - ‘native_discoveries.Rmd’ using ‘UTF-8’... OK - ‘simulations.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘basic_usage.Rmd’ using rmarkdown - ``` - -# AlphaPart +# AmpliconDuo
-* Version: 0.9.8 +* Version: 1.1.1 * GitHub: NA -* Source code: https://github.com/cran/AlphaPart -* Date/Publication: 2022-11-15 21:40:05 UTC -* Number of recursive dependencies: 83 +* Source code: https://github.com/cran/AmpliconDuo +* Date/Publication: 2020-05-25 22:20:02 UTC +* Number of recursive dependencies: 29 -Run `revdepcheck::cloud_details(, "AlphaPart")` for more info +Run `revdepcheck::cloud_details(, "AmpliconDuo")` for more info
@@ -354,49 +308,27 @@ Run `revdepcheck::cloud_details(, "AlphaPart")` for more info * checking examples ... ERROR ``` - Running examples in ‘AlphaPart-Ex.R’ failed + Running examples in ‘AmpliconDuo-Ex.R’ failed The error most likely occurred in: - > ### Name: print.plotSummaryAlphaPart - > ### Title: Print a plot generate by the function 'plotSummaryAlphaPart' - > ### Aliases: print.plotSummaryAlphaPart + > ### Name: AmpliconDuo-package + > ### Title: Statistical Analysis Of Amplicon Data Of The Same Sample To + > ### Identify Spurious Amplicons + > ### Aliases: AmpliconDuo-package AmpliconDuo + > ### Keywords: package > > ### ** Examples - > - > ## Partition additive genetic values ... - 4 4 1 105.00000 66 39.00000 - - > - > ## Plot the partitions - > p <- plot(ret, ylab=c("BV for trait 1", "BV for trait 2"), xlab="Generation") - > print(p[[1]]) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: print ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘alphapart-variance.Rmd’ - ... - - > data <- readRDS("./../inst/extdata/AlphaPartCattleSim.rds") %>% - + dplyr::mutate(across(generation:mother, as.numeric)) %>% - + dplyr::rename .... [TRUNCATED] - Warning in gzfile(file, "rb") : - cannot open compressed file './../inst/extdata/AlphaPartCattleSim.rds', probable reason 'No such file or directory' - - When sourcing ‘alphapart-variance.R’: - Error: cannot open the connection + > ## depending on the size if the data sets, may take some time + > ampliconduoset <- ampliconduo(ampliconfreqs[,1:4], sample.names = site.f[1:2]) + ..> + > ## plot amplicon read numbers of sample A vs. amplicon read numbers of sample B, + > ## indicating amplicons with significant deviations in their occurence across samples + > plotAmpliconduo.set(ampliconduoset, nrow = 3) + Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, : + unused argument (h.start = 0) + Calls: plotAmpliconduo.set -> scale_colour_discrete Execution halted - - ‘alphapart-variance.Rmd’ using ‘UTF-8’... failed - ‘alphapart-vignette.Rmd’ using ‘UTF-8’... OK ``` # AnalysisLin @@ -482,7 +414,7 @@ Run `revdepcheck::cloud_details(, "animbook")` for more info * GitHub: https://github.com/bflammers/ANN2 * Source code: https://github.com/cran/ANN2 * Date/Publication: 2020-12-01 10:00:02 UTC -* Number of recursive dependencies: 52 +* Number of recursive dependencies: 51 Run `revdepcheck::cloud_details(, "ANN2")` for more info @@ -524,10 +456,10 @@ Run `revdepcheck::cloud_details(, "ANN2")` for more info * checking installed package size ... NOTE ``` - installed size is 58.9Mb + installed size is 48.8Mb sub-directories of 1Mb or more: cereal 1.4Mb - libs 57.3Mb + libs 47.2Mb ``` * checking LazyData ... NOTE @@ -535,17 +467,17 @@ Run `revdepcheck::cloud_details(, "ANN2")` for more info 'LazyData' is specified without a 'data' directory ``` -# AnnoProbe +# APCtools
-* Version: 0.1.7 -* GitHub: https://github.com/jmzeng1314/AnnoProbe -* Source code: https://github.com/cran/AnnoProbe -* Date/Publication: 2022-11-14 08:30:11 UTC -* Number of recursive dependencies: 121 +* Version: 1.0.4 +* GitHub: https://github.com/bauer-alex/APCtools +* Source code: https://github.com/cran/APCtools +* Date/Publication: 2023-01-13 23:30:02 UTC +* Number of recursive dependencies: 114 -Run `revdepcheck::cloud_details(, "AnnoProbe")` for more info +Run `revdepcheck::cloud_details(, "APCtools")` for more info
@@ -553,67 +485,26 @@ Run `revdepcheck::cloud_details(, "AnnoProbe")` for more info * checking examples ... ERROR ``` - Running examples in ‘AnnoProbe-Ex.R’ failed + Running examples in ‘APCtools-Ex.R’ failed The error most likely occurred in: - > ### Name: check_diff_genes - > ### Title: Check a list of genes how they show difference. - > ### Aliases: check_diff_genes + > ### Name: plot_partialAPCeffects + > ### Title: Partial APC plots based on an estimated GAM model + > ### Aliases: plot_partialAPCeffects > > ### ** Examples > - > attach(GSE95166) + > library(APCtools) ... - 11. │ └─ggplot2:::`+.gg`(...) - 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. │ ├─ggplot2::ggplot_add(object, p, objectname) - 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 16. └─base::.handleSimpleError(...) - 17. └─purrr (local) h(simpleError(msg, call)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) - Execution halted - ``` - -# ANOFA - -
- -* Version: 0.1.3 -* GitHub: https://github.com/dcousin3/ANOFA -* Source code: https://github.com/cran/ANOFA -* Date/Publication: 2023-11-18 14:20:08 UTC -* Number of recursive dependencies: 81 - -Run `revdepcheck::cloud_details(, "ANOFA")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ANOFA-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Gillet1993 - > ### Title: Gillet1993 - > ### Aliases: Gillet1993 - > ### Keywords: datasets - > - > ### ** Examples + This is mgcv 1.8-42. For overview type 'help("mgcv-package")'. > - ... - > # run the base analysis - > w <- anofa( Freq ~ species * location * florished, Gillet1993) + > data(travel) + > model <- gam(mainTrip_distance ~ te(age, period), data = travel) > - > # display a plot of the results - > anofaPlot(w) - superb::FYI: The variables will be plotted in that order: species, location, florished (use factorOrder to change). - Error in superb::superbPlot(cdata, BSFactors = bsfact, variables = as.character(w$freqColumn), : - superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - Calls: anofaPlot -> + > plot_partialAPCeffects(model, dat = travel, variable = "age") + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "grey90", high = "grey10") + Calls: plot_partialAPCeffects -> scale_color_continuous Execution halted ``` @@ -623,21 +514,21 @@ Run `revdepcheck::cloud_details(, "ANOFA")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > test_check("ANOFA") - Loading required package: ANOFA - [ FAIL 3 | WARN 0 | SKIP 0 | PASS 149 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Error ('test-ANOFA-2.R:36:5'): TESTS of emFrequencies function (2/3) ──────── + > library(APCtools) + > + > test_check("APCtools") + Loading required package: nlme + This is mgcv 1.8-42. For overview type 'help("mgcv-package")'. + Excluding 9565 missing observations of mainTrip_distance... ... - statistic = "count", errorbar = "CI", gamma = confidenceLevel, - plotStyle = plotStyle, errorbarParams = errorbarParams, ...)`: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... + Error in `continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, + ...)`: unused arguments (low = "grey90", high = "grey10") Backtrace: ▆ - 1. └─ANOFA::anofaPlot(w, Freq ~ B) at test-ANOFA-3.R:46:5 - 2. └─superb::superbPlot(...) + 1. └─APCtools::plot_partialAPCeffects(...) at test-plots_APCeffects.R:15:3 + 2. └─ggplot2::scale_color_continuous(...) - [ FAIL 3 | WARN 0 | SKIP 0 | PASS 149 ] + [ FAIL 1 | WARN 58 | SKIP 0 | PASS 75 ] Error: Test failures Execution halted ``` @@ -645,452 +536,100 @@ Run `revdepcheck::cloud_details(, "ANOFA")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ConfidenceIntervals.Rmd’ + when running code in ‘main_functionality.Rmd’ ... - > library(ANOFA) - - > w <- anofa(obsfreq ~ vocation * gender, LightMargolin1971) + > plot_jointMarginalAPCeffects(model_list = model_list, + + dat = travel, vlines_list = list(cohort = c(1900, 1920, 1939, + + 1946, 1966, 19 .... [TRUNCATED] - > anofaPlot(w) - superb::FYI: The variables will be plotted in that order: vocation, gender (use factorOrder to change). + > plot_partialAPCeffects(model = model_pure, dat = travel, + + variable = "period") - ... - - > anofaPlot(w) - - When sourcing ‘WhatIsANOFA.R’: - Error: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... + When sourcing ‘main_functionality.R’: + Error: unused arguments (low = "grey90", high = "grey10") Execution halted - ‘ConfidenceIntervals.Rmd’ using ‘UTF-8’... failed - ‘DataFormatsForFrequencies.Rmd’ using ‘UTF-8’... OK - ‘WhatIsANOFA.Rmd’ using ‘UTF-8’... failed + ‘main_functionality.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘ConfidenceIntervals.Rmd’ using rmarkdown - - Quitting from lines 70-73 [unnamed-chunk-2] (ConfidenceIntervals.Rmd) - Error: processing vignette 'ConfidenceIntervals.Rmd' failed with diagnostics: - superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - --- failed re-building ‘ConfidenceIntervals.Rmd’ - - --- re-building ‘DataFormatsForFrequencies.Rmd’ using rmarkdown - ... - Quitting from lines 108-109 [unnamed-chunk-4] (WhatIsANOFA.Rmd) - Error: processing vignette 'WhatIsANOFA.Rmd' failed with diagnostics: - superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - --- failed re-building ‘WhatIsANOFA.Rmd’ - - SUMMARY: processing the following files failed: - ‘ConfidenceIntervals.Rmd’ ‘WhatIsANOFA.Rmd’ - - Error: Vignette re-building failed. - Execution halted + --- re-building ‘main_functionality.Rmd’ using rmarkdown ``` -# ANOPA +# applicable
-* Version: 0.1.3 -* GitHub: https://github.com/dcousin3/ANOPA -* Source code: https://github.com/cran/ANOPA -* Date/Publication: 2024-03-22 19:40:05 UTC -* Number of recursive dependencies: 81 +* Version: 0.1.1 +* GitHub: https://github.com/tidymodels/applicable +* Source code: https://github.com/cran/applicable +* Date/Publication: 2024-04-25 00:00:04 UTC +* Number of recursive dependencies: 116 -Run `revdepcheck::cloud_details(, "ANOPA")` for more info +Run `revdepcheck::cloud_details(, "applicable")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘ANOPA-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ArringtonEtAl2002 - > ### Title: Arrington et al. (2002) dataset - > ### Aliases: ArringtonEtAl2002 - > ### Keywords: datasets - > - > ### ** Examples - > - ... - Africa Nocturnal Omnivore 0 0 - North America Nocturnal Detritivore 0 0 - Warning: ANOPA::warning(1): Some cells have zero over zero data. Imputing... - > - > # make a plot with all the factors - > anopaPlot(w) - Error in superb::superbPlot(wdata, BSFactors = bsfact, WSFactors = wsfact, : - superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - Calls: anopaPlot -> - Execution halted - ``` - * checking tests ... ERROR ``` + Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > test_check("ANOPA") - Loading required package: ANOPA - ------------------------------------------------------------ - Design is: 2 x ( 3 ) with 2 independent groups. - ------------------------------------------------------------ - 1.Between-Subject Factors ( 2 groups ) : - ... - 1) "UA" else "none"), plotStyle = plotStyle, errorbarParams = errorbarParams, - ...)`: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - Backtrace: - ▆ - 1. └─ANOPA::anopaPlot(w) at test-ANOPA-4.R:106:9 - 2. └─superb::superbPlot(...) + > library(applicable) + Loading required package: ggplot2 + > + > test_check("applicable") + Loading required package: dplyr + ... + `expected` is a character vector ('percentile') + ── Failure ('test-plot.R:36:3'): output of autoplot.apd_pca is correct when options=distance are provided ── + ad_plot$labels$y (`actual`) not equal to "percentile" (`expected`). + + `actual` is NULL + `expected` is a character vector ('percentile') - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 131 ] + [ FAIL 3 | WARN 0 | SKIP 22 | PASS 90 ] Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘A-WhatIsANOPA.Rmd’ - ... - > w <- anopa({ - + nSuccess - + nParticipants - + } ~ DistractingTask, ArticleExample1) - - > anopaPlot(w) - - ... - When sourcing ‘E-ArcsineIsAsinine.R’: - Error: superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - Execution halted - - ‘A-WhatIsANOPA.Rmd’ using ‘UTF-8’... failed - ‘B-DataFormatsForProportions.Rmd’ using ‘UTF-8’... OK - ‘C-ConfidenceIntervals.Rmd’ using ‘UTF-8’... failed - ‘D-ArringtonExample.Rmd’ using ‘UTF-8’... failed - ‘E-ArcsineIsAsinine.Rmd’ using ‘UTF-8’... failed - ‘F-TestingTypeIError.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘A-WhatIsANOPA.Rmd’ using rmarkdown - - Quitting from lines 182-183 [unnamed-chunk-5] (A-WhatIsANOPA.Rmd) - Error: processing vignette 'A-WhatIsANOPA.Rmd' failed with diagnostics: - superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - --- failed re-building ‘A-WhatIsANOPA.Rmd’ - - --- re-building ‘B-DataFormatsForProportions.Rmd’ using rmarkdown - --- finished re-building ‘B-DataFormatsForProportions.Rmd’ - ... - - --- re-building ‘F-TestingTypeIError.Rmd’ using rmarkdown - --- finished re-building ‘F-TestingTypeIError.Rmd’ - - SUMMARY: processing the following files failed: - ‘A-WhatIsANOPA.Rmd’ ‘C-ConfidenceIntervals.Rmd’ - ‘D-ArringtonExample.Rmd’ ‘E-ArcsineIsAsinine.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# AntMAN - -
- -* Version: 1.1.0 -* GitHub: https://github.com/bbodin/AntMAN -* Source code: https://github.com/cran/AntMAN -* Date/Publication: 2021-07-23 10:00:02 UTC -* Number of recursive dependencies: 80 - -Run `revdepcheck::cloud_details(, "AntMAN")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘AntMAN-Ex.R’ failed - The error most likely occurred in: - - > ### Name: AM_mix_hyperparams_uninorm - > ### Title: univariate Normal mixture hyperparameters - > ### Aliases: AM_mix_hyperparams_uninorm - > - > ### ** Examples - > - > - ... - Press [enter] to continue - Plotting pmf for M,K - NULL - Press [enter] to continue - Plotting traces from M,K - Press [enter] to continue - Plotting values from M,K - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘UnitTest_AM_binder.R’ - Running ‘UnitTest_AM_coclustering.R’ - Running ‘UnitTest_AM_demo.R’ - Running ‘UnitTest_AM_extract.R’ - Running ‘UnitTest_AM_mcmc.R’ - Running the tests in ‘tests/UnitTest_AM_mcmc.R’ failed. - Complete output: - > ####################################################################################### - > ############### - > ############### AntMAN Package : Tests and Examples - ... - Press [enter] to continue - Plotting pmf for M,K - NULL - Press [enter] to continue - Plotting traces from M,K - Press [enter] to continue - Plotting values from M,K - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking C++ specification ... NOTE - ``` - Specified C++11: please drop specification unless essential - ``` - -* checking installed package size ... NOTE - ``` - installed size is 6.8Mb - sub-directories of 1Mb or more: - libs 6.4Mb - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘Rdpack’ ‘mcclust’ - All declared Imports should be used. - ``` - -# APCI - -
- -* Version: 1.0.8 -* GitHub: NA -* Source code: https://github.com/cran/APCI -* Date/Publication: 2024-09-02 20:20:06 UTC -* Number of recursive dependencies: 73 - -Run `revdepcheck::cloud_details(, "APCI")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘1_tests.R’ - Running the tests in ‘tests/1_tests.R’ failed. - Complete output: - > # install the package and use this script to test the package - > library("APCI") - > # or: remotes::install_github("jiahui1902/APCI") - > test_data <- APCI::women9017 - > test_data$acc <- as.factor(test_data$acc) - > test_data$pcc <- as.factor(test_data$pcc) - > test_data$educc <- as.factor(test_data$educc) - ... - -0.335818939 0.165402344 0.138957101 -0.357703237 0.229441985 - acc8:pcc3 acc9:pcc3 acc1:pcc4 acc2:pcc4 acc3:pcc4 - -0.147848556 0.146360984 -0.436635793 0.062363971 0.289676120 - acc4:pcc4 acc5:pcc4 acc6:pcc4 acc7:pcc4 acc8:pcc4 - 0.266502847 0.199035811 -0.082410026 -0.140171983 -0.274808726 - acc9:pcc4 acc1:pcc5 acc2:pcc5 acc3:pcc5 acc4:pcc5 - 0.070541348 0.052280642 0.320968547 -0.136111903 -0.102002632 - acc5:pcc5 acc6:pcc5 acc7:pcc5 acc8:pcc5 acc9:pcc5 - -0.553458810 -0.333938836 0.340338956 0.670285259 -0.300340437 - Killed - ``` - -# aplot - -
- -* Version: 0.2.3 -* GitHub: https://github.com/YuLab-SMU/aplot -* Source code: https://github.com/cran/aplot -* Date/Publication: 2024-06-17 09:50:01 UTC -* Number of recursive dependencies: 50 - -Run `revdepcheck::cloud_details(, "aplot")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘aplot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: insert_left - > ### Title: plot-insertion - > ### Aliases: insert_left insert_right insert_top insert_bottom - > - > ### ** Examples - > - > library(ggplot2) - ... - > ap - > ap[2, 1] <- ap[2, 1] + theme_bw() - > ap[2, 1] <- ap[2, 1] + - + aes(color = as.factor(am)) + - + scale_color_manual(values = c('steelblue', 'darkgreen')) - > ap[1, 1] <- ap[1, 1] + theme(axis.line.x.bottom=element_line()) - > ap - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - -# applicable - -
- -* Version: 0.1.1 -* GitHub: https://github.com/tidymodels/applicable -* Source code: https://github.com/cran/applicable -* Date/Publication: 2024-04-25 00:00:04 UTC -* Number of recursive dependencies: 116 - -Run `revdepcheck::cloud_details(, "applicable")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(applicable) - Loading required package: ggplot2 - > - > test_check("applicable") - Loading required package: dplyr - ... - `expected` is a character vector ('percentile') - ── Failure ('test-plot.R:36:3'): output of autoplot.apd_pca is correct when options=distance are provided ── - ad_plot$labels$y (`actual`) not equal to "percentile" (`expected`). - - `actual` is NULL - `expected` is a character vector ('percentile') - - [ FAIL 3 | WARN 0 | SKIP 22 | PASS 90 ] - Error: Test failures - Execution halted - ``` - -# ASRgenomics +# asmbPLS
-* Version: 1.1.4 +* Version: 1.0.0 * GitHub: NA -* Source code: https://github.com/cran/ASRgenomics -* Date/Publication: 2024-01-29 21:20:02 UTC -* Number of recursive dependencies: 136 +* Source code: https://github.com/cran/asmbPLS +* Date/Publication: 2023-04-17 09:50:05 UTC +* Number of recursive dependencies: 93 -Run `revdepcheck::cloud_details(, "ASRgenomics")` for more info +Run `revdepcheck::cloud_details(, "asmbPLS")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘ASRgenomics-Ex.R’ failed - The error most likely occurred in: - - > ### Name: kinship.pca - > ### Title: Performs a Principal Component Analysis (PCA) based on a kinship - > ### matrix K - > ### Aliases: kinship.pca - > - > ### ** Examples - > - ... - 13. │ └─ggplot2:::`+.gg`(...) - 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 15. │ ├─ggplot2::ggplot_add(object, p, objectname) - 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 18. └─base::.handleSimpleError(...) - 19. └─purrr (local) h(simpleError(msg, call)) - 20. └─cli::cli_abort(...) - 21. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR +* checking whether package ‘asmbPLS’ can be installed ... WARNING ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - ... - 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 18. └─base::.handleSimpleError(...) - 19. └─purrr (local) h(simpleError(msg, call)) - 20. └─cli::cli_abort(...) - 21. └─rlang::abort(...) - - [ FAIL 2 | WARN 2 | SKIP 0 | PASS 249 ] - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘asmbPLS’ + See ‘/tmp/workdir/asmbPLS/new/asmbPLS.Rcheck/00install.out’ for details. ``` ## In both * checking installed package size ... NOTE ``` - installed size is 8.9Mb + installed size is 20.5Mb sub-directories of 1Mb or more: - data 8.5Mb + data 2.5Mb + libs 16.9Mb ``` # autocogs @@ -1101,7 +640,7 @@ Run `revdepcheck::cloud_details(, "ASRgenomics")` for more info * GitHub: https://github.com/schloerke/autocogs * Source code: https://github.com/cran/autocogs * Date/Publication: 2021-05-29 17:00:05 UTC -* Number of recursive dependencies: 74 +* Number of recursive dependencies: 73 Run `revdepcheck::cloud_details(, "autocogs")` for more info @@ -1151,7 +690,7 @@ Run `revdepcheck::cloud_details(, "autocogs")` for more info * GitHub: https://github.com/terrytangyuan/autoplotly * Source code: https://github.com/cran/autoplotly * Date/Publication: 2021-04-18 06:50:11 UTC -* Number of recursive dependencies: 88 +* Number of recursive dependencies: 87 Run `revdepcheck::cloud_details(, "autoplotly")` for more info @@ -1174,8 +713,8 @@ Run `revdepcheck::cloud_details(, "autoplotly")` for more info > # Automatically generate interactive plot for results produced by `stats::prcomp` > p <- autoplotly(prcomp(iris[c(1, 2, 3, 4)]), data = iris, + colour = 'Species', label = TRUE, label.size = 3, frame = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: autoplotly ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + Error in pm[[2]] : subscript out of bounds + Calls: autoplotly ... autoplotly.default -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` @@ -1192,406 +731,135 @@ Run `revdepcheck::cloud_details(, "autoplotly")` for more info ══ Failed tests ════════════════════════════════════════════════════════════════ ... - 5. └─ggfortify::ggbiplot(...) - 6. └─ggplot2:::`+.gg`(...) - 7. └─ggplot2:::add_ggplot(e1, e2, e2name) - 8. ├─ggplot2::ggplot_add(object, p, objectname) - 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 10. └─ggplot2:::new_layer_names(object, names(plot$layers)) + ▆ + 1. ├─autoplotly::autoplotly(...) at test_all.R:26:3 + 2. └─autoplotly:::autoplotly.default(...) + 3. ├─plotly::ggplotly(...) + 4. └─plotly:::ggplotly.ggplot(...) + 5. └─plotly::gg2list(...) [ FAIL 3 | WARN 0 | SKIP 0 | PASS 1 ] Error: Test failures Execution halted ``` -# autoReg +# autoTS
-* Version: 0.3.3 -* GitHub: https://github.com/cardiomoon/autoReg -* Source code: https://github.com/cran/autoReg -* Date/Publication: 2023-11-14 05:53:27 UTC -* Number of recursive dependencies: 214 +* Version: 0.9.11 +* GitHub: https://github.com/vivienroussez/autots +* Source code: https://github.com/cran/autoTS +* Date/Publication: 2020-06-05 12:20:06 UTC +* Number of recursive dependencies: 119 -Run `revdepcheck::cloud_details(, "autoReg")` for more info +Run `revdepcheck::cloud_details(, "autoTS")` for more info
## Newly broken -* checking examples ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Running examples in ‘autoReg-Ex.R’ failed - The error most likely occurred in: - - > ### Name: adjustedPlot.survreg - > ### Title: Draw predicted survival curve with an object survreg - > ### Aliases: adjustedPlot.survreg - > - > ### ** Examples - > - > library(survival) - > x=survreg(Surv(time, status) ~ rx, data=anderson,dist="exponential") - > adjustedPlot(x) - > adjustedPlot(x,addCox=TRUE) - Warning: Removed 42 rows containing missing values or values outside the scale range - (`geom_line()`). - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘autoTS_vignette.Rmd’ using rmarkdown ``` +## In both + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Automatic_Regression_Modeling.Rmd’ + when running code in ‘autoTS_vignette.Rmd’ ... - Species setosa (N=50) Mean ± SD 5.0 ± 0.4 - versicolor (N=50) Mean ± SD 5.9 ± 0.5 1.46 (1.24 to 1.68, p<.001) 1.44 (1.16 to 1.71, p<.001) 1.47 (1.23 to 1.70, p<.001) - virginica (N=50) Mean ± SD 6.6 ± 0.6 1.95 (1.75 to 2.14, p<.001) 1.87 (1.62 to 2.11, p<.001) 1.97 (1.76 to 2.17, p<.001) - ———————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————————— + Warning in unzip(zipfile = "../inst/extdata/namq_10_gdp.zip", exdir = tmp_dir) : + error 1 in extracting from zip file - > modelPlot(fit1, imputed = TRUE) - - ... + > dat <- read.csv(paste0(tmp_dir, "/namq_10_gdp_1_Data.csv")) + Warning in file(file, "rt") : + cannot open file '/tmp/RtmprfZN0t/namq_10_gdp_1_Data.csv': No such file or directory - When sourcing ‘Survival.R’: - Error: argument is of length zero + When sourcing ‘autoTS_vignette.R’: + Error: cannot open the connection Execution halted - ‘Automatic_Regression_Modeling.Rmd’ using ‘UTF-8’... failed - ‘Bootstrap_Prediction.Rmd’ using ‘UTF-8’... OK - ‘Getting_started.Rmd’ using ‘UTF-8’... failed - ‘Statiastical_test_in_gaze.Rmd’ using ‘UTF-8’... OK - ‘Survival.Rmd’ using ‘UTF-8’... failed + ‘autoTS_vignette.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +* checking dependencies in R code ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘Automatic_Regression_Modeling.Rmd’ using rmarkdown - - Quitting from lines 142-143 [unnamed-chunk-15] (Automatic_Regression_Modeling.Rmd) - Error: processing vignette 'Automatic_Regression_Modeling.Rmd' failed with diagnostics: - object is not a unit - --- failed re-building ‘Automatic_Regression_Modeling.Rmd’ - - --- re-building ‘Bootstrap_Prediction.Rmd’ using rmarkdown + Namespaces in Imports field not imported from: + ‘plotly’ ‘shinycssloaders’ + All declared Imports should be used. + ``` + +* checking LazyData ... NOTE + ``` + 'LazyData' is specified without a 'data' directory ``` -# baggr +# bartMan
-* Version: 0.7.8 -* GitHub: https://github.com/wwiecek/baggr -* Source code: https://github.com/cran/baggr -* Date/Publication: 2024-02-12 18:20:02 UTC -* Number of recursive dependencies: 104 +* Version: 0.1.1 +* GitHub: NA +* Source code: https://github.com/cran/bartMan +* Date/Publication: 2024-07-24 12:10:02 UTC +* Number of recursive dependencies: 135 -Run `revdepcheck::cloud_details(, "baggr")` for more info +Run `revdepcheck::cloud_details(, "bartMan")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘bartMan’ can be installed ... ERROR ``` - Running examples in ‘baggr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: baggr_plot - > ### Title: Plotting method in baggr package - > ### Aliases: baggr_plot - > - > ### ** Examples - > - > fit <- baggr(schools, pooling = "none") - Automatically chose Rubin model with aggregate data based on input data. - Setting prior for mean in each group using 10 times the max effect : + Installation failed. + See ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/00install.out’ for details. ``` -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(baggr) - Loading required package: Rcpp - This is baggr; see vignette('baggr') for tutorial, ?baggr for basic help. - For execution on a local, multicore CPU with excess RAM call: - options(mc.cores = parallel::detectCores()) - > - ... - 10. └─bayesplot::mcmc_areas(...) - 11. └─ggplot2:::`+.gg`(...) - 12. └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. ├─ggplot2::ggplot_add(object, p, objectname) - 14. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 6 | WARN 0 | SKIP 6 | PASS 488 ] - Error: Test failures - Execution halted - ``` +## Installation -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘baggr.Rmd’ - ... - 2.5% 0.4303903 - mean 0.8619752 - 97.5% 0.9998572 - - - > plot(baggr_schools, order = FALSE) - - When sourcing ‘baggr.R’: - Error: argument is of length zero - Execution halted - - ‘baggr.Rmd’ using ‘UTF-8’... failed - ‘baggr_binary.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘baggr.Rmd’ using rmarkdown - - Quitting from lines 272-273 [unnamed-chunk-9] (baggr.Rmd) - Error: processing vignette 'baggr.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘baggr.Rmd’ - - --- re-building ‘baggr_binary.Rmd’ using rmarkdown - --- finished re-building ‘baggr_binary.Rmd’ - - SUMMARY: processing the following file failed: - ‘baggr.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 196.3Mb - sub-directories of 1Mb or more: - libs 194.5Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# banter - -
- -* Version: 0.9.6 -* GitHub: NA -* Source code: https://github.com/cran/banter -* Date/Publication: 2023-02-12 21:32:29 UTC -* Number of recursive dependencies: 95 - -Run `revdepcheck::cloud_details(, "banter")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘banter-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotDetectorTrace - > ### Title: Plot BANTER Detector Traces - > ### Aliases: plotDetectorTrace - > - > ### ** Examples - > - > data(train.data) - ... - > bant.mdl <- addBanterDetector( - + bant.mdl, train.data$detectors, - + ntree = 50, sampsize = 1, num.cores = 1 - + ) - > - > plotDetectorTrace(bant.mdl) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: plotDetectorTrace ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -# bartMan - -
- -* Version: 0.1.1 -* GitHub: NA -* Source code: https://github.com/cran/bartMan -* Date/Publication: 2024-07-24 12:10:02 UTC -* Number of recursive dependencies: 135 - -Run `revdepcheck::cloud_details(, "bartMan")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘bartMan-Ex.R’ failed - The error most likely occurred in: - - > ### Name: mdsBart - > ### Title: mdsBart - > ### Aliases: mdsBart - > - > ### ** Examples - > - > if (requireNamespace("dbarts", quietly = TRUE)) { - ... - | - |======================================================================| 100% - Extracting Observation Data... - - Getting proximites... - Getting MDS... - Performing procrustes... - Error in if (new_name %in% existing) { : argument is of length zero - Calls: mdsBart -> suppressMessages -> withCallingHandlers - Execution halted - ``` - -# BasketballAnalyzeR - -
- -* Version: 0.5.0 -* GitHub: https://github.com/sndmrc/BasketballAnalyzeR -* Source code: https://github.com/cran/BasketballAnalyzeR -* Date/Publication: 2020-06-26 09:00:11 UTC -* Number of recursive dependencies: 83 - -Run `revdepcheck::cloud_details(, "BasketballAnalyzeR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘BasketballAnalyzeR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: scatterplot - > ### Title: Draws a scatter plot or a matrix of scatter plots - > ### Aliases: scatterplot - > - > ### ** Examples - > - > # Single scatter plot - ... - > X <- data.frame(AST=Pbox.sel$AST/Pbox.sel$MIN,TOV=Pbox.sel$TOV/Pbox.sel$MIN) - > X$PTSpm <- Pbox.sel$PTS/Pbox.sel$MIN - > mypal <- colorRampPalette(c("blue","yellow","red")) - > scatterplot(X, data.var=c("AST","TOV"), z.var="PTSpm", labels=1:nrow(X), palette=mypal) - > # Matrix of scatter plots - > data <- Pbox[1:50, c("PTS","P3M","P2M","OREB","Team")] - > scatterplot(data, data.var=1:4, z.var="Team") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.9Mb - sub-directories of 1Mb or more: - data 6.5Mb - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘circlize’ ‘hexbin’ ‘scales’ ‘sna’ - All declared Imports should be used. - ``` - -# bayefdr - -
- -* Version: 0.2.1 -* GitHub: https://github.com/VallejosGroup/bayefdr -* Source code: https://github.com/cran/bayefdr -* Date/Publication: 2022-10-26 19:35:06 UTC -* Number of recursive dependencies: 96 +### Devel -Run `revdepcheck::cloud_details(, "bayefdr")` for more info +``` +* installing *source* package ‘bartMan’ ... +** package ‘bartMan’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** byte-compile and prepare package for lazy loading +Error in eval(exprs[i], envir) : object 'justify_grobs' not found +Error: unable to load R code in package ‘bartMan’ +Execution halted +ERROR: lazy loading failed for package ‘bartMan’ +* removing ‘/tmp/workdir/bartMan/new/bartMan.Rcheck/bartMan’ -
-## Newly broken +``` +### CRAN -* checking examples ... ERROR - ``` - Running examples in ‘bayefdr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: traceplot - > ### Title: Trace, marginal density histogram, and autocorrelation plot of - > ### MCMC draws. - > ### Aliases: traceplot - > - > ### ** Examples - > - > x <- rnorm(1000) - > traceplot(x) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: traceplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` +``` +* installing *source* package ‘bartMan’ ... +** package ‘bartMan’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +** building package indices +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (bartMan) -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(bayefdr) - > - > test_check("bayefdr") - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 14 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - 8. └─base::Reduce(`+`, c(list(noGeomPlot), layers)) - 9. └─ggplot2:::`+.gg`(init, x[[i]]) - 10. └─ggplot2:::add_ggplot(e1, e2, e2name) - 11. ├─ggplot2::ggplot_add(object, p, objectname) - 12. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 13. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 14 ] - Error: Test failures - Execution halted - ``` +``` # bayesAB
@@ -1600,7 +868,7 @@ Run `revdepcheck::cloud_details(, "bayefdr")` for more info * GitHub: https://github.com/FrankPortman/bayesAB * Source code: https://github.com/cran/bayesAB * Date/Publication: 2021-06-25 00:50:02 UTC -* Number of recursive dependencies: 74 +* Number of recursive dependencies: 73 Run `revdepcheck::cloud_details(, "bayesAB")` for more info @@ -1658,7 +926,7 @@ Run `revdepcheck::cloud_details(, "BayesGrowth")` for more info When sourcing ‘MCMC-example.R’: Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 14, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, FALSE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NUL + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, Execution halted ‘MCMC-example.Rmd’ using ‘UTF-8’... failed @@ -1674,10 +942,10 @@ Run `revdepcheck::cloud_details(, "BayesGrowth")` for more info * checking installed package size ... NOTE ``` - installed size is 84.8Mb + installed size is 82.3Mb sub-directories of 1Mb or more: data 1.5Mb - libs 82.6Mb + libs 80.1Mb ``` * checking for GNU extensions in Makefiles ... NOTE @@ -1693,7 +961,7 @@ Run `revdepcheck::cloud_details(, "BayesGrowth")` for more info * GitHub: https://github.com/gorkang/BayesianReasoning * Source code: https://github.com/cran/BayesianReasoning * Date/Publication: 2023-11-14 11:33:20 UTC -* Number of recursive dependencies: 107 +* Number of recursive dependencies: 106 Run `revdepcheck::cloud_details(, "BayesianReasoning")` for more info @@ -1726,41 +994,15 @@ Run `revdepcheck::cloud_details(, "BayesianReasoning")` for more info Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘PPV_NPV.Rmd’ - ... - ℹ Please consider using `annotate()` or provide this layer with data containing - a single row. - Warning in ggforce::geom_mark_rect(aes(label = paste0(translated_labels$label_PPV_NPV, : - All aesthetics have length 1, but the data has 10201 rows. - ℹ Please consider using `annotate()` or provide this layer with data containing - a single row. - - When sourcing ‘PPV_NPV.R’: - Error: object is not coercible to a unit - Execution halted - - ‘PPV_NPV.Rmd’ using ‘UTF-8’... failed - ‘introduction.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘PPV_NPV.Rmd’ using rmarkdown - ``` - # BayesMallows
-* Version: 2.2.2 +* Version: 2.2.3 * GitHub: https://github.com/ocbe-uio/BayesMallows * Source code: https://github.com/cran/BayesMallows -* Date/Publication: 2024-08-17 13:00:03 UTC -* Number of recursive dependencies: 82 +* Date/Publication: 2025-01-14 11:30:02 UTC +* Number of recursive dependencies: 81 Run `revdepcheck::cloud_details(, "BayesMallows")` for more info @@ -1788,7 +1030,7 @@ Run `revdepcheck::cloud_details(, "BayesMallows")` for more info `actual` is NULL `expected` is a character vector ('cluster') - [ FAIL 10 | WARN 0 | SKIP 6 | PASS 435 ] + [ FAIL 10 | WARN 0 | SKIP 10 | PASS 363 ] Error: Test failures Execution halted ``` @@ -1797,82 +1039,10 @@ Run `revdepcheck::cloud_details(, "BayesMallows")` for more info * checking installed package size ... NOTE ``` - installed size is 23.7Mb + installed size is 23.6Mb sub-directories of 1Mb or more: doc 2.7Mb - libs 20.1Mb - ``` - -# bayesplay - -
- -* Version: 0.9.3 -* GitHub: https://github.com/bayesplay/bayesplay -* Source code: https://github.com/cran/bayesplay -* Date/Publication: 2023-04-13 12:10:02 UTC -* Number of recursive dependencies: 84 - -Run `revdepcheck::cloud_details(, "bayesplay")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘bayesplay-Ex.R’ failed - The error most likely occurred in: - - > ### Name: visual_compare - > ### Title: Visually compare two models - > ### Aliases: visual_compare - > - > ### ** Examples - > - > # define two models - ... - > h1_mod <- prior(family = "normal", mean = 0, sd = 10) - > m0 <- extract_predictions(data_model * h0_mod) - > m1 <- extract_predictions(data_model * h1_mod) - > - > # visually compare the model - > visual_compare(m0, m1) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘advanced.Rmd’ - ... - > plot(posterior1, add_prior = TRUE) + labs(title = "prior and posterior distribution", - + subtitle = "for a binomial likelihood and beta prior") - Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on 'ϴ' in 'mbcsToSbcs': dot substituted for - Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on 'ϴ' in 'mbcsToSbcs': dot substituted for - - ... - > visual_compare(d_model1, d_model2) - - When sourcing ‘plots.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘advanced.Rmd’ using ‘UTF-8’... failed - ‘basic.Rmd’ using ‘UTF-8’... OK - ‘default_ttests.Rmd’ using ‘UTF-8’... OK - ‘plots.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘advanced.Rmd’ using rmarkdown + libs 20.0Mb ``` # bayesplot @@ -1883,7 +1053,7 @@ Run `revdepcheck::cloud_details(, "bayesplay")` for more info * GitHub: https://github.com/stan-dev/bayesplot * Source code: https://github.com/cran/bayesplot * Date/Publication: 2024-02-15 05:30:11 UTC -* Number of recursive dependencies: 126 +* Number of recursive dependencies: 128 Run `revdepcheck::cloud_details(, "bayesplot")` for more info @@ -1891,31 +1061,6 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info ## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘bayesplot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: MCMC-intervals - > ### Title: Plot interval estimates from MCMC draws - > ### Aliases: MCMC-intervals mcmc_intervals mcmc_areas mcmc_areas_ridges - > ### mcmc_intervals_data mcmc_areas_data mcmc_areas_ridges_data - > - > ### ** Examples - > - ... - - $Parameter - [1] "alpha" "sigma" "beta[1]" "beta[2]" "beta[3]" "beta[4]" - - > - > color_scheme_set("brightblue") - > mcmc_intervals(x) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: mcmc_intervals ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - * checking tests ... ERROR ``` Running ‘testthat.R’ @@ -1929,14 +1074,14 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info * Does _not_ affect other ggplot2 plots * See ?bayesplot_theme_set for details on theme setting ... - 5. └─bayesplot::ppc_violin_grouped(y, yrep, group) - 6. └─ggplot2:::`+.gg`(...) - 7. └─ggplot2:::add_ggplot(e1, e2, e2name) - 8. ├─ggplot2::ggplot_add(object, p, objectname) - 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 10. └─ggplot2:::new_layer_names(object, names(plot$layers)) + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test-mcmc-traces.R:55:3'): mcmc_trace options work ──────────────── + all(c("xmin", "xmax", "ymin", "ymax") %in% names(ll)) is not TRUE - [ FAIL 6 | WARN 1 | SKIP 73 | PASS 994 ] + `actual`: FALSE + `expected`: TRUE + + [ FAIL 1 | WARN 1 | SKIP 73 | PASS 1024 ] Error: Test failures Execution halted ``` @@ -1946,16 +1091,12 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘plotting-mcmc-draws.Rmd’ + when running code in ‘visual-mcmc-diagnostics.Rmd’ ... + > schools_dat <- list(J = 8, y = c(28, 8, -3, 7, -1, + + 1, 18, 12), sigma = c(15, 10, 16, 11, 9, 11, 10, 18)) - > color_scheme_set("red") - - > mcmc_intervals(posterior, pars = c("cyl", "drat", - + "am", "sigma")) - - ... > fit_cp <- sampling(schools_mod_cp, data = schools_dat, + seed = 803214055, control = list(adapt_delta = 0.9)) @@ -1964,7 +1105,7 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info Execution halted ‘graphical-ppcs.Rmd’ using ‘UTF-8’... OK - ‘plotting-mcmc-draws.Rmd’ using ‘UTF-8’... failed + ‘plotting-mcmc-draws.Rmd’ using ‘UTF-8’... OK ‘visual-mcmc-diagnostics.Rmd’ using ‘UTF-8’... failed ``` @@ -1976,227 +1117,27 @@ Run `revdepcheck::cloud_details(, "bayesplot")` for more info doc 3.8Mb ``` -# bayestestR - -
- -* Version: 0.14.0 -* GitHub: https://github.com/easystats/bayestestR -* Source code: https://github.com/cran/bayestestR -* Date/Publication: 2024-07-24 14:10:02 UTC -* Number of recursive dependencies: 209 - -Run `revdepcheck::cloud_details(, "bayestestR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘bayestestR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: bayesfactor_restricted - > ### Title: Bayes Factors (BF) for Order Restricted Models - > ### Aliases: bayesfactor_restricted bf_restricted - > ### bayesfactor_restricted.stanreg bayesfactor_restricted.brmsfit - > ### bayesfactor_restricted.blavaan bayesfactor_restricted.emmGrid - > ### as.logical.bayesfactor_restricted - > - ... - + ) - > - > - > (b <- bayesfactor_restricted(posterior, hypothesis = hyps, prior = prior)) - Bayes Factor (Order-Restriction) - - Hypothesis P(Prior) P(Posterior) BF - A > B & B > C 0.16 0.23 1.39 - A > B & A > C 0.36 0.59 1.61 - C > A 0.46 0.34 0.742 - ``` - -## In both - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(bayestestR) - > - > test_check("bayestestR") - Starting 2 test processes - [ FAIL 3 | WARN 2 | SKIP 74 | PASS 180 ] - - ... - 14. └─brms:::eval2(call, envir = args, enclos = envir) - 15. └─base::eval(expr, envir, ...) - 16. └─base::eval(expr, envir, ...) - 17. └─rstan (local) .fun(model_code = .x1) - 18. └─rstan:::cxxfunctionplus(...) - 19. └─base::sink(type = "output") - - [ FAIL 3 | WARN 2 | SKIP 74 | PASS 180 ] - Error: Test failures - Execution halted - ``` - -# BCEA - -
- -* Version: 2.4.6 -* GitHub: https://github.com/n8thangreen/BCEA -* Source code: https://github.com/cran/BCEA -* Date/Publication: 2024-02-16 15:00:08 UTC -* Number of recursive dependencies: 125 - -Run `revdepcheck::cloud_details(, "BCEA")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘BCEA-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ceac.plot.bcea - > ### Title: Cost-Effectiveness Acceptability Curve (CEAC) Plot - > ### Aliases: ceac.plot.bcea ceac.plot - > ### Keywords: hplot - > - > ### ** Examples - > - ... - > he <- BCEA::bcea(eff, cost) - No reference selected. Defaulting to first intervention. - > ceac.plot(he) - > - > ceac.plot(he, graph = "base") - > ceac.plot(he, graph = "ggplot2") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(BCEA) - The BCEA version loaded is: 2.4.6 - - Attaching package: 'BCEA' - - The following object is masked from 'package:graphics': - ... - 3. └─BCEA:::eib_plot_ggplot(he, graph_params, ...) - 4. └─ggplot2:::`+.gg`(...) - 5. └─ggplot2:::add_ggplot(e1, e2, e2name) - 6. ├─ggplot2::ggplot_add(object, p, objectname) - 7. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 8. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 1 | WARN 1 | SKIP 7 | PASS 159 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘CEriskav.Rmd’ - ... - - > CEriskav(bcea_smoke) <- r - - > plot(bcea_smoke) - - > plot(bcea_smoke, graph = "ggplot") - - ... - - ‘CEriskav.Rmd’ using ‘UTF-8’... failed - ‘bcea.Rmd’ using ‘UTF-8’... failed - ‘ceac.Rmd’ using ‘UTF-8’... failed - ‘ceef.Rmd’ using ‘UTF-8’... OK - ‘ceplane.Rmd’ using ‘UTF-8’... failed - ‘contour.Rmd’ using ‘UTF-8’... failed - ‘eib.Rmd’ using ‘UTF-8’... failed - ‘paired_vs_multiple_comps.Rmd’ using ‘UTF-8’... OK - ‘Set_bcea_parameters.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘CEriskav.Rmd’ using rmarkdown - - Quitting from lines 41-46 [unnamed-chunk-3] (CEriskav.Rmd) - Error: processing vignette 'CEriskav.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘CEriskav.Rmd’ - - --- re-building ‘bcea.Rmd’ using rmarkdown - ``` - -# BDgraph +# bdl
-* Version: 2.73 -* GitHub: NA -* Source code: https://github.com/cran/BDgraph -* Date/Publication: 2024-08-23 13:20:02 UTC -* Number of recursive dependencies: 71 +* Version: 1.0.5 +* GitHub: https://github.com/statisticspoland/R_Package_to_API_BDL +* Source code: https://github.com/cran/bdl +* Date/Publication: 2023-02-24 15:00:02 UTC +* Number of recursive dependencies: 150 -Run `revdepcheck::cloud_details(, "BDgraph")` for more info +Run `revdepcheck::cloud_details(, "bdl")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘BDgraph-Examples.Rmd’ - ... - Sensitivity 1 0.714 0.714 - MCC 1 0.827 0.827 - - > plotroc(list(bdgraph.obj, bdgraph.mpl.obj), data.sim, - + cut = 200, labels = c("BDgraph", "BDgraph.mpl"), color = c("blue", - + "red")) - - When sourcing ‘BDgraph-Examples.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘BDgraph-Examples.Rmd’ using ‘UTF-8’... failed - ‘Introduction-BDgraph.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘BDgraph-Examples.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE +* checking whether package ‘bdl’ can be installed ... WARNING ``` - installed size is 8.3Mb - sub-directories of 1Mb or more: - libs 6.8Mb + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘bdl’ + See ‘/tmp/workdir/bdl/new/bdl.Rcheck/00install.out’ for details. ``` # BEAMR @@ -2207,7 +1148,7 @@ Run `revdepcheck::cloud_details(, "BDgraph")` for more info * GitHub: https://github.com/annaSeffernick/BEAMR * Source code: https://github.com/cran/BEAMR * Date/Publication: 2024-07-27 16:00:06 UTC -* Number of recursive dependencies: 148 +* Number of recursive dependencies: 152 Run `revdepcheck::cloud_details(, "BEAMR")` for more info @@ -2220,23 +1161,23 @@ Run `revdepcheck::cloud_details(, "BEAMR")` for more info Running examples in ‘BEAMR-Ex.R’ failed The error most likely occurred in: - > ### Name: gen_beam_plot_list - > ### Title: Generate BEAM Plot List - > ### Aliases: gen_beam_plot_list + > ### Name: plot_beam_clin + > ### Title: Plot BEAM Sets + > ### Aliases: plot_beam_clin > > ### ** Examples > > data(beam_stats) ... - + beam.specs=beam_stats$beam.specs) - > plot.list <- gen_beam_plot_list(beam.result=beam_stats, beam.specs=plot.specs, - + beam.feat.pvals=test.feat.pvals, - + number.pairs=1, set.id="ENSG00000099810", - + feat.id=NULL, title.size=11, - + pair.order="omic", endpt.order=NULL) - Error in if (new_name %in% existing) { : argument is of length zero - Error in plot.temp$plot : $ operator is invalid for atomic vectors - Calls: gen_beam_plot_list + 20. │ └─plot$guides$assemble(theme) + 21. │ └─ggplot2 (local) assemble(..., self = self) + 22. │ └─self$package_box(grobs[[i]], position, theme + adjust) + 23. │ └─ggplot2 (local) package_box(...) + 24. │ └─theme$legend.box %||% direction + 25. └─base::.handleSimpleError(...) + 26. └─purrr (local) h(simpleError(msg, call)) + 27. └─cli::cli_abort(...) + 28. └─rlang::abort(...) Execution halted ``` @@ -2248,7 +1189,7 @@ Run `revdepcheck::cloud_details(, "BEAMR")` for more info * GitHub: https://github.com/GSK-Biostatistics/beastt * Source code: https://github.com/cran/beastt * Date/Publication: 2024-06-20 15:50:16 UTC -* Number of recursive dependencies: 100 +* Number of recursive dependencies: 99 Run `revdepcheck::cloud_details(, "beastt")` for more info @@ -2299,7 +1240,7 @@ Run `revdepcheck::cloud_details(, "beastt")` for more info ℹ Error occurred in the 1st layer. Caused by error in `use_defaults()`: ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, Execution halted ‘binary.Rmd’ using ‘UTF-8’... failed @@ -2312,219 +1253,205 @@ Run `revdepcheck::cloud_details(, "beastt")` for more info --- re-building ‘binary.Rmd’ using rmarkdown ``` -# BeeGUTS +# biclustermd
-* Version: 1.1.3 -* GitHub: https://github.com/bgoussen/BeeGUTS -* Source code: https://github.com/cran/BeeGUTS -* Date/Publication: 2023-09-18 15:40:02 UTC -* Number of recursive dependencies: 86 +* Version: 0.2.3 +* GitHub: https://github.com/jreisner/biclustermd +* Source code: https://github.com/cran/biclustermd +* Date/Publication: 2021-06-17 15:10:06 UTC +* Number of recursive dependencies: 83 -Run `revdepcheck::cloud_details(, "BeeGUTS")` for more info +Run `revdepcheck::cloud_details(, "biclustermd")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘BeeGUTS-Ex.R’ failed - The error most likely occurred in: - - > ### Name: traceplot - > ### Title: Plotting method for traces and densities for 'beeSurvFit' - > ### objects - > ### Aliases: traceplot traceplot.beeSurvFit - > - > ### ** Examples - > - > data(fitBetacyfluthrin_Chronic) - > traceplot(fitBetacyfluthrin_Chronic) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: traceplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(biclustermd) + Loading required package: ggplot2 + Loading required package: tidyr + + Attaching package: 'tidyr' + + ... + ── Failure ('test-autoplot_biclustermd.R:6:3'): autoplot_biclustermd() correctly plots cluster lines ── + ap$data[[3]]$xintercept[-1] not equal to cumsum(colSums(sbc$P)) + 0.5. + Classes differ: 'mapped_discrete'/'numeric' is not 'numeric' + ── Failure ('test-autoplot_biclustermd.R:7:3'): autoplot_biclustermd() correctly plots cluster lines ── + ap$data[[4]]$yintercept[-1] not equal to cumsum(colSums(sbc$Q)) + 0.5. + Classes differ: 'mapped_discrete'/'numeric' is not 'numeric' + + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 66 ] + Error: Test failures + Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Tutorial.Rmd’ - ... - Chain 1: Elapsed Time: 137.867 seconds (Warm-up) - Chain 1: 75.093 seconds (Sampling) - Chain 1: 212.96 seconds (Total) - Chain 1: - - > traceplot(fit) - - When sourcing ‘Tutorial.R’: - Error: argument is of length zero - Execution halted - - ‘Tutorial.Rmd’ using ‘UTF-8’... failed - ``` +## In both -* checking re-building of vignette outputs ... NOTE +* checking dependencies in R code ... NOTE ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Tutorial.Rmd’ using rmarkdown - - Quitting from lines 45-58 [example] (Tutorial.Rmd) - Error: processing vignette 'Tutorial.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Tutorial.Rmd’ - - SUMMARY: processing the following file failed: - ‘Tutorial.Rmd’ - - Error: Vignette re-building failed. - Execution halted + Namespace in Imports field not imported from: ‘nycflights13’ + All declared Imports should be used. ``` -## In both +# biodosetools -* checking installed package size ... NOTE - ``` - installed size is 78.9Mb - sub-directories of 1Mb or more: - data 4.0Mb - libs 74.3Mb - ``` +
-* checking for GNU extensions in Makefiles ... NOTE +* Version: 3.6.1 +* GitHub: https://github.com/biodosetools-team/biodosetools +* Source code: https://github.com/cran/biodosetools +* Date/Publication: 2022-11-16 16:00:02 UTC +* Number of recursive dependencies: 118 + +Run `revdepcheck::cloud_details(, "biodosetools")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - GNU make is a SystemRequirements. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(biodosetools) + > + > test_check("biodosetools") + ! Problem with `glm()` -> constraint ML optimization will be used instead + ! Problem with `glm()` -> constraint ML optimization will be used instead + number of iterations= 43 + ... + actual | expected + [2] "Estimation" | "Estimation" [2] + [3] "Dose (Gy)" | "Dose (Gy)" [3] + [4] "Translocations/cells" | "Translocations/cells" [4] + - "yield_low" [5] + - "yield_upp" [6] + + [ FAIL 4 | WARN 0 | SKIP 1 | PASS 232 ] + Error: Test failures + Execution halted ``` -# besthr +# BioM2
-* Version: 0.3.2 +* Version: 1.1.0 * GitHub: NA -* Source code: https://github.com/cran/besthr -* Date/Publication: 2023-04-14 08:50:08 UTC -* Number of recursive dependencies: 67 +* Source code: https://github.com/cran/BioM2 +* Date/Publication: 2024-09-20 12:10:21 UTC +* Number of recursive dependencies: 272 -Run `revdepcheck::cloud_details(, "besthr")` for more info +Run `revdepcheck::cloud_details(, "BioM2")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘BioM2’ can be installed ... WARNING ``` - Running examples in ‘besthr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot.hrest - > ### Title: plots the 'hrest' object - > ### Aliases: plot.hrest - > - > ### ** Examples - > - > - > d1 <- make_data() - > hr_est <- estimate(d1, score, group) - > plot(hr_est) - Picking joint bandwidth of 0.68 - Error in as.unit(value) : object is not coercible to a unit - Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘BioM2’ + See ‘/tmp/workdir/BioM2/new/BioM2.Rcheck/00install.out’ for details. ``` -* checking running R code from vignettes ... ERROR +## In both + +* checking installed package size ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘basic-use.Rmd’ - ... - Confidence Intervals (0.025, 0.975) - 3.7475, 8.2525 - - 100 bootstrap resamples. - > plot(hr_est_1) - Picking joint bandwidth of 0.381 - - When sourcing ‘basic-use.R’: - Error: object is not coercible to a unit - Execution halted - - ‘basic-use.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘basic-use.Rmd’ using rmarkdown - - Quitting from lines 34-44 [unnamed-chunk-2] (basic-use.Rmd) - Error: processing vignette 'basic-use.Rmd' failed with diagnostics: - object is not coercible to a unit - --- failed re-building ‘basic-use.Rmd’ - - SUMMARY: processing the following file failed: - ‘basic-use.Rmd’ - - Error: Vignette re-building failed. - Execution halted + installed size is 12.8Mb + sub-directories of 1Mb or more: + data 12.5Mb ``` -# betaclust +# BioPred
-* Version: 1.0.3 +* Version: 1.0.2 * GitHub: NA -* Source code: https://github.com/cran/betaclust -* Date/Publication: 2023-09-29 10:20:02 UTC -* Number of recursive dependencies: 76 +* Source code: https://github.com/cran/BioPred +* Date/Publication: 2024-11-04 08:30:13 UTC +* Number of recursive dependencies: 122 -Run `revdepcheck::cloud_details(, "betaclust")` for more info +Run `revdepcheck::cloud_details(, "BioPred")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘BioPred-Ex.R’ failed + The error most likely occurred in: + + > ### Name: subgrp_perf + > ### Title: Subgroup Performance Evaluation for Prognostic Cases + > ### Aliases: subgrp_perf + > + > ### ** Examples + > + > # Load a sample dataset + ... + Risk Group = Medium 13.2 (10.23 , NA) + Risk Group = High 11.73 (5.66 , 15.84) + + $fig + Warning: Ignoring unknown labels: + • `fill = "Risk Group"` + • `linetype = "1"` + Error in theme + adjust : non-numeric argument to binary operator + Calls: ... -> assemble -> -> package_box -> %||% + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘vignettes.Rmd’ + when running code in ‘Tutorial.Rmd’ ... - + data = pca.methylation.data[, 2:5], patient_number = 1, plot_type = "ggplot") - - > plot(threshold_out, what = "kernel density", threshold = TRUE, - + data = pca.methylation.data[, 2:5], plot_type = "ggplot") - - > plot(threshold_out, what = "uncertainty") + + + > res$fig + Warning: Ignoring unknown labels: + • `fill = "treatment_categorical , biogroup"` + • `linetype = "1"` - When sourcing ‘vignettes.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘Tutorial.R’: + Error: non-numeric argument to binary operator Execution halted - ‘vignettes.Rmd’ using ‘UTF-8’... failed + ‘Tutorial.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘vignettes.Rmd’ using rmarkdown + --- re-building ‘Tutorial.Rmd’ using rmarkdown ``` -# biclustermd +# boxly
-* Version: 0.2.3 -* GitHub: https://github.com/jreisner/biclustermd -* Source code: https://github.com/cran/biclustermd -* Date/Publication: 2021-06-17 15:10:06 UTC -* Number of recursive dependencies: 84 +* Version: 0.1.1 +* GitHub: https://github.com/Merck/boxly +* Source code: https://github.com/cran/boxly +* Date/Publication: 2023-10-24 02:40:02 UTC +* Number of recursive dependencies: 90 -Run `revdepcheck::cloud_details(, "biclustermd")` for more info +Run `revdepcheck::cloud_details(, "boxly")` for more info
@@ -2535,265 +1462,212 @@ Run `revdepcheck::cloud_details(, "biclustermd")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(biclustermd) - Loading required package: ggplot2 - Loading required package: tidyr - - Attaching package: 'tidyr' - + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... - ── Failure ('test-autoplot_biclustermd.R:6:3'): autoplot_biclustermd() correctly plots cluster lines ── - ap$data[[3]]$xintercept[-1] not equal to cumsum(colSums(sbc$P)) + 0.5. - Classes differ: 'mapped_discrete'/'numeric' is not 'numeric' - ── Failure ('test-autoplot_biclustermd.R:7:3'): autoplot_biclustermd() correctly plots cluster lines ── - ap$data[[4]]$yintercept[-1] not equal to cumsum(colSums(sbc$Q)) + 0.5. - Classes differ: 'mapped_discrete'/'numeric' is not 'numeric' + 16. ├─plotly::add_trace(...) + 17. │ └─plotly::add_data(p, data) + 18. │ └─plotly:::is.plotly(p) + 19. ├─plotly::ggplotly(p, tooltip = "text", dynamicTicks = TRUE) + 20. └─plotly:::ggplotly.ggplot(p, tooltip = "text", dynamicTicks = TRUE) + 21. └─plotly::gg2list(...) - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 66 ] + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 25 ] Error: Test failures Execution halted ``` -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘nycflights13’ - All declared Imports should be used. - ``` - -# biodosetools +# brolgar
-* Version: 3.6.1 -* GitHub: https://github.com/biodosetools-team/biodosetools -* Source code: https://github.com/cran/biodosetools -* Date/Publication: 2022-11-16 16:00:02 UTC -* Number of recursive dependencies: 121 +* Version: 1.0.1 +* GitHub: https://github.com/njtierney/brolgar +* Source code: https://github.com/cran/brolgar +* Date/Publication: 2024-05-10 14:50:34 UTC +* Number of recursive dependencies: 103 -Run `revdepcheck::cloud_details(, "biodosetools")` for more info +Run `revdepcheck::cloud_details(, "brolgar")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(biodosetools) - > - > test_check("biodosetools") - ! Problem with `glm()` -> constraint ML optimization will be used instead - ! Problem with `glm()` -> constraint ML optimization will be used instead - number of iterations= 43 - ... - actual | expected - [2] "Estimation" | "Estimation" [2] - [3] "Dose (Gy)" | "Dose (Gy)" [3] - [4] "Translocations/cells" | "Translocations/cells" [4] - - "yield_low" [5] - - "yield_upp" [6] - - [ FAIL 4 | WARN 0 | SKIP 1 | PASS 232 ] - Error: Test failures - Execution halted + Running examples in ‘brolgar-Ex.R’ failed + The error most likely occurred in: + + > ### Name: facet_sample + > ### Title: Facet data into groups to facilitate exploration + > ### Aliases: facet_sample + > + > ### ** Examples + > + > library(ggplot2) + > ggplot(heights, + + aes(x = year, + + y = height_cm, + + group = country)) + + + geom_line() + + + facet_sample() + Error in if (params$as.table) { : argument is of length zero + Calls: ... -> setup -> -> compute_layout + Execution halted ``` -# BioPred - -
- -* Version: 1.0.1 -* GitHub: NA -* Source code: https://github.com/cran/BioPred -* Date/Publication: 2024-06-06 16:50:09 UTC -* Number of recursive dependencies: 118 - -Run `revdepcheck::cloud_details(, "BioPred")` for more info - -
- -## Newly broken +## In both * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Tutorial.Rmd’ + when running code in ‘exploratory-modelling.Rmd’ ... - - > tutorial_data$biogroup = ifelse(tutorial_data$x2 <= - + 0.5, "biomarker_positive", "biomarker_negative") - - > res = subgrp_perf_pred(yvar = "y.time", censorvar = "y.event", - + grpvar = "biogroup", grpname = c("biomarker_positive", "biomarker_negative"), .... [TRUNCATED] + Warning in is.na(non_null_default_aes[[aes_param_name]]) : + is.na() applied to non-(list or vector) of type 'language' - When sourcing ‘Tutorial.R’: + When sourcing ‘exploratory-modelling.R’: + Error: ℹ In index: 1. + ℹ With name: geom_line. + Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ + ... Error: argument is of length zero Execution halted - ‘Tutorial.Rmd’ using ‘UTF-8’... failed + ‘exploratory-modelling.Rmd’ using ‘UTF-8’... failed + ‘finding-features.Rmd’ using ‘UTF-8’... failed + ‘getting-started.Rmd’ using ‘UTF-8’... failed + ‘id-interesting-obs.Rmd’ using ‘UTF-8’... OK + ‘longitudinal-data-structures.Rmd’ using ‘UTF-8’... OK + ‘mixed-effects-models.Rmd’ using ‘UTF-8’... failed + ‘visualisation-gallery.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘Tutorial.Rmd’ using rmarkdown + --- re-building ‘exploratory-modelling.Rmd’ using rmarkdown + + Quitting from lines 47-56 [use-gg-highlight] (exploratory-modelling.Rmd) + Error: processing vignette 'exploratory-modelling.Rmd' failed with diagnostics: + ℹ In index: 1. + ℹ With name: geom_line. + Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ + aes_param_name]])`: + ! 'length = 2' in coercion to 'logical(1)' + --- failed re-building ‘exploratory-modelling.Rmd’ + + --- re-building ‘finding-features.Rmd’ using rmarkdown ``` -# BlandAltmanLeh +# bruneimap
* Version: 0.3.1 -* GitHub: NA -* Source code: https://github.com/cran/BlandAltmanLeh -* Date/Publication: 2015-12-23 23:32:17 -* Number of recursive dependencies: 63 +* GitHub: https://github.com/Bruneiverse/bruneimap +* Source code: https://github.com/cran/bruneimap +* Date/Publication: 2024-12-20 10:40:09 UTC +* Number of recursive dependencies: 116 -Run `revdepcheck::cloud_details(, "BlandAltmanLeh")` for more info +Run `revdepcheck::cloud_details(, "bruneimap")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking installed package size ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘Intro.Rmd’ - ... - > b <- 0.02 * a + 0.3 * rnorm(150) - - > library(ggExtra) - - > print(ggMarginal(bland.altman.plot(a, b, graph.sys = "ggplot2"), - + type = "histogram", size = 4)) - - When sourcing ‘Intro.R’: - Error: argument is of length zero - Execution halted - - ‘Intro.Rmd’... failed + installed size is 6.8Mb + sub-directories of 1Mb or more: + data 6.5Mb ``` -# bmggum +# bSi
-* Version: 0.1.0 -* GitHub: https://github.com/Naidantu/bmggum -* Source code: https://github.com/cran/bmggum -* Date/Publication: 2021-04-09 08:50:06 UTC -* Number of recursive dependencies: 85 +* Version: 1.0.0 +* GitHub: NA +* Source code: https://github.com/cran/bSi +* Date/Publication: 2024-01-24 15:52:57 UTC +* Number of recursive dependencies: 105 -Run `revdepcheck::cloud_details(, "bmggum")` for more info +Run `revdepcheck::cloud_details(, "bSi")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘bSi’ can be installed ... WARNING ``` - Running examples in ‘bmggum-Ex.R’ failed - The error most likely occurred in: - - > ### Name: bayesplot - > ### Title: bayesian convergence diagnosis plotting function - > ### Aliases: bayesplot - > - > ### ** Examples - > - > Data <- c(1,4,2,3) - ... - Chain 1: - Warning: There were 3 divergent transitions after warmup. See - https://mc-stan.org/misc/warnings.html#divergent-transitions-after-warmup - to find out why this is a problem and how to eliminate them. - Warning: Examine the pairs() plot to diagnose sampling problems - - > bayesplot(mod, 'alpha', 'density', inc_warmup=FALSE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: bayesplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘bSi’ + See ‘/tmp/workdir/bSi/new/bSi.Rcheck/00install.out’ for details. ``` -## In both +# calendR -* checking installed package size ... NOTE - ``` - installed size is 206.7Mb - sub-directories of 1Mb or more: - libs 206.1Mb - ``` +
-* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘RcppParallel’ ‘rstantools’ - All declared Imports should be used. - ``` +* Version: 1.2 +* GitHub: NA +* Source code: https://github.com/cran/calendR +* Date/Publication: 2023-10-05 17:30:02 UTC +* Number of recursive dependencies: 49 -* checking for GNU extensions in Makefiles ... NOTE +Run `revdepcheck::cloud_details(, "calendR")` for more info + +
+ +## Newly broken + +* checking whether package ‘calendR’ can be installed ... WARNING ``` - GNU make is a SystemRequirements. + Found the following significant warnings: + Warning: replacing previous import ‘ggimage::theme_transparent’ by ‘ggplot2::theme_transparent’ when loading ‘calendR’ + See ‘/tmp/workdir/calendR/new/calendR.Rcheck/00install.out’ for details. ``` -# boxly +# calendRio
-* Version: 0.1.1 -* GitHub: https://github.com/Merck/boxly -* Source code: https://github.com/cran/boxly -* Date/Publication: 2023-10-24 02:40:02 UTC -* Number of recursive dependencies: 91 +* Version: 0.2.1 +* GitHub: NA +* Source code: https://github.com/cran/calendRio +* Date/Publication: 2024-12-21 10:10:02 UTC +* Number of recursive dependencies: 49 -Run `revdepcheck::cloud_details(, "boxly")` for more info +Run `revdepcheck::cloud_details(, "calendRio")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘calendRio’ can be installed ... WARNING ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - 16. ├─plotly::add_trace(...) - 17. │ └─plotly::add_data(p, data) - 18. │ └─plotly:::is.plotly(p) - 19. ├─plotly::ggplotly(p, tooltip = "text", dynamicTicks = TRUE) - 20. └─plotly:::ggplotly.ggplot(p, tooltip = "text", dynamicTicks = TRUE) - 21. └─plotly::gg2list(...) - - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 25 ] - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggimage::theme_transparent’ by ‘ggplot2::theme_transparent’ when loading ‘calendRio’ + See ‘/tmp/workdir/calendRio/new/calendRio.Rcheck/00install.out’ for details. ``` -# braidReports +# cartograflow
-* Version: 0.5.4 -* GitHub: NA -* Source code: https://github.com/cran/braidReports -* Date/Publication: 2021-01-05 18:20:09 UTC -* Number of recursive dependencies: 30 +* Version: 1.0.5 +* GitHub: https://github.com/fbahoken/cartogRaflow +* Source code: https://github.com/cran/cartograflow +* Date/Publication: 2023-10-17 22:40:21 UTC +* Number of recursive dependencies: 101 -Run `revdepcheck::cloud_details(, "braidReports")` for more info +Run `revdepcheck::cloud_details(, "cartograflow")` for more info
@@ -2801,40 +1675,40 @@ Run `revdepcheck::cloud_details(, "braidReports")` for more info * checking examples ... ERROR ``` - Running examples in ‘braidReports-Ex.R’ failed + Running examples in ‘cartograflow-Ex.R’ failed The error most likely occurred in: - > ### Name: makeBRAIDreport - > ### Title: Make a BRAID Report Page - > ### Aliases: makeBRAIDreport - > ### Keywords: hplot + > ### Name: flowgini + > ### Title: Analysis of flow concentration (Gini coefficient) + > ### Aliases: flowgini > > ### ** Examples > + > library(cartograflow) ... - 22. │ └─grid::convertUnit(short, "cm", valueOnly = TRUE) - 23. │ ├─grid:::upgradeUnit(x) - 24. │ └─grid:::upgradeUnit.default(x) - 25. │ └─base::stop("Not a unit object") - 26. └─base::.handleSimpleError(``, "Not a unit object", base::quote(upgradeUnit.default(x))) - 27. └─rlang (local) h(simpleError(msg, call)) - 28. └─handlers[[1L]](cnd) - 29. └─cli::cli_abort(...) - 30. └─rlang::abort(...) + ℹ Use `flowcum` instead. + Warning: Use of `x$linkcum` is discouraged. + ℹ Use `linkcum` instead. + Warning: Use of `x$flowcum` is discouraged. + ℹ Use `flowcum` instead. + Warning: Use of `x$flowcum` is discouraged. + ℹ Use `flowcum` instead. + Error in pm[[2]] : subscript out of bounds + Calls: flowgini ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -# BRcal +# cats
-* Version: 0.0.4 -* GitHub: https://github.com/apguthrie/BRcal -* Source code: https://github.com/cran/BRcal -* Date/Publication: 2024-06-25 11:30:08 UTC -* Number of recursive dependencies: 116 +* Version: 1.0.2 +* GitHub: NA +* Source code: https://github.com/cran/cats +* Date/Publication: 2022-03-11 10:20:07 UTC +* Number of recursive dependencies: 83 -Run `revdepcheck::cloud_details(, "BRcal")` for more info +Run `revdepcheck::cloud_details(, "cats")` for more info
@@ -2842,77 +1716,84 @@ Run `revdepcheck::cloud_details(, "BRcal")` for more info * checking examples ... ERROR ``` - Running examples in ‘BRcal-Ex.R’ failed + Running examples in ‘cats-Ex.R’ failed The error most likely occurred in: - > ### Name: lineplot - > ### Title: Lineplot for LLO-adjusted Probability Predictions - > ### Aliases: lineplot + > ### Name: trial_ocs + > ### Title: Calculates the operating characteristics of the cohort trial + > ### Aliases: trial_ocs > > ### ** Examples > > ... - > # Simulated 100 binary event outcomes using x - > y <- rbinom(100, 1, x) # By construction, x is well calibrated. - > - > # Lineplot show change in probabilities from original to MLE-recalibration to - > # specified Levels of Boldness-Recalibration via t_levels - > # Return a list with dataframe used to construct plot with return_df=TRUE - > lp1 <- lineplot(x, y, t_levels=c(0.98, 0.95), return_df=TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: lineplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + + safety_prob = safety_prob, Bayes_Sup1 = Bayes_Sup1, Bayes_Sup2 = Bayes_Sup2, + + cohort_offset = cohort_offset, sr_first_pos = sr_first_pos, + + missing_prob = missing_prob, cohort_fixed = cohort_fixed, accrual_type = accrual_type, + + accrual_param = accrual_param, hist_lag = hist_lag, analysis_times = analysis_times, + + time_trend = time_trend, cohorts_start = cohorts_start, cohorts_sim = cohorts_sim, + + iter = 2, coresnum = 1, save = FALSE, ret_list = TRUE, plot_ocs = TRUE + + ) + Error in pm[[2]] : subscript out of bounds + Calls: trial_ocs -> -> ggplotly.ggplot -> gg2list Execution halted ``` -* checking running R code from vignettes ... ERROR +## In both + +* checking dependencies in R code ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘hockey_vignette.Rmd’ - ... - [841] 0.4804441 0.7670617 0.4668403 0.4104682 0.6058493 0.4249086 0.6581869 - [848] 0.7194199 0.4534938 0.7421488 0.6726924 0.3255808 0.5005185 0.6483056 - [855] 0.7210362 0.6593455 0.4586214 0.7750603 0.5841900 0.4826292 0.4080026 - [862] 0.6701504 0.6561462 0.4814185 0.7421488 0.6786381 0.3255808 0.4814569 - - > lineplot(hockey$x, hockey$y) - - When sourcing ‘hockey_vignette.R’: - Error: argument is of length zero - Execution halted - - ‘hockey_vignette.Rmd’ using ‘UTF-8’... failed + Namespaces in Imports field not imported from: + ‘epitools’ ‘forcats’ ‘purrr’ + All declared Imports should be used. ``` -* checking re-building of vignette outputs ... NOTE +# cellularautomata + +
+ +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/cellularautomata +* Date/Publication: 2024-11-20 19:10:06 UTC +* Number of recursive dependencies: 72 + +Run `revdepcheck::cloud_details(, "cellularautomata")` for more info + +
+ +## Newly broken + +* checking running R code from vignettes ... ERROR ``` - Error(s) in re-building vignettes: + Errors in running code in vignettes: + when running code in ‘basic-usage.Rmd’ ... - --- re-building ‘hockey_vignette.Rmd’ using rmarkdown - Quitting from lines 180-181 [unnamed-chunk-11] (hockey_vignette.Rmd) - Error: processing vignette 'hockey_vignette.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘hockey_vignette.Rmd’ + > plot(ca(45)) - SUMMARY: processing the following file failed: - ‘hockey_vignette.Rmd’ + > plot(ca(195)) - Error: Vignette re-building failed. + > plot(ca(30, ncols = 20, steps = 30), animate = TRUE) + + When sourcing ‘basic-usage.R’: + Error: argument "theme" is missing, with no default Execution halted + + ‘basic-usage.Rmd’ using ‘UTF-8’... failed ``` -# breathtestcore +# cheem
-* Version: 0.8.7 -* GitHub: https://github.com/dmenne/breathtestcore -* Source code: https://github.com/cran/breathtestcore -* Date/Publication: 2024-01-24 15:02:47 UTC -* Number of recursive dependencies: 130 +* Version: 0.4.0.0 +* GitHub: https://github.com/nspyrison/cheem +* Source code: https://github.com/cran/cheem +* Date/Publication: 2023-11-08 21:30:02 UTC +* Number of recursive dependencies: 151 -Run `revdepcheck::cloud_details(, "breathtestcore")` for more info +Run `revdepcheck::cloud_details(, "cheem")` for more info
@@ -2920,40 +1801,61 @@ Run `revdepcheck::cloud_details(, "breathtestcore")` for more info * checking tests ... ERROR ``` - Running ‘test-all.R’ - Running the tests in ‘tests/test-all.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > - > options(Ncpus = parallelly::availableCores(omit = 1)) - > test_check("breathtestcore") - Loading required package: breathtestcore - Starting 1 test process - [ FAIL 3 | WARN 11 | SKIP 4 | PASS 356 ] - ... - `expected`: 10 - ── Failure ('test_plot_breathtestfit.R:81:3'): Plot multiple groups data only (no fit) ── - length(p) (`actual`) not equal to length(ggplot()) (`expected`). - - `actual`: 11 - `expected`: 10 + > library(cheem) + -------------------------------------------------------- + cheem --- version 0.4.0.0 + Please share bugs, suggestions, and feature requests at: + https://github.com/nspyrison/cheem/issues/ + -------------------------------------------------------- + ... + 13. │ ├─utils::modifyList(x %||% list(), y %||% list(), ...) + 14. │ │ └─base::stopifnot(is.list(x), is.list(val)) + 15. │ └─x %||% list() + 16. ├─plotly::ggplotly(...) + 17. └─plotly:::ggplotly.ggplot(...) + 18. └─plotly::gg2list(...) - [ FAIL 3 | WARN 11 | SKIP 4 | PASS 356 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ] Error: Test failures Execution halted ``` -# brolgar +## In both + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘getting-started-with-cheem.Rmd’ + ... + + > knitr::opts_chunk$set(echo = TRUE, include = TRUE, + + results = "show", eval = FALSE, message = FALSE, warning = FALSE, + + error = FALSE, co .... [TRUNCATED] + + > knitr::include_graphics("../inst/shiny_apps/cheem/www/lime_nonlinear.png") + + When sourcing ‘getting-started-with-cheem.R’: + Error: Cannot find the file(s): "../inst/shiny_apps/cheem/www/lime_nonlinear.png" + Execution halted + + ‘getting-started-with-cheem.Rmd’ using ‘UTF-8’... failed + ``` + +# CHOIRBM
-* Version: 1.0.1 -* GitHub: https://github.com/njtierney/brolgar -* Source code: https://github.com/cran/brolgar -* Date/Publication: 2024-05-10 14:50:34 UTC -* Number of recursive dependencies: 101 +* Version: 0.0.2 +* GitHub: https://github.com/emcramer/CHOIRBM +* Source code: https://github.com/cran/CHOIRBM +* Date/Publication: 2021-02-15 16:50:11 UTC +* Number of recursive dependencies: 64 -Run `revdepcheck::cloud_details(, "brolgar")` for more info +Run `revdepcheck::cloud_details(, "CHOIRBM")` for more info
@@ -2961,82 +1863,71 @@ Run `revdepcheck::cloud_details(, "brolgar")` for more info * checking examples ... ERROR ``` - Running examples in ‘brolgar-Ex.R’ failed + Running examples in ‘CHOIRBM-Ex.R’ failed The error most likely occurred in: - > ### Name: facet_sample - > ### Title: Facet data into groups to facilitate exploration - > ### Aliases: facet_sample + > ### Name: plot_female_choirbm + > ### Title: Plot the male CHOIR Body Map + > ### Aliases: plot_female_choirbm > > ### ** Examples > - > library(ggplot2) - > ggplot(heights, - + aes(x = year, - + y = height_cm, - + group = country)) + - + geom_line() + - + facet_sample() - Error in if (params$as.table) { : argument is of length zero - Calls: ... -> setup -> -> compute_layout + > cbm_df <- gen_example_data() + > plot_female_choirbm(cbm_df, "value") + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` -## In both - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘exploratory-modelling.Rmd’ + when running code in ‘plot-one-patient.Rmd’ ... - Warning in is.na(non_null_default_aes[[aes_param_name]]) : - is.na() applied to non-(list or vector) of type 'language' + 3 103 Front 1 + 4 104 Front 1 + 5 105 Front 0 + 6 106 Front 0 - When sourcing ‘exploratory-modelling.R’: - Error: ℹ In index: 1. - ℹ With name: geom_line. - Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ - ... - Error: argument is of length zero + > plot_male_choirbm(cbm_df, "value") + + When sourcing ‘plot-one-patient.R’: + Error: EXPR must be a length 1 vector Execution halted - ‘exploratory-modelling.Rmd’ using ‘UTF-8’... failed - ‘finding-features.Rmd’ using ‘UTF-8’... failed - ‘getting-started.Rmd’ using ‘UTF-8’... failed - ‘id-interesting-obs.Rmd’ using ‘UTF-8’... OK - ‘longitudinal-data-structures.Rmd’ using ‘UTF-8’... OK - ‘mixed-effects-models.Rmd’ using ‘UTF-8’... failed - ‘visualisation-gallery.Rmd’ using ‘UTF-8’... failed + ‘plot-one-patient.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘exploratory-modelling.Rmd’ using rmarkdown + ... + --- re-building ‘plot-one-patient.Rmd’ using rmarkdown - Quitting from lines 47-56 [use-gg-highlight] (exploratory-modelling.Rmd) - Error: processing vignette 'exploratory-modelling.Rmd' failed with diagnostics: - ℹ In index: 1. - ℹ With name: geom_line. - Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ - aes_param_name]])`: - ! 'length = 2' in coercion to 'logical(1)' - --- failed re-building ‘exploratory-modelling.Rmd’ + Quitting from lines 36-37 [plot1] (plot-one-patient.Rmd) + Error: processing vignette 'plot-one-patient.Rmd' failed with diagnostics: + EXPR must be a length 1 vector + --- failed re-building ‘plot-one-patient.Rmd’ - --- re-building ‘finding-features.Rmd’ using rmarkdown + SUMMARY: processing the following file failed: + ‘plot-one-patient.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -# calibrationband +# choroplethr
-* Version: 0.2.1 -* GitHub: https://github.com/marius-cp/calibrationband -* Source code: https://github.com/cran/calibrationband -* Date/Publication: 2022-08-09 14:40:02 UTC -* Number of recursive dependencies: 38 +* Version: 3.7.3 +* GitHub: NA +* Source code: https://github.com/cran/choroplethr +* Date/Publication: 2024-03-02 00:52:36 UTC +* Number of recursive dependencies: 126 -Run `revdepcheck::cloud_details(, "calibrationband")` for more info +Run `revdepcheck::cloud_details(, "choroplethr")` for more info
@@ -3044,40 +1935,47 @@ Run `revdepcheck::cloud_details(, "calibrationband")` for more info * checking examples ... ERROR ``` - Running examples in ‘calibrationband-Ex.R’ failed + Running examples in ‘choroplethr-Ex.R’ failed The error most likely occurred in: - > ### Name: plot.calibrationband - > ### Title: Plotting monotone confidence bands - > ### Aliases: plot.calibrationband autoplot.calibrationband - > ### autolayer.calibrationband + > ### Name: country_choropleth + > ### Title: Create a country-level choropleth + > ### Aliases: country_choropleth > > ### ** Examples > + > # demonstrate default options ... - > p <- function(x,s){p = 1/(1+((1/x*(1-x))^(s+1)));return(p)} - > dat <- data.frame(pr=x, y=rbinom(n,1,p(x,s))) + The following regions were missing and are being set to NA: namibia, western sahara, taiwan, antarctica, kosovo > - > cb <- calibration_bands(x=dat$pr, y=dat$y,alpha=0.05, method="round", digits =3) - > - > #simple plotting - > plot(cb) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > # demonstrate continuous scale + > country_choropleth(df_pop_country, "2012 World Bank Populate Estimates", num_colors=1) + Warning in self$bind() : + The following regions were missing and are being set to NA: namibia, western sahara, taiwan, antarctica, kosovo + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "#eff3ff", high = "#084594") + Calls: country_choropleth ... -> -> scale_fill_continuous Execution halted ``` -# cartograflow +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 10 marked UTF-8 strings + ``` + +# chronicle
-* Version: 1.0.5 -* GitHub: https://github.com/fbahoken/cartogRaflow -* Source code: https://github.com/cran/cartograflow -* Date/Publication: 2023-10-17 22:40:21 UTC -* Number of recursive dependencies: 102 +* Version: 0.3 +* GitHub: NA +* Source code: https://github.com/cran/chronicle +* Date/Publication: 2021-06-25 05:00:02 UTC +* Number of recursive dependencies: 145 -Run `revdepcheck::cloud_details(, "cartograflow")` for more info +Run `revdepcheck::cloud_details(, "chronicle")` for more info
@@ -3085,106 +1983,80 @@ Run `revdepcheck::cloud_details(, "cartograflow")` for more info * checking examples ... ERROR ``` - Running examples in ‘cartograflow-Ex.R’ failed + Running examples in ‘chronicle-Ex.R’ failed The error most likely occurred in: - > ### Name: flowgini - > ### Title: Analysis of flow concentration (Gini coefficient) - > ### Aliases: flowgini + > ### Name: make_barplot + > ### Title: Create a bar plot from a data frame through ggplotly + > ### Aliases: make_barplot > > ### ** Examples > - > library(cartograflow) - ... - ℹ Use `flowcum` instead. - Warning: Use of `x$linkcum` is discouraged. - ℹ Use `linkcum` instead. - Warning: Use of `x$flowcum` is discouraged. - ℹ Use `flowcum` instead. - Warning: Use of `x$flowcum` is discouraged. - ℹ Use `flowcum` instead. + > make_barplot(dt = iris, bars = 'Species', value = 'Sepal.Length') Error in pm[[2]] : subscript out of bounds - Calls: flowgini ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list + Calls: make_barplot -> -> ggplotly.ggplot -> gg2list Execution halted ``` -# cases - -
- -* Version: 0.1.1 -* GitHub: https://github.com/maxwestphal/cases -* Source code: https://github.com/cran/cases -* Date/Publication: 2023-05-18 08:30:02 UTC -* Number of recursive dependencies: 129 - -Run `revdepcheck::cloud_details(, "cases")` for more info - -
- -## Newly broken - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘example_wdbc.Rmd’ + when running code in ‘chronicle.Rmd’ ... - 13 TRUE FALSE - 14 FALSE FALSE - 15 FALSE FALSE - - - > visualize(results_bm) - - ... - + regu = TRU .... [TRUNCATED] + + filename = "quick_demo", title = "A quick chronicle demo", + + author = .... [TRUNCATED] - > visualize(results_comp) + Quitting from lines 34-46 [unnamed-chunk-3] (quick_demo.Rmd) - When sourcing ‘package_overview.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘chronicle.R’: + Error: ℹ In index: 1. + Caused by error in `pm[[2]]`: + ! subscript out of bounds Execution halted - ‘example_wdbc.Rmd’ using ‘UTF-8’... failed - ‘package_overview.Rmd’ using ‘UTF-8’... failed + ‘chronicle.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘example_wdbc.Rmd’ using rmarkdown - data_wdbc package:cases R Documentation - - _B_r_e_a_s_t _C_a_n_c_e_r _W_i_s_c_o_n_s_i_n (_D_i_a_g_n_o_s_t_i_c) _D_a_t_a _S_e_t - - _D_e_s_c_r_i_p_t_i_o_n: + ... + --- re-building ‘chronicle.Rmd’ using rmarkdown - Dataset documentation can be found at the source website and - references below. - ... - Quitting from lines 160-168 [viz_comp] (package_overview.Rmd) - Error: processing vignette 'package_overview.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘package_overview.Rmd’ + Quitting from lines 38-67 [unnamed-chunk-3] (chronicle.Rmd) + Error: processing vignette 'chronicle.Rmd' failed with diagnostics: + ℹ In index: 1. + Caused by error in `pm[[2]]`: + ! subscript out of bounds + --- failed re-building ‘chronicle.Rmd’ - SUMMARY: processing the following files failed: - ‘example_wdbc.Rmd’ ‘package_overview.Rmd’ + SUMMARY: processing the following file failed: + ‘chronicle.Rmd’ Error: Vignette re-building failed. Execution halted ``` -# cats +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’ + All declared Imports should be used. + ``` + +# clinDataReview
-* Version: 1.0.2 -* GitHub: NA -* Source code: https://github.com/cran/cats -* Date/Publication: 2022-03-11 10:20:07 UTC -* Number of recursive dependencies: 83 +* Version: 1.6.1 +* GitHub: https://github.com/openanalytics/clinDataReview +* Source code: https://github.com/cran/clinDataReview +* Date/Publication: 2024-06-18 09:10:05 UTC +* Number of recursive dependencies: 120 -Run `revdepcheck::cloud_details(, "cats")` for more info +Run `revdepcheck::cloud_details(, "clinDataReview")` for more info
@@ -3192,297 +2064,269 @@ Run `revdepcheck::cloud_details(, "cats")` for more info * checking examples ... ERROR ``` - Running examples in ‘cats-Ex.R’ failed + Running examples in ‘clinDataReview-Ex.R’ failed The error most likely occurred in: - > ### Name: trial_ocs - > ### Title: Calculates the operating characteristics of the cohort trial - > ### Aliases: trial_ocs + > ### Name: scatterplotClinData + > ### Title: Scatterplot of variables of interest for clinical data + > ### visualization. + > ### Aliases: scatterplotClinData > > ### ** Examples > - > ... - + safety_prob = safety_prob, Bayes_Sup1 = Bayes_Sup1, Bayes_Sup2 = Bayes_Sup2, - + cohort_offset = cohort_offset, sr_first_pos = sr_first_pos, - + missing_prob = missing_prob, cohort_fixed = cohort_fixed, accrual_type = accrual_type, - + accrual_param = accrual_param, hist_lag = hist_lag, analysis_times = analysis_times, - + time_trend = time_trend, cohorts_start = cohorts_start, cohorts_sim = cohorts_sim, - + iter = 2, coresnum = 1, save = FALSE, ret_list = TRUE, plot_ocs = TRUE + + data = dataPlot, + + xVar = "ADY", + + yVar = "LBSTRESN", + + aesPointVar = list(color = "TRTP", fill = "TRTP"), + + aesLineVar = list(group = "USUBJID", color = "TRTP"), + + labelVars = labelVars + ) Error in pm[[2]] : subscript out of bounds - Calls: trial_ocs -> -> ggplotly.ggplot -> gg2list + Calls: scatterplotClinData -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘epitools’ ‘forcats’ ‘purrr’ - All declared Imports should be used. - ``` - -# ceterisParibus - -
- -* Version: 0.4.2 -* GitHub: https://github.com/pbiecek/ceterisParibus -* Source code: https://github.com/cran/ceterisParibus -* Date/Publication: 2020-03-28 03:10:02 UTC -* Number of recursive dependencies: 80 - -Run `revdepcheck::cloud_details(, "ceterisParibus")` for more info - -
- -## Newly broken - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(ceterisParibus) - Loading required package: ggplot2 - Loading required package: gower + > library(clinDataReview) > - > test_check("ceterisParibus") - Welcome to DALEX (version: 2.4.3). + > test_check("clinDataReview") + adding: report.html (deflated 63%) + adding: report_dependencies199d5ce3be09/ (stored 0%) + adding: report_dependencies199d5ce3be09/file199d49e80eed.html (deflated 8%) ... - 5. └─ceterisParibus:::plot_interactive.what_if_explainer(wi_rf_all) - 6. └─ggplot2:::`+.gg`(...) - 7. └─ggplot2:::add_ggplot(e1, e2, e2name) - 8. ├─ggplot2::ggplot_add(object, p, objectname) - 9. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 10. └─ggplot2:::new_layer_names(object, names(plot$layers)) + Backtrace: + ▆ + 1. └─clinDataReview::scatterplotClinData(...) at test_scatterplotClinData.R:1001:3 + 2. ├─plotly::ggplotly(p = gg, width = width, height = height, tooltip = if (!is.null(hoverVars)) "text") + 3. └─plotly:::ggplotly.ggplot(...) + 4. └─plotly::gg2list(...) - [ FAIL 1 | WARN 3 | SKIP 0 | PASS 29 ] + [ FAIL 31 | WARN 0 | SKIP 31 | PASS 466 ] Error: Test failures Execution halted ``` -## In both - -* checking dependencies in R code ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - Namespace in Imports field not imported from: ‘knitr’ - All declared Imports should be used. + Error(s) in re-building vignettes: + ... + --- re-building ‘clinDataReview-dataPreprocessing.Rmd’ using rmarkdown + --- finished re-building ‘clinDataReview-dataPreprocessing.Rmd’ + + --- re-building ‘clinDataReview-dataVisualization.Rmd’ using rmarkdown + + Quitting from lines 167-208 [timeProfiles] (clinDataReview-dataVisualization.Rmd) + Error: processing vignette 'clinDataReview-dataVisualization.Rmd' failed with diagnostics: + subscript out of bounds + ... + --- failed re-building ‘clinDataReview-dataVisualization.Rmd’ + + --- re-building ‘clinDataReview-reporting.Rmd’ using rmarkdown + --- finished re-building ‘clinDataReview-reporting.Rmd’ + + SUMMARY: processing the following file failed: + ‘clinDataReview-dataVisualization.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -* checking LazyData ... NOTE +## In both + +* checking installed package size ... NOTE ``` - 'LazyData' is specified without a 'data' directory + installed size is 5.8Mb + sub-directories of 1Mb or more: + doc 4.3Mb ``` -# cfda +# clinUtils
-* Version: 0.11.0 -* GitHub: https://github.com/modal-inria/cfda -* Source code: https://github.com/cran/cfda -* Date/Publication: 2023-10-07 15:50:05 UTC -* Number of recursive dependencies: 98 +* Version: 0.2.0 +* GitHub: https://github.com/openanalytics/clinUtils +* Source code: https://github.com/cran/clinUtils +* Date/Publication: 2024-05-17 14:50:06 UTC +* Number of recursive dependencies: 110 -Run `revdepcheck::cloud_details(, "cfda")` for more info +Run `revdepcheck::cloud_details(, "clinUtils")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘cfda-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘clinUtils-vignette.Rmd’ + ... - > ### Name: compute_duration - > ### Title: Compute duration of individuals - > ### Aliases: compute_duration - > - > ### ** Examples - > - > # Simulate the Jukes-Cantor model of nucleotide replacement - ... - > d_JK <- generate_Markov(n = 10, K = K, P = PJK, lambda = lambda_PJK, Tmax = 10) - > - > - > # compute duration of each individual - > duration <- compute_duration(d_JK) - > - > hist(duration) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: hist ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + layout + + + > listPlotsInteractiveLB <- sapply(listPlotsLB, function(ggplot) ggplotly(ggplot) %>% + + partial_bundle(), simplify = FALSE) + + When sourcing ‘clinUtils-vignette.R’: + Error: subscript out of bounds Execution halted + + ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed ``` -* checking tests ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(cfda) - Loading required package: fda - Loading required package: splines - Loading required package: fds - Loading required package: rainbow - Loading required package: MASS - ... - 7. └─cfda:::hist.njump(njump) - 8. └─ggplot2:::`+.gg`(...) - 9. └─ggplot2:::add_ggplot(e1, e2, e2name) - 10. ├─ggplot2::ggplot_add(object, p, objectname) - 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 12. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 2 | WARN 1 | SKIP 12 | PASS 351 ] - Error: Test failures - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘clinUtils-vignette.Rmd’ using rmarkdown ``` -* checking running R code from vignettes ... ERROR +## Newly fixed + +* checking running R code from vignettes ... WARNING ``` Errors in running code in vignettes: - when running code in ‘cfda.Rmd’ + when running code in ‘clinUtils-vignette.Rmd’ ... - > head(nJump) - 1 2 3 4 5 6 - 17 9 3 13 10 13 - > hist(nJump) - When sourcing ‘cfda.R’: - Error: argument is of length zero + + + Quitting from lines 2-4 [lab-hist-interactive1] + + When sourcing ‘clinUtils-vignette.R’: + Error: there is no package called 'webshot' Execution halted - ‘cfda.Rmd’ using ‘UTF-8’... failed + ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘cfda.Rmd’ using rmarkdown + installed size is 7.7Mb + sub-directories of 1Mb or more: + doc 6.5Mb ``` -# cheem +# ClusROC
-* Version: 0.4.0.0 -* GitHub: https://github.com/nspyrison/cheem -* Source code: https://github.com/cran/cheem -* Date/Publication: 2023-11-08 21:30:02 UTC -* Number of recursive dependencies: 153 +* Version: 1.0.2 +* GitHub: https://github.com/toduckhanh/ClusROC +* Source code: https://github.com/cran/ClusROC +* Date/Publication: 2022-11-17 15:00:02 UTC +* Number of recursive dependencies: 113 -Run `revdepcheck::cloud_details(, "cheem")` for more info +Run `revdepcheck::cloud_details(, "ClusROC")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘ClusROC’ can be installed ... WARNING ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(cheem) - -------------------------------------------------------- - cheem --- version 0.4.0.0 - Please share bugs, suggestions, and feature requests at: - https://github.com/nspyrison/cheem/issues/ - -------------------------------------------------------- - ... - 13. │ ├─utils::modifyList(x %||% list(), y %||% list(), ...) - 14. │ │ └─base::stopifnot(is.list(x), is.list(val)) - 15. │ └─x %||% list() - 16. ├─plotly::ggplotly(...) - 17. └─plotly:::ggplotly.ggplot(...) - 18. └─plotly::gg2list(...) - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ] - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘ClusROC’ + See ‘/tmp/workdir/ClusROC/new/ClusROC.Rcheck/00install.out’ for details. ``` -## In both +# clustcurv -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘getting-started-with-cheem.Rmd’ +
+ +* Version: 2.0.2 +* GitHub: https://github.com/noramvillanueva/clustcurv +* Source code: https://github.com/cran/clustcurv +* Date/Publication: 2024-10-25 08:20:07 UTC +* Number of recursive dependencies: 109 + +Run `revdepcheck::cloud_details(, "clustcurv")` for more info + +
+ +## Newly broken + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘clustcurv.Rmd’ ... + 2 2 7.480014 0.29 - > knitr::opts_chunk$set(echo = TRUE, include = TRUE, - + results = "show", eval = FALSE, message = FALSE, warning = FALSE, - + error = FALSE, co .... [TRUNCATED] + Available components: + [1] "num_groups" "table" "levels" "cluster" "centers" "curves" "method" "data" "algorithm" "call" - > knitr::include_graphics("../inst/shiny_apps/cheem/www/lime_nonlinear.png") + > autoplot(res, groups_by_colour = FALSE, interactive = TRUE) - When sourcing ‘getting-started-with-cheem.R’: - Error: Cannot find the file(s): "../inst/shiny_apps/cheem/www/lime_nonlinear.png" + When sourcing ‘clustcurv.R’: + Error: subscript out of bounds Execution halted - ‘getting-started-with-cheem.Rmd’ using ‘UTF-8’... failed + ‘clustcurv.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + ... + --- re-building ‘clustcurv.Rmd’ using rmarkdown + + Quitting from lines 93-94 [unnamed-chunk-5] (clustcurv.Rmd) + Error: processing vignette 'clustcurv.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘clustcurv.Rmd’ + + SUMMARY: processing the following file failed: + ‘clustcurv.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -# chillR +# clustEff
-* Version: 0.75 +* Version: 0.3.1 * GitHub: NA -* Source code: https://github.com/cran/chillR -* Date/Publication: 2023-11-27 22:20:02 UTC -* Number of recursive dependencies: 138 +* Source code: https://github.com/cran/clustEff +* Date/Publication: 2024-01-23 08:52:55 UTC +* Number of recursive dependencies: 128 -Run `revdepcheck::cloud_details(, "chillR")` for more info +Run `revdepcheck::cloud_details(, "clustEff")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘clustEff’ can be installed ... WARNING ``` - Running examples in ‘chillR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_scenarios - > ### Title: Plot historic and future scenarios for climate-related metrics - > ### ('ggplot2' version) - > ### Aliases: plot_scenarios - > - > ### ** Examples - > - ... - > - > # Plot the climate scenarios - > - > plot_scenarios(climate_scenario_list, metric = 'Chill_Portions', - + add_historic = TRUE, size = 2, shape = 3, color = 'blue', - + outlier_shape = 12, historic_color = 'skyblue', - + group_by = c("Year", "Scenario")) - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘clustEff’ + See ‘/tmp/workdir/clustEff/new/clustEff.Rcheck/00install.out’ for details. ``` -# chronicle +# cnmap
-* Version: 0.3 -* GitHub: NA -* Source code: https://github.com/cran/chronicle -* Date/Publication: 2021-06-25 05:00:02 UTC -* Number of recursive dependencies: 146 +* Version: 0.1.0 +* GitHub: https://github.com/PanfengZhang/cnmap +* Source code: https://github.com/cran/cnmap +* Date/Publication: 2024-04-02 12:42:06 UTC +* Number of recursive dependencies: 61 -Run `revdepcheck::cloud_details(, "chronicle")` for more info +Run `revdepcheck::cloud_details(, "cnmap")` for more info
@@ -3490,80 +2334,120 @@ Run `revdepcheck::cloud_details(, "chronicle")` for more info * checking examples ... ERROR ``` - Running examples in ‘chronicle-Ex.R’ failed + Running examples in ‘cnmap-Ex.R’ failed The error most likely occurred in: - > ### Name: make_barplot - > ### Title: Create a bar plot from a data frame through ggplotly - > ### Aliases: make_barplot + > ### Name: getMap + > ### Title: China Map Data from AutoNavi Map + > ### Aliases: getMap > > ### ** Examples > - > make_barplot(dt = iris, bars = 'Species', value = 'Sepal.Length') - Error in pm[[2]] : subscript out of bounds - Calls: make_barplot -> -> ggplotly.ggplot -> gg2list + > library(cnmap) + > + > map1 <- getMap(code = "110000") # get the map data of Beijing City + Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, : + package tibble not available: install first? + Calls: getMap ... st_read -> st_read.character -> process_cpl_read_ogr Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘chronicle.Rmd’ + when running code in ‘Introduction.Rmd’ ... - + filename = "quick_demo", title = "A quick chronicle demo", - + author = .... [TRUNCATED] + > library(sf) + Linking to GEOS 3.12.1, GDAL 3.8.4, PROJ 9.4.0; sf_use_s2() is TRUE - Quitting from lines 34-46 [unnamed-chunk-3] (quick_demo.Rmd) + > library(cnmap) - When sourcing ‘chronicle.R’: - Error: ℹ In index: 1. - Caused by error in `pm[[2]]`: - ! subscript out of bounds + > map1 <- getMap(name = "中国") + + When sourcing ‘Introduction.R’: + Error: package tibble not available: install first? Execution halted - ‘chronicle.Rmd’ using ‘UTF-8’... failed + ‘Introduction.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘chronicle.Rmd’ using rmarkdown + --- re-building ‘Introduction.Rmd’ using rmarkdown - Quitting from lines 38-67 [unnamed-chunk-3] (chronicle.Rmd) - Error: processing vignette 'chronicle.Rmd' failed with diagnostics: - ℹ In index: 1. - Caused by error in `pm[[2]]`: - ! subscript out of bounds - --- failed re-building ‘chronicle.Rmd’ + Quitting from lines 29-35 [unnamed-chunk-3] (Introduction.Rmd) + Error: processing vignette 'Introduction.Rmd' failed with diagnostics: + package tibble not available: install first? + --- failed re-building ‘Introduction.Rmd’ SUMMARY: processing the following file failed: - ‘chronicle.Rmd’ + ‘Introduction.Rmd’ Error: Vignette re-building failed. Execution halted ``` -## In both +# coda4microbiome -* checking dependencies in R code ... NOTE +
+ +* Version: 0.2.4 +* GitHub: https://github.com/malucalle/coda4microbiome +* Source code: https://github.com/cran/coda4microbiome +* Date/Publication: 2024-07-17 15:50:02 UTC +* Number of recursive dependencies: 130 + +Run `revdepcheck::cloud_details(, "coda4microbiome")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR ``` - Namespaces in Imports field not imported from: - ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’ - All declared Imports should be used. + Running examples in ‘coda4microbiome-Ex.R’ failed + The error most likely occurred in: + + > ### Name: plot_survcurves + > ### Title: plot_survcurves + > ### Aliases: plot_survcurves + > + > ### ** Examples + > + > + ... + + time, + + status, + + strata.quantile = 0.5) + Warning: Ignoring unknown labels: + • `linetype = "1"` + Warning: Ignoring unknown labels: + • `linetype = "1"` + Error in theme + adjust : non-numeric argument to binary operator + Calls: ... -> assemble -> -> package_box -> %||% + Execution halted + ``` + +* checking whether package ‘coda4microbiome’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘coda4microbiome’ + See ‘/tmp/workdir/coda4microbiome/new/coda4microbiome.Rcheck/00install.out’ for details. ``` -# CINNA +# codaredistlm
-* Version: 1.2.2 -* GitHub: NA -* Source code: https://github.com/cran/CINNA -* Date/Publication: 2023-08-08 16:40:02 UTC -* Number of recursive dependencies: 140 +* Version: 0.1.0 +* GitHub: https://github.com/tystan/codaredistlm +* Source code: https://github.com/cran/codaredistlm +* Date/Publication: 2022-12-22 19:50:06 UTC +* Number of recursive dependencies: 66 -Run `revdepcheck::cloud_details(, "CINNA")` for more info +Run `revdepcheck::cloud_details(, "codaredistlm")` for more info
@@ -3571,89 +2455,152 @@ Run `revdepcheck::cloud_details(, "CINNA")` for more info * checking examples ... ERROR ``` - Running examples in ‘CINNA-Ex.R’ failed + Running examples in ‘codaredistlm-Ex.R’ failed The error most likely occurred in: - > ### Name: pca_centralities - > ### Title: PCA Centrality Measures - > ### Aliases: pca_centralities + > ### Name: plot_delta_comp + > ### Title: Plot redistributed time-use predictions from compositional ilr + > ### multiple linear regression model fit + > ### Aliases: plot_delta_comp > > ### ** Examples > - > # Create a data frame with multiple observations ... - 13. │ └─e1 %+% e2 - 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 15. │ ├─ggplot2::ggplot_add(object, p, objectname) - 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 18. └─base::.handleSimpleError(...) - 19. └─purrr (local) h(simpleError(msg, call)) - 20. └─cli::cli_abort(...) - 21. └─rlang::abort(...) - Execution halted + | | x| + |:----|------:| + |0% | 1439.9| + |25% | 1440.0| + |50% | 1440.0| + |75% | 1440.0| + |100% | 1440.1| + --- + + --- ``` -* checking running R code from vignettes ... ERROR +# codez + +
+ +* Version: 1.0.0 +* GitHub: NA +* Source code: https://github.com/cran/codez +* Date/Publication: 2022-09-23 15:10:02 UTC +* Number of recursive dependencies: 136 + +Run `revdepcheck::cloud_details(, "codez")` for more info + +
+ +## Newly broken + +* checking whether package ‘codez’ can be installed ... WARNING ``` - Errors in running code in vignettes: - when running code in ‘CINNA.Rmd’ - ... - > calc_cent <- calculate_centralities(zachary, include = pr_cent[1:10]) - - > pca_centralities(calc_cent) + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘codez’ + See ‘/tmp/workdir/codez/new/codez.Rcheck/00install.out’ for details. + ``` + +# cogmapr + +
+ +* Version: 0.9.3 +* GitHub: NA +* Source code: https://github.com/cran/cogmapr +* Date/Publication: 2022-01-04 15:40:07 UTC +* Number of recursive dependencies: 83 + +Run `revdepcheck::cloud_details(, "cogmapr")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘cogmapr-Ex.R’ failed + The error most likely occurred in: - When sourcing ‘CINNA.R’: - Error: ℹ In index: 1. - ℹ With name: contrib. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero + > ### Name: ggCMap + > ### Title: Plot a social cognitive map using ggplot2 + > ### Aliases: ggCMap + > + > ### ** Examples + > + > project_name <- "a_new_project" + > main_path <- paste0(system.file("testdata", package = "cogmapr"), '/') + > my.project <- ProjectCMap(main_path, project_name) + > + > df.scm <- data.ggCMap(my.project, edge.filter = "4") + > ggCMap(df.scm) + Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, : + argument 4 matches multiple formal arguments + Calls: ggCMap -> scale_colour_discrete Execution halted - - ‘CINNA.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +# CohortConstructor + +
+ +* Version: 0.3.4 +* GitHub: https://github.com/OHDSI/CohortConstructor +* Source code: https://github.com/cran/CohortConstructor +* Date/Publication: 2025-01-17 14:40:08 UTC +* Number of recursive dependencies: 160 + +Run `revdepcheck::cloud_details(, "CohortConstructor")` for more info + +
+ +## Newly broken + +* checking running R code from vignettes ... ERROR ``` - Error(s) in re-building vignettes: + Errors in running code in vignettes: + when running code in ‘a09_combine_cohorts.Rmd’ ... - --- re-building ‘CINNA.Rmd’ using rmarkdown - - Quitting from lines 231-234 [unnamed-chunk-11] (CINNA.Rmd) - Error: processing vignette 'CINNA.Rmd' failed with diagnostics: - ℹ In index: 1. - ℹ With name: contrib. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - --- failed re-building ‘CINNA.Rmd’ + downloaded 4.9 MB - SUMMARY: processing the following file failed: - ‘CINNA.Rmd’ + Warning in utils::download.file(url = url, destfile = file.path(pathToData, : + downloaded length 0 != reported length 0 + Warning in utils::download.file(url = url, destfile = file.path(pathToData, : + URL 'https://example-data.ohdsi.dev/GiBleed.zip': status was 'Stream error in the HTTP/2 framing layer' - Error: Vignette re-building failed. - Execution halted + ... + ‘a02_cohort_table_requirements.Rmd’ using ‘UTF-8’... OK + ‘a03_require_demographics.Rmd’ using ‘UTF-8’... OK + ‘a04_require_intersections.Rmd’ using ‘UTF-8’... OK + ‘a05_update_cohort_start_end.Rmd’ using ‘UTF-8’... OK + ‘a06_concatanate_cohorts.Rmd’ using ‘UTF-8’... OK + ‘a07_filter_cohorts.Rmd’ using ‘UTF-8’... OK + ‘a08_split_cohorts.Rmd’ using ‘UTF-8’... OK + ‘a09_combine_cohorts.Rmd’ using ‘UTF-8’... failed + ‘a10_match_cohorts.Rmd’ using ‘UTF-8’... OK + ‘a11_benchmark.Rmd’ using ‘UTF-8’... OK ``` ## In both -* checking dependencies in R code ... NOTE +* checking installed package size ... NOTE ``` - Namespaces in Imports field not imported from: - ‘circlize’ ‘utils’ - All declared Imports should be used. + installed size is 10.1Mb + sub-directories of 1Mb or more: + doc 9.4Mb ``` -# circhelp +# CohortPlat
-* Version: 1.1 -* GitHub: https://github.com/achetverikov/circhelp -* Source code: https://github.com/cran/circhelp -* Date/Publication: 2024-07-04 17:10:02 UTC -* Number of recursive dependencies: 106 +* Version: 1.0.5 +* GitHub: NA +* Source code: https://github.com/cran/CohortPlat +* Date/Publication: 2022-02-14 09:30:02 UTC +* Number of recursive dependencies: 82 -Run `revdepcheck::cloud_details(, "circhelp")` for more info +Run `revdepcheck::cloud_details(, "CohortPlat")` for more info
@@ -3661,103 +2608,137 @@ Run `revdepcheck::cloud_details(, "circhelp")` for more info * checking examples ... ERROR ``` - Running examples in ‘circhelp-Ex.R’ failed + Running examples in ‘CohortPlat-Ex.R’ failed The error most likely occurred in: - > ### Name: remove_cardinal_biases - > ### Title: Remove cardinal biases - > ### Aliases: remove_cardinal_biases + > ### Name: plot_trial + > ### Title: Plots the cohort trial study overview given stage data. + > ### Aliases: plot_trial > > ### ** Examples > > - > # Data in orientation domain from Pascucci et al. (2019, PLOS Bio), - > # https://doi.org/10.5281/zenodo.2544946 + ... + + stage_data = stage_data, cohort_random = cohort_random, cohorts_max = cohorts_max, + + sr_drugs_pos = sr_drugs_pos, target_rr = target_rr, sharing_type = sharing_type, + + safety_prob = safety_prob, Bayes_Sup = Bayes_Sup, prob_rr_transform = prob_rr_transform, + + cohort_offset = cohort_offset, Bayes_Fut = Bayes_Fut, sr_first_pos = sr_first_pos + + ) > - > ex_data <- Pascucci_et_al_2019_data[observer == 4, ] - > remove_cardinal_biases(ex_data$err, ex_data$orientation, plots = "show") - Error in as.unit(value) : object is not coercible to a unit - Calls: remove_cardinal_biases ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit + > plot_trial(res_list, unit = "n") + Error in pm[[2]] : subscript out of bounds + Calls: plot_trial -> -> ggplotly.ggplot -> gg2list Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘cardinal_biases.Rmd’ + when running code in ‘my-vignette.Rmd’ ... - + 90)) + .... [TRUNCATED] - > ex_subj_data <- data[observer == 4, ] + > set.seed(50) - > res <- remove_cardinal_biases(ex_subj_data$err, ex_subj_data$orientation, - + plots = "show") + > ocs1 <- trial_ocs(n_int = n_int, n_fin = n_fin, rr_comb = rr_comb, + + rr_mono = rr_mono, rr_back = rr_back, rr_plac = rr_plac, + + rr_transfo .... [TRUNCATED] - When sourcing ‘cardinal_biases.R’: - Error: object is not coercible to a unit + When sourcing ‘my-vignette.R’: + Error: subscript out of bounds Execution halted - ‘cardinal_biases.Rmd’ using ‘UTF-8’... failed + ‘my-vignette.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘cardinal_biases.Rmd’ using rmarkdown + ... + --- re-building ‘my-vignette.Rmd’ using rmarkdown + + Quitting from lines 1043-1073 [unnamed-chunk-20] (my-vignette.Rmd) + Error: processing vignette 'my-vignette.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘my-vignette.Rmd’ + + SUMMARY: processing the following file failed: + ‘my-vignette.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -# clifro +# colorrepel
-* Version: 3.2-5 -* GitHub: https://github.com/ropensci/clifro -* Source code: https://github.com/cran/clifro -* Date/Publication: 2021-05-24 05:50:02 UTC -* Number of recursive dependencies: 84 +* Version: 0.4.1 +* GitHub: https://github.com/raysinensis/color_repel +* Source code: https://github.com/cran/colorrepel +* Date/Publication: 2025-01-19 04:50:02 UTC +* Number of recursive dependencies: 89 -Run `revdepcheck::cloud_details(, "clifro")` for more info +Run `revdepcheck::cloud_details(, "colorrepel")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘spelling.R’ - Running ‘test-all.R’ - Running the tests in ‘tests/test-all.R’ failed. - Complete output: - > library(testthat) - > library(clifro) - > - > test_check("clifro") - [ FAIL 1 | WARN 1 | SKIP 4 | PASS 10 ] - - ... - • On CRAN (4): 'test-cf_find_station.R:4:3', 'test-cf_last_query.R:4:3', - 'test-cf_query.R:4:3', 'test-cf_station.R:4:3' - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-windrose.R:15:3'): windrose ────────────────────────────────── - tt$labels inherits from `'NULL'` not `'character'`. - - [ FAIL 1 | WARN 1 | SKIP 4 | PASS 10 ] - Error: Test failures - Execution halted + Running examples in ‘colorrepel-Ex.R’ failed + The error most likely occurred in: + + > ### Name: ggplotly_background + > ### Title: Prepare ggplot object to ggplotly-compatible layer and image + > ### layer + > ### Aliases: ggplotly_background + > + > ### ** Examples + > + > a <- ggplot2::ggplot(ggplot2::mpg, ggplot2::aes(displ, hwy)) + + + ggplot2::geom_point(ggplot2::aes(color = as.factor(cyl))) + > new_colors <- color_repel(a) + > b <- ggplotly_background(a, filename = NULL) + Error in pm[[2]] : subscript out of bounds + Calls: ggplotly_background -> -> ggplotly.ggplot -> gg2list + Execution halted ``` -# clinDataReview +# CompAREdesign
-* Version: 1.6.1 -* GitHub: https://github.com/openanalytics/clinDataReview -* Source code: https://github.com/cran/clinDataReview -* Date/Publication: 2024-06-18 09:10:05 UTC -* Number of recursive dependencies: 121 +* Version: 2.3.1 +* GitHub: NA +* Source code: https://github.com/cran/CompAREdesign +* Date/Publication: 2024-02-15 13:00:02 UTC +* Number of recursive dependencies: 79 -Run `revdepcheck::cloud_details(, "clinDataReview")` for more info +Run `revdepcheck::cloud_details(, "CompAREdesign")` for more info + +
+ +## Newly broken + +* checking whether package ‘CompAREdesign’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘CompAREdesign’ + See ‘/tmp/workdir/CompAREdesign/new/CompAREdesign.Rcheck/00install.out’ for details. + ``` + +# CoreMicrobiomeR + +
+ +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/CoreMicrobiomeR +* Date/Publication: 2024-04-03 20:03:02 UTC +* Number of recursive dependencies: 91 + +Run `revdepcheck::cloud_details(, "CoreMicrobiomeR")` for more info
@@ -3765,227 +2746,217 @@ Run `revdepcheck::cloud_details(, "clinDataReview")` for more info * checking examples ... ERROR ``` - Running examples in ‘clinDataReview-Ex.R’ failed + Running examples in ‘CoreMicrobiomeR-Ex.R’ failed The error most likely occurred in: - > ### Name: scatterplotClinData - > ### Title: Scatterplot of variables of interest for clinical data - > ### visualization. - > ### Aliases: scatterplotClinData + > ### Name: group_bar_plots + > ### Title: Grouped Bar Plots Based on Sample Size + > ### Aliases: group_bar_plots > > ### ** Examples > + > #To run input data ... - + data = dataPlot, - + xVar = "ADY", - + yVar = "LBSTRESN", - + aesPointVar = list(color = "TRTP", fill = "TRTP"), - + aesLineVar = list(group = "USUBJID", color = "TRTP"), - + labelVars = labelVars + + top_percentage = 10 # Adjust the percentage as needed for core/non-core OTUs + ) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: scatterplotClinData ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + Warning encountered during diversity analysis:you have empty rows: their dissimilarities may be + meaningless in method “bray” + > #To run grouped bar plot function + > plot_group_bar <- group_bar_plots(core_1$final_otu_table_bef_filter, + + core_1$final_otu_aft_filter, 10) + Error in pm[[2]] : subscript out of bounds + Calls: group_bar_plots -> -> ggplotly.ggplot -> gg2list Execution halted ``` +# correlationfunnel + +
+ +* Version: 0.2.0 +* GitHub: https://github.com/business-science/correlationfunnel +* Source code: https://github.com/cran/correlationfunnel +* Date/Publication: 2020-06-09 04:40:03 UTC +* Number of recursive dependencies: 115 + +Run `revdepcheck::cloud_details(, "correlationfunnel")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(clinDataReview) - > - > test_check("clinDataReview") - adding: report.html (deflated 63%) - adding: report_dependencies169f5c7b66d/ (stored 0%) - adding: report_dependencies169f5c7b66d/file169f105f2e2e.html (deflated 8%) - ... - 11. ├─base::withCallingHandlers(...) - 12. └─ggplot2:::`+.gg`(gg, do.call(layerFunction, argsGeom)) - 13. └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. ├─ggplot2::ggplot_add(object, p, objectname) - 15. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. └─ggplot2:::new_layer_names(object, names(plot$layers)) + > library(dplyr) + + Attaching package: 'dplyr' + + The following object is masked from 'package:testthat': - [ FAIL 35 | WARN 0 | SKIP 31 | PASS 453 ] + ... + ▆ + 1. ├─correlationfunnel::plot_correlation_funnel(...) at test-plot_correlation_funnel.R:23:1 + 2. └─correlationfunnel:::plot_correlation_funnel.data.frame(...) + 3. ├─plotly::ggplotly(g, tooltip = "text") + 4. └─plotly:::ggplotly.ggplot(g, tooltip = "text") + 5. └─plotly::gg2list(...) + + [ FAIL 1 | WARN 3 | SKIP 0 | PASS 17 ] Error: Test failures Execution halted ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘clinDataReview-dataPreprocessing.Rmd’ using rmarkdown - --- finished re-building ‘clinDataReview-dataPreprocessing.Rmd’ - - --- re-building ‘clinDataReview-dataVisualization.Rmd’ using rmarkdown - - Quitting from lines 167-208 [timeProfiles] (clinDataReview-dataVisualization.Rmd) - Error: processing vignette 'clinDataReview-dataVisualization.Rmd' failed with diagnostics: - argument is of length zero - ... - --- failed re-building ‘clinDataReview-dataVisualization.Rmd’ - - --- re-building ‘clinDataReview-reporting.Rmd’ using rmarkdown - --- finished re-building ‘clinDataReview-reporting.Rmd’ - - SUMMARY: processing the following file failed: - ‘clinDataReview-dataVisualization.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - ## In both -* checking installed package size ... NOTE +* checking dependencies in R code ... NOTE ``` - installed size is 5.8Mb - sub-directories of 1Mb or more: - doc 4.3Mb + Namespace in Imports field not imported from: ‘utils’ + All declared Imports should be used. ``` -# clinUtils +# corrViz
-* Version: 0.2.0 -* GitHub: https://github.com/openanalytics/clinUtils -* Source code: https://github.com/cran/clinUtils -* Date/Publication: 2024-05-17 14:50:06 UTC -* Number of recursive dependencies: 111 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/corrViz +* Date/Publication: 2023-06-30 11:40:07 UTC +* Number of recursive dependencies: 128 -Run `revdepcheck::cloud_details(, "clinUtils")` for more info +Run `revdepcheck::cloud_details(, "corrViz")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘corrViz-Ex.R’ failed + The error most likely occurred in: + + > ### Name: animSolar + > ### Title: animSolar + > ### Aliases: animSolar + > + > ### ** Examples + > + > cm <- cor(mtcars) + ... + All aesthetics have length 1, but the data has 250 rows. + ℹ Please consider using `annotate()` or provide this layer with data containing + a single row. + Warning in geom_text(data = solar_system, aes(x = 0, y = 0, label = sun), : + All aesthetics have length 1, but the data has 250 rows. + ℹ Please consider using `annotate()` or provide this layer with data containing + a single row. + Error in pm[[2]] : subscript out of bounds + Calls: animSolar -> ggplotly -> ggplotly.ggplot -> gg2list + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘clinUtils-vignette.Rmd’ + when running code in ‘corrViz.Rmd’ ... + > library(corrViz) - layout - + > cm <- cor(mtcars) - > listPlotsInteractiveLB <- sapply(listPlotsLB, function(ggplot) ggplotly(ggplot) %>% - + partial_bundle(), simplify = FALSE) + > corrHeatmap(mat = cm, display = "all", reorder = TRUE, + + pal = colorRampPalette(c("darkblue", "white", "darkred"))(100)) - When sourcing ‘clinUtils-vignette.R’: + When sourcing ‘corrViz.R’: Error: subscript out of bounds Execution halted - ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed + ‘corrViz.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘clinUtils-vignette.Rmd’ using rmarkdown - ``` - -## Newly fixed - -* checking running R code from vignettes ... WARNING - ``` - Errors in running code in vignettes: - when running code in ‘clinUtils-vignette.Rmd’ ... + --- re-building ‘corrViz.Rmd’ using rmarkdown + Quitting from lines 76-81 [heatmap] (corrViz.Rmd) + Error: processing vignette 'corrViz.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘corrViz.Rmd’ + SUMMARY: processing the following file failed: + ‘corrViz.Rmd’ - - - Quitting from lines 2-4 [lab-hist-interactive1] - - When sourcing ‘clinUtils-vignette.R’: - Error: there is no package called 'webshot' + Error: Vignette re-building failed. Execution halted - - ‘clinUtils-vignette.Rmd’ using ‘UTF-8’... failed ``` ## In both * checking installed package size ... NOTE ``` - installed size is 7.7Mb + installed size is 7.2Mb sub-directories of 1Mb or more: - doc 6.5Mb + doc 6.7Mb ``` -# cloneRate +# countfitteR
-* Version: 0.2.3 -* GitHub: https://github.com/bdj34/cloneRate -* Source code: https://github.com/cran/cloneRate -* Date/Publication: 2023-09-22 15:40:02 UTC -* Number of recursive dependencies: 121 +* Version: 1.4 +* GitHub: https://github.com/BioGenies/countfitteR +* Source code: https://github.com/cran/countfitteR +* Date/Publication: 2020-09-30 21:30:02 UTC +* Number of recursive dependencies: 90 -Run `revdepcheck::cloud_details(, "cloneRate")` for more info +Run `revdepcheck::cloud_details(, "countfitteR")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘cloneRate-dataAnalysis.Rmd’ - ... - - > fitColor <- colorPal[6] - - > ggplot(PD9478_long, aes(x = Age, y = VAF)) + theme_bw() + - + coord_cartesian(xlim = c(min(x), max(x)), ylim = c(-0.01, - + 0.52), expand .... [TRUNCATED] - - When sourcing ‘cloneRate-dataAnalysis.R’: - Error: `expand` must be a logical vector, not the number 0. - Execution halted - - ‘cloneRate-dataAnalysis.Rmd’ using ‘UTF-8’... failed - ‘cloneRate-simulate.Rmd’ using ‘UTF-8’... OK + Running ‘spelling.R’ + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(countfitteR) + > + > test_check("countfitteR") + [ FAIL 1 | WARN 6 | SKIP 0 | PASS 32 ] + + ... + Error in `p$labels[[1]]`: subscript out of bounds + Backtrace: + ▆ + 1. └─testthat::expect_equal(p$labels[[1]], "x") at testing.R:45:3 + 2. └─testthat::quasi_label(enquo(object), label, arg = "object") + 3. └─rlang::eval_bare(expr, quo_get_env(quo)) + + [ FAIL 1 | WARN 6 | SKIP 0 | PASS 32 ] + Error: Test failures + Execution halted ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘cloneRate-dataAnalysis.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 47.4Mb - sub-directories of 1Mb or more: - doc 1.0Mb - libs 45.2Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# clustEff +# coursekata
-* Version: 0.3.1 -* GitHub: NA -* Source code: https://github.com/cran/clustEff -* Date/Publication: 2024-01-23 08:52:55 UTC -* Number of recursive dependencies: 125 +* Version: 0.18.1 +* GitHub: https://github.com/coursekata/coursekata-r +* Source code: https://github.com/cran/coursekata +* Date/Publication: 2024-12-12 17:10:02 UTC +* Number of recursive dependencies: 118 -Run `revdepcheck::cloud_details(, "clustEff")` for more info +Run `revdepcheck::cloud_details(, "coursekata")` for more info
@@ -3993,201 +2964,207 @@ Run `revdepcheck::cloud_details(, "clustEff")` for more info * checking examples ... ERROR ``` - Running examples in ‘clustEff-Ex.R’ failed + Running examples in ‘coursekata-Ex.R’ failed The error most likely occurred in: - > ### Name: clustEff-package - > ### Title: Clusters of effects curves - > ### Aliases: clustEff-package - > ### Keywords: package + > ### Name: theme_coursekata + > ### Title: A simple theme built on top of 'ggplot2::theme_bw' + > ### Aliases: theme_coursekata > > ### ** Examples > - ... - 13. │ └─ggplot2:::`+.gg`(p, do.call(geom_line, option)) - 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 15. │ ├─ggplot2::ggplot_add(object, p, objectname) - 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 18. └─base::.handleSimpleError(...) - 19. └─purrr (local) h(simpleError(msg, call)) - 20. └─cli::cli_abort(...) - 21. └─rlang::abort(...) + > gf_boxplot(Thumb ~ RaceEthnic, data = Fingers, fill = ~RaceEthnic) + Error in unit(x, default.units) : 'x' and 'units' must have length > 0 + Calls: ... grobTree -> gTree -> setChildren -> gList -> linesGrob -> unit Execution halted ``` -# ClustImpute +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(coursekata) + Loading required package: dslabs + Loading required package: fivethirtyeight + Some larger datasets need to be installed separately, like senators and + house_district_forecast. To install these, we recommend you install the + fivethirtyeightdata package by running: + ... + • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-color.svg + • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-facet.svg + • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-color.svg + • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-facet.svg + • gf_model-visual/gf-violin-cond-mod-y-on-y.svg + • gf_model-visual/gf-violin-horizontal-mull-mod-y-on-x.svg + • gf_model-visual/gf-violin-mull-mod-y-on-x-2.svg + • gf_model-visual/gf-violin-null-mod-y-on-y.svg + Error: Test failures + Execution halted + ``` + +# covidcast
-* Version: 0.2.4 -* GitHub: NA -* Source code: https://github.com/cran/ClustImpute -* Date/Publication: 2021-05-31 07:40:11 UTC -* Number of recursive dependencies: 121 +* Version: 0.5.2 +* GitHub: https://github.com/cmu-delphi/covidcast +* Source code: https://github.com/cran/covidcast +* Date/Publication: 2023-07-12 23:40:06 UTC +* Number of recursive dependencies: 92 -Run `revdepcheck::cloud_details(, "ClustImpute")` for more info +Run `revdepcheck::cloud_details(, "covidcast")` for more info
## Newly broken +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(covidcast) + We encourage COVIDcast API users to register on our mailing list: + https://lists.andrew.cmu.edu/mailman/listinfo/delphi-covidcast-api + We'll send announcements about new data sources, package updates, + server maintenance, and new features. + > + ... + • plot/default-county-choropleth.svg + • plot/default-hrr-choropleth-with-include.svg + • plot/default-msa-choropleth-with-include.svg + • plot/default-state-choropleth-with-include.svg + • plot/default-state-choropleth-with-range.svg + • plot/state-choropleth-with-no-metadata.svg + • plot/state-line-graph-with-range.svg + • plot/state-line-graph-with-stderrs.svg + Error: Test failures + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Example_on_simulated_data.Rmd’ + when running code in ‘plotting-signals.Rmd’ ... - > dat4plot$true_clust_fct <- factor(true_clust) - - > p_base <- ggplot(dat4plot, aes(x = x, y = y, color = true_clust_fct)) + - + geom_point() - - > ggExtra::ggMarginal(p_base, groupColour = TRUE, groupFill = TRUE) + • horizontal = TRUE + ℹ Did you misspell an argument name? - When sourcing ‘Example_on_simulated_data.R’: - Error: argument is of length zero + When sourcing ‘plotting-signals.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 5th layer. + Caused by error in `check_aesthetics()`: + ! Aesthetics must be either length 1 or the same as the data (3078). + ✖ Fix the following mappings: `fill`. Execution halted - ‘Example_on_simulated_data.Rmd’ using ‘UTF-8’... failed - ‘description_of_algorithm.Rnw’ using ‘UTF-8’... OK + ‘correlation-utils.Rmd’ using ‘UTF-8’... OK + ‘covidcast.Rmd’ using ‘UTF-8’... OK + ‘external-data.Rmd’ using ‘UTF-8’... OK + ‘multi-signals.Rmd’ using ‘UTF-8’... OK + ‘plotting-signals.Rmd’ using ‘UTF-8’... failed ``` -## In both - * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘Example_on_simulated_data.Rmd’ using rmarkdown - - Quitting from lines 49-53 [unnamed-chunk-3] (Example_on_simulated_data.Rmd) - Error: processing vignette 'Example_on_simulated_data.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Example_on_simulated_data.Rmd’ - - --- re-building ‘description_of_algorithm.Rnw’ using Sweave - Error: processing vignette 'description_of_algorithm.Rnw' failed with diagnostics: - ... - l.6 \usepackage - {Sweave}^^M - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘description_of_algorithm.Rnw’ - - SUMMARY: processing the following files failed: - ‘Example_on_simulated_data.Rmd’ ‘description_of_algorithm.Rnw’ + --- re-building ‘correlation-utils.Rmd’ using rmarkdown + --- finished re-building ‘correlation-utils.Rmd’ - Error: Vignette re-building failed. - Execution halted + --- re-building ‘covidcast.Rmd’ using rmarkdown ``` -# cmstatr +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 20 marked UTF-8 strings + ``` + +# Coxmos
-* Version: 0.9.3 -* GitHub: https://github.com/cmstatr/cmstatr -* Source code: https://github.com/cran/cmstatr -* Date/Publication: 2024-03-14 14:30:02 UTC -* Number of recursive dependencies: 87 +* Version: 1.1.0 +* GitHub: https://github.com/BiostatOmics/Coxmos +* Source code: https://github.com/cran/Coxmos +* Date/Publication: 2025-01-18 11:30:02 UTC +* Number of recursive dependencies: 200 -Run `revdepcheck::cloud_details(, "cmstatr")` for more info +Run `revdepcheck::cloud_details(, "Coxmos")` for more info
## Newly broken -* checking examples ... ERROR +* checking Rd files ... WARNING ``` - Running examples in ‘cmstatr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: nested_data_plot - > ### Title: Create a plot of nested sources of variation - > ### Aliases: nested_data_plot - > - > ### ** Examples - > - > library(dplyr) - ... - - intersect, setdiff, setequal, union - - > carbon.fabric.2 %>% - + filter(test == "WT" & condition == "RTD") %>% - + nested_data_plot(strength, - + groups = c(batch, panel)) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + prepare_Rd: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘survminer’ ``` -* checking tests ... ERROR +## In both + +* checking installed package size ... NOTE ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(cmstatr) - > - > test_check("cmstatr") - Starting 2 test processes - [ FAIL 6 | WARN 0 | SKIP 6 | PASS 1396 ] - ... - 6. └─cmstatr:::draw_vert_lines_to_labels(g, elm_list, vline_args) - 7. └─ggplot2:::`+.gg`(...) - 8. └─ggplot2:::add_ggplot(e1, e2, e2name) - 9. ├─ggplot2::ggplot_add(object, p, objectname) - 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 11. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 6 | WARN 0 | SKIP 6 | PASS 1396 ] - Error: Test failures - Execution halted + installed size is 7.4Mb + sub-directories of 1Mb or more: + R 1.5Mb + data 2.5Mb + doc 2.8Mb ``` +# cpsvote + +
+ +* Version: 0.1.0 +* GitHub: https://github.com/Reed-EVIC/cpsvote +* Source code: https://github.com/cran/cpsvote +* Date/Publication: 2020-11-05 16:00:02 UTC +* Number of recursive dependencies: 90 + +Run `revdepcheck::cloud_details(, "cpsvote")` for more info + +
+ +## Newly broken + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘cmstatr_Graphing.Rmd’ + when running code in ‘voting.Rmd’ ... - + by = "condition") %>% inner_join(a_basis_pooled_results, - + by = "condition") .... [TRUNCATED] + + .... [TRUNCATED] - > carbon.fabric.2 %>% mutate(panel = as.character(panel)) %>% - + filter(test == "WT") %>% nested_data_plot(strength, groups = c(batch, - + pane .... [TRUNCATED] + > library(usmap) - When sourcing ‘cmstatr_Graphing.R’: - Error: argument is of length zero - Execution halted + > cps16 %>% as_survey_design(weights = turnout_weight) %>% + + mutate(state = STATE) %>% group_by(state) %>% summarize(turnout = survey_mean(hurach .... [TRUNCATED] - ‘adktest.Rmd’ using ‘UTF-8’... OK - ‘cmstatr_Graphing.Rmd’ using ‘UTF-8’... failed - ‘cmstatr_Tutorial.Rmd’ using ‘UTF-8’... OK - ‘cmstatr_Validation.Rmd’ using ‘UTF-8’... OK - ‘hk_ext.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘adktest.Rmd’ using rmarkdown - --- finished re-building ‘adktest.Rmd’ + When sourcing ‘voting.R’: + Error: unused arguments (low = "white", high = "blue") + Execution halted - --- re-building ‘cmstatr_Graphing.Rmd’ using rmarkdown + ‘add-variables.Rmd’ using ‘UTF-8’... OK + ‘background.Rmd’ using ‘UTF-8’... OK + ‘basics.Rmd’ using ‘UTF-8’... OK + ‘voting.Rmd’ using ‘UTF-8’... failed ``` -# codaredistlm +# CRABS
-* Version: 0.1.0 -* GitHub: https://github.com/tystan/codaredistlm -* Source code: https://github.com/cran/codaredistlm -* Date/Publication: 2022-12-22 19:50:06 UTC -* Number of recursive dependencies: 67 +* Version: 1.2.0 +* GitHub: https://github.com/afmagee/CRABS +* Source code: https://github.com/cran/CRABS +* Date/Publication: 2023-10-24 10:20:07 UTC +* Number of recursive dependencies: 63 -Run `revdepcheck::cloud_details(, "codaredistlm")` for more info +Run `revdepcheck::cloud_details(, "CRABS")` for more info
@@ -4195,40 +3172,40 @@ Run `revdepcheck::cloud_details(, "codaredistlm")` for more info * checking examples ... ERROR ``` - Running examples in ‘codaredistlm-Ex.R’ failed + Running examples in ‘CRABS-Ex.R’ failed The error most likely occurred in: - > ### Name: plot_delta_comp - > ### Title: Plot redistributed time-use predictions from compositional ilr - > ### multiple linear regression model fit - > ### Aliases: plot_delta_comp + > ### Name: congruent.models + > ### Title: Create a set of congruent models + > ### Aliases: congruent.models > > ### ** Examples > + > ... - | | x| - |:----|------:| - |0% | 1439.9| - |25% | 1440.0| - |50% | 1440.0| - |75% | 1440.0| - |100% | 1440.1| - --- - - --- + > + > model_set1 + A congruent set of piecewise-linear birth-death models + Knots: 500 + Delta-tau: 0.1304443 + n_models: 4 + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% + Execution halted ``` -# coefplot +# crosshap
-* Version: 1.2.8 -* GitHub: NA -* Source code: https://github.com/cran/coefplot -* Date/Publication: 2022-01-14 09:42:47 UTC -* Number of recursive dependencies: 110 +* Version: 1.4.0 +* GitHub: https://github.com/jacobimarsh/crosshap +* Source code: https://github.com/cran/crosshap +* Date/Publication: 2024-03-31 15:40:02 UTC +* Number of recursive dependencies: 116 -Run `revdepcheck::cloud_details(, "coefplot")` for more info +Run `revdepcheck::cloud_details(, "crosshap")` for more info
@@ -4236,118 +3213,177 @@ Run `revdepcheck::cloud_details(, "coefplot")` for more info * checking examples ... ERROR ``` - Running examples in ‘coefplot-Ex.R’ failed + Running examples in ‘crosshap-Ex.R’ failed The error most likely occurred in: - > ### Name: buildModelCI - > ### Title: buildModelCI - > ### Aliases: buildModelCI + > ### Name: build_bot_halfeyeplot + > ### Title: Bot hap-pheno raincloud plot + > ### Aliases: build_bot_halfeyeplot > > ### ** Examples > > ... - cut.C 327.4816 model1 - cut.Q -574.8626 model1 - cut.L 1187.6004 model1 - carat 7843.1229 model1 - (Intercept) -2732.2382 model1 - > coefplot(model1) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) + 13. │ └─l$compute_geom_2(d, theme = plot$theme) + 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 15. │ └─self$geom$use_defaults(...) + 16. └─base::.handleSimpleError(...) + 17. └─rlang (local) h(simpleError(msg, call)) + 18. └─handlers[[1L]](cnd) + 19. └─cli::cli_abort(...) + 20. └─rlang::abort(...) Execution halted ``` -# CohortPlat +# csa
-* Version: 1.0.5 -* GitHub: NA -* Source code: https://github.com/cran/CohortPlat -* Date/Publication: 2022-02-14 09:30:02 UTC -* Number of recursive dependencies: 82 +* Version: 0.7.1 +* GitHub: https://github.com/imarkonis/csa +* Source code: https://github.com/cran/csa +* Date/Publication: 2023-10-24 13:40:11 UTC +* Number of recursive dependencies: 101 -Run `revdepcheck::cloud_details(, "CohortPlat")` for more info +Run `revdepcheck::cloud_details(, "csa")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘csa’ can be installed ... WARNING ``` - Running examples in ‘CohortPlat-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_trial - > ### Title: Plots the cohort trial study overview given stage data. - > ### Aliases: plot_trial - > - > ### ** Examples - > - > + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘csa’ + See ‘/tmp/workdir/csa/new/csa.Rcheck/00install.out’ for details. + ``` + +# ctrialsgov + +
+ +* Version: 0.2.5 +* GitHub: NA +* Source code: https://github.com/cran/ctrialsgov +* Date/Publication: 2021-10-18 16:00:02 UTC +* Number of recursive dependencies: 99 + +Run `revdepcheck::cloud_details(, "ctrialsgov")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(ctrialsgov) + > + > test_check("ctrialsgov") + [NCT04553939] ible Local Advanved |Bladder| Cancer + [NCT03517995] of Sulforaphane in |Bladder| Cancer Chemoprevent + [NCT04210479] Comparison of |Bladder| Filling vs. Non-Fil ... - + stage_data = stage_data, cohort_random = cohort_random, cohorts_max = cohorts_max, - + sr_drugs_pos = sr_drugs_pos, target_rr = target_rr, sharing_type = sharing_type, - + safety_prob = safety_prob, Bayes_Sup = Bayes_Sup, prob_rr_transform = prob_rr_transform, - + cohort_offset = cohort_offset, Bayes_Fut = Bayes_Fut, sr_first_pos = sr_first_pos - + ) - > - > plot_trial(res_list, unit = "n") - Error in pm[[2]] : subscript out of bounds - Calls: plot_trial -> -> ggplotly.ggplot -> gg2list - Execution halted + ▆ + 1. ├─ctrialsgov::ctgov_to_plotly(p) at test-plot.R:12:3 + 2. └─ctrialsgov:::ctgov_to_plotly.ctgov_bar_plot(p) + 3. ├─plotly::ggplotly(p, tooltip = "text") + 4. └─plotly:::ggplotly.ggplot(p, tooltip = "text") + 5. └─plotly::gg2list(...) + + [ FAIL 1 | WARN 6 | SKIP 0 | PASS 43 ] + Error: Test failures + Execution halted + ``` + +## In both + +* checking data for non-ASCII characters ... NOTE ``` + Note: found 1350 marked UTF-8 strings + ``` + +# cubble + +
+ +* Version: 1.0.0 +* GitHub: https://github.com/huizezhang-sherry/cubble +* Source code: https://github.com/cran/cubble +* Date/Publication: 2024-08-27 15:20:02 UTC +* Number of recursive dependencies: 132 + +Run `revdepcheck::cloud_details(, "cubble")` for more info + +
+ +## Newly broken * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘my-vignette.Rmd’ + when running code in ‘cb6interactive.Rmd’ ... + + ymax .... [TRUNCATED] + Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. + ℹ Please use `linewidth` instead. - > set.seed(50) - - > ocs1 <- trial_ocs(n_int = n_int, n_fin = n_fin, rr_comb = rr_comb, - + rr_mono = rr_mono, rr_back = rr_back, rr_plac = rr_plac, - + rr_transfo .... [TRUNCATED] + > ts_interactive <- highlight(ggplotly(ts_static, width = 600, + + height = 300), on = "plotly_selected", opacityDim = 0.012) - When sourcing ‘my-vignette.R’: + ... Error: subscript out of bounds Execution halted - ‘my-vignette.Rmd’ using ‘UTF-8’... failed + ‘cb1class.Rmd’ using ‘UTF-8’... OK + ‘cb2create.Rmd’ using ‘UTF-8’... OK + ‘cb3tsibblesf.Rmd’ using ‘UTF-8’... OK + ‘cb4glyph.Rmd’ using ‘UTF-8’... OK + ‘cb5match.Rmd’ using ‘UTF-8’... OK + ‘cb6interactive.Rmd’ using ‘UTF-8’... failed + ‘cb7misc.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘my-vignette.Rmd’ using rmarkdown + --- re-building ‘cb1class.Rmd’ using rmarkdown + --- finished re-building ‘cb1class.Rmd’ - Quitting from lines 1043-1073 [unnamed-chunk-20] (my-vignette.Rmd) - Error: processing vignette 'my-vignette.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘my-vignette.Rmd’ + --- re-building ‘cb2create.Rmd’ using rmarkdown + --- finished re-building ‘cb2create.Rmd’ - SUMMARY: processing the following file failed: - ‘my-vignette.Rmd’ + --- re-building ‘cb3tsibblesf.Rmd’ using rmarkdown + --- finished re-building ‘cb3tsibblesf.Rmd’ - Error: Vignette re-building failed. - Execution halted + --- re-building ‘cb4glyph.Rmd’ using rmarkdown ``` -# complmrob +## In both + +* checking installed package size ... NOTE + ``` + installed size is 5.6Mb + sub-directories of 1Mb or more: + data 3.0Mb + doc 1.4Mb + ``` + +# cylcop
-* Version: 0.7.0 -* GitHub: https://github.com/dakep/complmrob -* Source code: https://github.com/cran/complmrob -* Date/Publication: 2019-09-17 18:10:02 UTC -* Number of recursive dependencies: 31 +* Version: 0.2.0 +* GitHub: https://github.com/r-lib/devtools +* Source code: https://github.com/cran/cylcop +* Date/Publication: 2022-10-29 22:00:21 UTC +* Number of recursive dependencies: 97 -Run `revdepcheck::cloud_details(, "complmrob")` for more info +Run `revdepcheck::cloud_details(, "cylcop")` for more info
@@ -4355,35 +3391,81 @@ Run `revdepcheck::cloud_details(, "complmrob")` for more info * checking examples ... ERROR ``` - Running examples in ‘complmrob-Ex.R’ failed + Running examples in ‘cylcop-Ex.R’ failed The error most likely occurred in: - > ### Name: plot.complmrob - > ### Title: Diagnostic plots for the robust regression model with - > ### compositional covariates - > ### Aliases: plot.complmrob + > ### Name: plot_circ_hist + > ### Title: Circular Histogram of Turn Angles + > ### Aliases: plot_circ_hist > > ### ** Examples > - > data <- data.frame(lifeExp = state.x77[, "Life Exp"], USArrests[ , -3]) - > mUSArr <- complmrob(lifeExp ~ ., data = data) - > plot(mUSArr) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > set.seed(123) + ... + 22. │ └─l$compute_geom_2(d, theme = plot$theme) + 23. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 24. │ └─self$geom$use_defaults(...) + 25. │ └─ggplot2 (local) use_defaults(..., self = self) + 26. │ └─ggplot2:::check_aesthetics(new_params, nrow(data)) + 27. │ └─vctrs::list_sizes(x) + 28. └─vctrs:::stop_scalar_type(``(``), "x$label", ``) + 29. └─vctrs:::stop_vctrs(...) + 30. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ``` -# conjoint +# D2MCS
-* Version: 1.41 -* GitHub: NA -* Source code: https://github.com/cran/conjoint -* Date/Publication: 2018-07-26 13:00:03 UTC -* Number of recursive dependencies: 53 +* Version: 1.0.1 +* GitHub: https://github.com/drordas/D2MCS +* Source code: https://github.com/cran/D2MCS +* Date/Publication: 2022-08-23 11:40:02 UTC +* Number of recursive dependencies: 179 + +Run `revdepcheck::cloud_details(, "D2MCS")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR + ``` + Running ‘test_all.R’ + Running the tests in ‘tests/test_all.R’ failed. + Complete output: + > testthat::test_check("D2MCS") + Loading required package: D2MCS + [ FAIL 6 | WARN 5 | SKIP 15 | PASS 702 ] + + ══ Skipped tests (15) ══════════════════════════════════════════════════════════ + • On CRAN (2): 'test_D2MCS.R:129:3', 'test_D2MCS.R:213:3' + • {ranger} is not installed (13): 'test_D2MCS.R:411:3', + ... + 2. │ └─testthat::quasi_label(enquo(expected), expected.label, arg = "expected") + 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) + 4. └─strategyNoReal$plot() + 5. └─BinaryPlot$new()$plot(binary.summary) + 6. └─super$plot(summary) + 7. └─ggplot2::scale_color_continuous(...) + + [ FAIL 6 | WARN 5 | SKIP 15 | PASS 702 ] + Error: Test failures + Execution halted + ``` + +# dafishr + +
+ +* Version: 1.0.1 +* GitHub: https://github.com/CBMC-GCMP/dafishr +* Source code: https://github.com/cran/dafishr +* Date/Publication: 2024-07-22 22:10:09 UTC +* Number of recursive dependencies: 113 -Run `revdepcheck::cloud_details(, "conjoint")` for more info +Run `revdepcheck::cloud_details(, "dafishr")` for more info
@@ -4391,90 +3473,120 @@ Run `revdepcheck::cloud_details(, "conjoint")` for more info * checking examples ... ERROR ``` - Running examples in ‘conjoint-Ex.R’ failed + Running examples in ‘dafishr-Ex.R’ failed The error most likely occurred in: - > ### Name: caSegmentation - > ### Title: Function caSegmentation divides respondents on clusters - > ### Aliases: caSegmentation - > ### Keywords: multivariate + > ### Name: join_mpa_data + > ### Title: Detect fishing vessel presence within Marine Protected Areas + > ### polygons in Mexico + > ### Aliases: join_mpa_data > > ### ** Examples > ... - Available components: - - [1] "cluster" "centers" "totss" "withinss" "tot.withinss" - [6] "betweenss" "size" "iter" "ifault" - > util<-as.data.frame(segments$util) - > set.seed(123) - > ggplot2::autoplot(kmeans(util,3),data=util,label=TRUE,label.size=4,frame=TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + + theme(legend.position = "") + Warning in fortify(data, ...) : + Arguments in `...` must be used. + ✖ Problematic argument: + • col = "gray90" + ℹ Did you misspell an argument name? + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` -# conquestr +## In both + +* checking installed package size ... NOTE + ``` + installed size is 8.2Mb + sub-directories of 1Mb or more: + data 8.0Mb + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 2020 marked UTF-8 strings + ``` + +# daiquiri
-* Version: 1.3.4 -* GitHub: NA -* Source code: https://github.com/cran/conquestr -* Date/Publication: 2024-07-24 06:00:01 UTC -* Number of recursive dependencies: 80 +* Version: 1.1.1 +* GitHub: https://github.com/ropensci/daiquiri +* Source code: https://github.com/cran/daiquiri +* Date/Publication: 2023-07-18 16:50:09 UTC +* Number of recursive dependencies: 107 -Run `revdepcheck::cloud_details(, "conquestr")` for more info +Run `revdepcheck::cloud_details(, "daiquiri")` for more info
## Newly broken +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(daiquiri) + > + > test_check("daiquiri") + + Quitting from lines 467-528 [daiquiri-individual-fields] (report_htmldoc.Rmd) + + ... + 36. └─rlang::abort(message, ..., call = call, arg = arg) + + [ FAIL 4 | WARN 0 | SKIP 8 | PASS 472 ] + Deleting unused snapshots: + • aggregate_data/test_[ALL_FIELDS_COMBINED].csv + • aggregate_data/test_[DUPLICATES].csv + • aggregate_data/test_col1.csv + • aggregate_data/test_col2.csv + Error: Test failures + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘plotting.Rmd’ + when running code in ‘daiquiri.Rmd’ ... - > myRout <- ConQuestRout() - no rout file provided, loading the example rout file instead - > myPlot <- plotRout(myRout) + > daiq_obj <- daiquiri_report(df = example_prescriptions, + + field_types = fts, override_column_names = FALSE, na = c("", + + "NULL"), data .... [TRUNCATED] - > myPlot + Quitting from lines 467-528 [daiquiri-individual-fields] (report_htmldoc.Rmd) - ... - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘daiquiri.R’: + Error: `limits` must be a vector, not a object. Execution halted - ‘data-cleaning-functions-in-conquestr.Rmd’ using ‘UTF-8’... OK - ‘generateResponses.Rmd’ using ‘UTF-8’... OK - ‘intro-to-conquestr.Rmd’ using ‘UTF-8’... OK - ‘itanal-in-conquestr.Rmd’ using ‘UTF-8’... OK - ‘plotting.Rmd’ using ‘UTF-8’... failed - ‘responseProbs.Rmd’ using ‘UTF-8’... OK - ‘test_item_review_sheet_markdown.Rmd’ using ‘UTF-8’... failed + ‘daiquiri.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘data-cleaning-functions-in-conquestr.Rmd’ using rmarkdown - --- finished re-building ‘data-cleaning-functions-in-conquestr.Rmd’ - - --- re-building ‘generateResponses.Rmd’ using rmarkdown + --- re-building ‘daiquiri.Rmd’ using rmarkdown ``` -# CoreMicrobiomeR +# DAISIE
-* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/CoreMicrobiomeR -* Date/Publication: 2024-04-03 20:03:02 UTC -* Number of recursive dependencies: 91 +* Version: 4.4.1 +* GitHub: https://github.com/rsetienne/DAISIE +* Source code: https://github.com/cran/DAISIE +* Date/Publication: 2023-10-21 23:10:10 UTC +* Number of recursive dependencies: 118 -Run `revdepcheck::cloud_details(, "CoreMicrobiomeR")` for more info +Run `revdepcheck::cloud_details(, "DAISIE")` for more info
@@ -4482,40 +3594,54 @@ Run `revdepcheck::cloud_details(, "CoreMicrobiomeR")` for more info * checking examples ... ERROR ``` - Running examples in ‘CoreMicrobiomeR-Ex.R’ failed + Running examples in ‘DAISIE-Ex.R’ failed The error most likely occurred in: - > ### Name: group_bar_plots - > ### Title: Grouped Bar Plots Based on Sample Size - > ### Aliases: group_bar_plots + > ### Name: DAISIE_plot_input + > ### Title: DAISIE tree plot + > ### Aliases: DAISIE_plot_input > > ### ** Examples > - > #To run input data + > ... - + top_percentage = 10 # Adjust the percentage as needed for core/non-core OTUs - + ) - Warning encountered during diversity analysis:you have empty rows: their dissimilarities may be - meaningless in method “bray” - > #To run grouped bar plot function - > plot_group_bar <- group_bar_plots(core_1$final_otu_table_bef_filter, - + core_1$final_otu_aft_filter, 10) - Error in pm[[2]] : subscript out of bounds - Calls: group_bar_plots -> -> ggplotly.ggplot -> gg2list + ℹ Did you misspell an argument name? + Scale for y is already present. + Adding another scale for y, which will replace the existing scale. + Joining with `by = join_by(label)` + Warning: Removed 1 row containing missing values or values outside the scale range + (`geom_point()`). + Error in grid.Call.graphics(C_rect, x$x, x$y, x$width, x$height, resolveHJust(x$just, : + invalid hex digit in 'color' or 'lty' + Calls: ... drawDetails -> drawDetails.rect -> grid.Call.graphics Execution halted ``` -# correlationfunnel +## In both + +* checking package dependencies ... NOTE + ``` + Package which this enhances but not available for checking: ‘doMC’ + ``` + +* checking installed package size ... NOTE + ``` + installed size is 37.6Mb + sub-directories of 1Mb or more: + libs 35.5Mb + ``` + +# DAISIEprep
-* Version: 0.2.0 -* GitHub: https://github.com/business-science/correlationfunnel -* Source code: https://github.com/cran/correlationfunnel -* Date/Publication: 2020-06-09 04:40:03 UTC -* Number of recursive dependencies: 116 +* Version: 1.0.0 +* GitHub: https://github.com/joshwlambert/DAISIEprep +* Source code: https://github.com/cran/DAISIEprep +* Date/Publication: 2024-12-18 00:20:02 UTC +* Number of recursive dependencies: 148 -Run `revdepcheck::cloud_details(, "correlationfunnel")` for more info +Run `revdepcheck::cloud_details(, "DAISIEprep")` for more info
@@ -4527,44 +3653,36 @@ Run `revdepcheck::cloud_details(, "correlationfunnel")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(dplyr) - - Attaching package: 'dplyr' - - The following object is masked from 'package:testthat': + > library(DAISIEprep) + > + > test_check("DAISIEprep") + [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2235 ] + ══ Skipped tests (14) ══════════════════════════════════════════════════════════ ... - ▆ - 1. ├─correlationfunnel::plot_correlation_funnel(...) at test-plot_correlation_funnel.R:23:1 - 2. └─correlationfunnel:::plot_correlation_funnel.data.frame(...) - 3. ├─plotly::ggplotly(g, tooltip = "text") - 4. └─plotly:::ggplotly.ggplot(g, tooltip = "text") - 5. └─plotly::gg2list(...) + ── Failure ('test-plot_phylod.R:8:3'): plot_phylod runs silent without error ─── + `plot_phylod(phylod = phylod, node_pies = FALSE)` produced warnings. + ── Failure ('test-plot_phylod.R:13:3'): plot_phylod runs silent without error ── + `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings. + ── Failure ('test-plot_phylod.R:18:3'): plot_phylod runs silent without error ── + `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings. - [ FAIL 1 | WARN 3 | SKIP 0 | PASS 17 ] + [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2235 ] Error: Test failures Execution halted ``` -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘utils’ - All declared Imports should be used. - ``` - -# corrViz +# dampack
-* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/corrViz -* Date/Publication: 2023-06-30 11:40:07 UTC -* Number of recursive dependencies: 140 +* Version: 1.0.2.1000 +* GitHub: https://github.com/DARTH-git/dampack +* Source code: https://github.com/cran/dampack +* Date/Publication: 2024-09-30 17:00:06 UTC +* Number of recursive dependencies: 89 -Run `revdepcheck::cloud_details(, "corrViz")` for more info +Run `revdepcheck::cloud_details(, "dampack")` for more info
@@ -4572,127 +3690,216 @@ Run `revdepcheck::cloud_details(, "corrViz")` for more info * checking examples ... ERROR ``` - Running examples in ‘corrViz-Ex.R’ failed + Running examples in ‘dampack-Ex.R’ failed The error most likely occurred in: - > ### Name: animSolar - > ### Title: animSolar - > ### Aliases: animSolar + > ### Name: calc_exp_loss + > ### Title: Calculate the expected loss at a range of willingness-to-pay + > ### thresholds + > ### Aliases: calc_exp_loss > > ### ** Examples > - > cm <- cor(mtcars) ... - All aesthetics have length 1, but the data has 250 rows. - ℹ Please consider using `annotate()` or provide this layer with data containing - a single row. - Warning in geom_text(data = solar_system, aes(x = 0, y = 0, label = sun), : - All aesthetics have length 1, but the data has 250 rows. - ℹ Please consider using `annotate()` or provide this layer with data containing - a single row. - Error in pm[[2]] : subscript out of bounds - Calls: animSolar -> ggplotly -> ggplotly.ggplot -> gg2list + 4 20000 Chemo 12502.981 FALSE + 5 20000 Radio 5406.398 TRUE + 6 20000 Surgery 10462.064 FALSE + > + > # plot an expected loss curve (ELC) + > plot(exp_loss) + Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, : + argument 5 matches multiple formal arguments + Calls: plot ... plot.exp_loss -> add_common_aes -> scale_color_discrete Execution halted ``` +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(dampack) + Loading required package: ggplot2 + > + > test_check("dampack") + [ FAIL 12 | WARN 0 | SKIP 1 | PASS 122 ] + + ... + Backtrace: + ▆ + 1. ├─base::plot(t, basecase = list(pFailChemo = 0.37, muDieCancer = 0.09)) at test_twsa.R:44:3 + 2. └─dampack:::plot.twsa(t, basecase = list(pFailChemo = 0.37, muDieCancer = 0.09)) + 3. └─dampack:::add_common_aes(...) + 4. └─ggplot2::scale_fill_discrete(...) + + [ FAIL 12 | WARN 0 | SKIP 1 | PASS 122 ] + Error: Test failures + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘corrViz.Rmd’ + when running code in ‘dsa_generation.Rmd’ ... - > library(corrViz) + > l_owsa_det <- run_owsa_det(params_range = my_owsa_params_range, + + params_basecase = my_params_basecase, nsamp = 100, FUN = simulate_strategies, .... [TRUNCATED] - > cm <- cor(mtcars) + > my_owsa_NMB <- l_owsa_det$owsa_NMB - > corrHeatmap(mat = cm, display = "all", reorder = TRUE, - + pal = colorRampPalette(c("darkblue", "white", "darkred"))(100)) + > plot(my_owsa_NMB, n_x_ticks = 3) - When sourcing ‘corrViz.R’: - Error: subscript out of bounds + ... + + When sourcing ‘psa_analysis.R’: + Error: argument 5 matches multiple formal arguments Execution halted - ‘corrViz.Rmd’ using ‘UTF-8’... failed + ‘basic_cea.Rmd’ using ‘UTF-8’... OK + ‘dsa_generation.Rmd’ using ‘UTF-8’... failed + ‘psa_analysis.Rmd’ using ‘UTF-8’... failed + ‘psa_generation.Rmd’ using ‘UTF-8’... OK + ‘voi.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘corrViz.Rmd’ using rmarkdown - - Quitting from lines 76-81 [heatmap] (corrViz.Rmd) - Error: processing vignette 'corrViz.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘corrViz.Rmd’ - - SUMMARY: processing the following file failed: - ‘corrViz.Rmd’ - - Error: Vignette re-building failed. - Execution halted + --- re-building ‘basic_cea.Rmd’ using rmarkdown ``` ## In both * checking installed package size ... NOTE ``` - installed size is 7.2Mb + installed size is 5.2Mb sub-directories of 1Mb or more: - doc 6.7Mb + data 3.0Mb + doc 1.8Mb ``` -# corx +# DeductiveR
-* Version: 1.0.7.2 -* GitHub: https://github.com/conig/corx -* Source code: https://github.com/cran/corx -* Date/Publication: 2023-06-16 04:10:02 UTC -* Number of recursive dependencies: 125 +* Version: 1.1.0 +* GitHub: NA +* Source code: https://github.com/cran/DeductiveR +* Date/Publication: 2024-12-17 14:20:01 UTC +* Number of recursive dependencies: 99 -Run `revdepcheck::cloud_details(, "corx")` for more info +Run `revdepcheck::cloud_details(, "DeductiveR")` for more info
## Newly broken +* checking whether package ‘DeductiveR’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘DeductiveR’ + See ‘/tmp/workdir/DeductiveR/new/DeductiveR.Rcheck/00install.out’ for details. + ``` + +# deeptime + +
+ +* Version: 2.1.0 +* GitHub: https://github.com/willgearty/deeptime +* Source code: https://github.com/cran/deeptime +* Date/Publication: 2024-10-25 23:30:02 UTC +* Number of recursive dependencies: 197 + +Run `revdepcheck::cloud_details(, "deeptime")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘deeptime-Ex.R’ failed + The error most likely occurred in: + + > ### Name: facet_wrap_color + > ### Title: Wrap a 1d ribbon of panels into 2d with colored strips + > ### Aliases: facet_wrap_color FacetWrapColor + > ### Keywords: datasets + > + > ### ** Examples + > + > library(ggplot2) + > df <- data.frame(x = 1:10, y = 1:10, period = c("Permian", "Triassic")) + > ggplot(df) + + + geom_point(aes(x, y)) + + + facet_wrap_color(vars(period), colors = periods) + Error in asNamespace("ggplot2")$wrap_as_facets_list(...) : + attempt to apply non-function + Calls: facet_wrap_color -> wrap_as_facets_list + Execution halted + ``` + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(corx) + > library(deeptime) > - > test_check("corx") - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 69 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ + > test_check("deeptime") + Scale for y is already present. + Adding another scale for y, which will replace the existing scale. + Scale for y is already present. ... - 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 16. └─base::.handleSimpleError(...) - 17. └─purrr (local) h(simpleError(msg, call)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) - - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 69 ] + • patterns/geo-pattern2-new.svg + • patterns/scale-fill-geopattern-labels-new.svg + • patterns/scale-fill-geopattern-limits-new.svg + • patterns/scale-fill-geopattern-na-new.svg + • patterns/scale-fill-geopattern-na2-new.svg + • points_range/geom-points-range-aes-new.svg + • points_range/geom-points-range-bg-new.svg + • points_range/geom-points-range-h-new.svg Error: Test failures Execution halted ``` -# cosinor2 +# DEGRE
-* Version: 0.2.1 -* GitHub: https://github.com/amutak/cosinor2 -* Source code: https://github.com/cran/cosinor2 -* Date/Publication: 2018-10-15 16:10:03 UTC -* Number of recursive dependencies: 78 +* Version: 0.2.0 +* GitHub: NA +* Source code: https://github.com/cran/DEGRE +* Date/Publication: 2022-11-02 09:32:57 UTC +* Number of recursive dependencies: 95 + +Run `revdepcheck::cloud_details(, "DEGRE")` for more info + +
+ +## Newly broken + +* checking whether package ‘DEGRE’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘DEGRE’ + See ‘/tmp/workdir/DEGRE/new/DEGRE.Rcheck/00install.out’ for details. + ``` + +# Dforest + +
-Run `revdepcheck::cloud_details(, "cosinor2")` for more info +* Version: 0.4.2 +* GitHub: NA +* Source code: https://github.com/cran/Dforest +* Date/Publication: 2017-11-28 22:03:57 UTC +* Number of recursive dependencies: 29 + +Run `revdepcheck::cloud_details(, "Dforest")` for more info
@@ -4700,77 +3907,90 @@ Run `revdepcheck::cloud_details(, "cosinor2")` for more info * checking examples ... ERROR ``` - Running examples in ‘cosinor2-Ex.R’ failed + Running examples in ‘Dforest-Ex.R’ failed The error most likely occurred in: - > ### Name: cosinor.PR - > ### Title: Percent Rhythm - > ### Aliases: cosinor.PR + > ### Name: DF_easy + > ### Title: Simple pre-defined pipeline for Decision forest + > ### Aliases: DF_easy > > ### ** Examples > - > fit.temperature<-cosinor.lm(Temperature~time(Time), period = 24, data = temperature_zg) + > # data(demo_simple) ... - 1 0.9838823 0.9680243 0 + > Train_X = X[-random_seq[split_sample[[1]]],] + > Train_Y = Y[-random_seq[split_sample[[1]]]] + > Test_X = X[random_seq[split_sample[[1]]],] + > Test_Y = Y[random_seq[split_sample[[1]]]] > - > fit.november<-population.cosinor.lm(data = PANAS_november, time = PANAS_time, - + period = 7) - MESOR Amplitude Acrophase - 1 1.435419 0.2662682 -5.544496 - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: population.cosinor.lm ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > Result = DF_easy(Train_X, Train_Y, Test_X, Test_Y) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "blue", high = "darkblue") + Calls: DF_easy -> DF_ConfPlot -> scale_color_continuous Execution halted ``` -* checking running R code from vignettes ... ERROR +# did + +
+ +* Version: 2.1.2 +* GitHub: https://github.com/bcallaway11/did +* Source code: https://github.com/cran/did +* Date/Publication: 2022-07-20 16:00:05 UTC +* Number of recursive dependencies: 155 + +Run `revdepcheck::cloud_details(, "did")` for more info + +
+ +## Newly broken + +* checking whether package ‘did’ can be installed ... WARNING ``` - Errors in running code in vignettes: - when running code in ‘cosinor2.Rmd’ - ... - Loading required package: cosinor - - > fit.panas.cosinor <- population.cosinor.lm(data = PANAS_november, - + time = PANAS_time, period = 7) - MESOR Amplitude Acrophase - 1 1.435419 0.2662682 -5.544496 - - When sourcing ‘cosinor2.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘cosinor2.Rmd’ using ‘UTF-8’... failed + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘did’ + See ‘/tmp/workdir/did/new/did.Rcheck/00install.out’ for details. ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking running R code from vignettes ... WARNING ``` - Error(s) in re-building vignettes: + Errors in running code in vignettes: + when running code in ‘TWFE.Rmd’ ... - --- re-building ‘cosinor2.Rmd’ using rmarkdown - Quitting from lines 47-48 [unnamed-chunk-2] (cosinor2.Rmd) - Error: processing vignette 'cosinor2.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘cosinor2.Rmd’ + > knitr::opts_chunk$set(collapse = TRUE, comment = "#>", + + echo = TRUE, eval = FALSE) - SUMMARY: processing the following file failed: - ‘cosinor2.Rmd’ + > library(tidyverse) - Error: Vignette re-building failed. + When sourcing ‘TWFE.R’: + ... + + When sourcing ‘pre-testing.R’: + Error: cannot open the connection Execution halted + + ‘TWFE.Rmd’ using ‘UTF-8’... failed + ‘did-basics.Rmd’ using ‘UTF-8’... OK + ‘extensions.Rmd’ using ‘UTF-8’... failed + ‘multi-period-did.Rmd’ using ‘UTF-8’... OK + ‘pre-testing.Rmd’ using ‘UTF-8’... failed ``` -# CoSMoS +# directlabels
-* Version: 2.1.0 -* GitHub: https://github.com/TycheLab/CoSMoS -* Source code: https://github.com/cran/CoSMoS -* Date/Publication: 2021-05-29 23:20:08 UTC +* Version: 2024.1.21 +* GitHub: https://github.com/tdhock/directlabels +* Source code: https://github.com/cran/directlabels +* Date/Publication: 2024-01-24 19:20:07 UTC * Number of recursive dependencies: 81 -Run `revdepcheck::cloud_details(, "CoSMoS")` for more info +Run `revdepcheck::cloud_details(, "directlabels")` for more info
@@ -4779,77 +3999,121 @@ Run `revdepcheck::cloud_details(, "CoSMoS")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘vignette.Rmd’ + when running code in ‘examples.Rmd’ ... - `stat_bin()` using `bins = 30`. Pick better value with `binwidth`. - - > precip_ggamma <- analyzeTS(TS = precip, season = "month", - + dist = "ggamma", acsID = "weibull", lag.max = 12) - - > reportTS(aTS = precip_ggamma, method = "dist") + theme_light() + Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. + ℹ Please use `linewidth` instead. + `geom_smooth()` using method = 'loess' and formula = 'y ~ x' - When sourcing ‘vignette.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘examples.R’: + Error: Problem while computing stat. + ℹ Error occurred in the 3rd layer. + Caused by error in `get()`: + ! object 'last.qp' of mode 'function' was not found Execution halted - ‘vignette.Rmd’ using ‘UTF-8’... failed + ‘examples.Rmd’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘vignette.Rmd’ using rmarkdown + --- re-building ‘examples.Rmd’ using knitr ``` -# countfitteR +# distributional
-* Version: 1.4 -* GitHub: https://github.com/BioGenies/countfitteR -* Source code: https://github.com/cran/countfitteR -* Date/Publication: 2020-09-30 21:30:02 UTC -* Number of recursive dependencies: 93 +* Version: 0.5.0 +* GitHub: https://github.com/mitchelloharawild/distributional +* Source code: https://github.com/cran/distributional +* Date/Publication: 2024-09-17 06:20:02 UTC +* Number of recursive dependencies: 120 -Run `revdepcheck::cloud_details(, "countfitteR")` for more info +Run `revdepcheck::cloud_details(, "distributional")` for more info
## Newly broken -* checking tests ... ERROR - ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(countfitteR) - > - > test_check("countfitteR") - [ FAIL 1 | WARN 6 | SKIP 0 | PASS 34 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('testing.R:45:3'): plot_fit ──────────────────────────────────────── - p$labels[[1]] not equal to "x". - target is NULL, current is character - - [ FAIL 1 | WARN 6 | SKIP 0 | PASS 34 ] - Error: Test failures - Execution halted +* checking examples ... ERROR + ``` + Running examples in ‘distributional-Ex.R’ failed + The error most likely occurred in: + + > ### Name: dist_truncated + > ### Title: Truncate a distribution + > ### Aliases: dist_truncated + > + > ### ** Examples + > + > dist <- dist_truncated(dist_normal(2,1), lower = 0) + ... + 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) + 13. │ └─l$compute_geom_2(d, theme = plot$theme) + 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 15. │ └─self$geom$use_defaults(...) + 16. └─base::.handleSimpleError(...) + 17. └─rlang (local) h(simpleError(msg, call)) + 18. └─handlers[[1L]](cnd) + 19. └─cli::cli_abort(...) + 20. └─rlang::abort(...) + Execution halted ``` -# coursekata - -
- -* Version: 0.18.0 -* GitHub: https://github.com/coursekata/coursekata-r -* Source code: https://github.com/cran/coursekata -* Date/Publication: 2024-08-16 20:20:02 UTC -* Number of recursive dependencies: 119 +# distributions3 -Run `revdepcheck::cloud_details(, "coursekata")` for more info +
+ +* Version: 0.2.2 +* GitHub: https://github.com/alexpghayes/distributions3 +* Source code: https://github.com/cran/distributions3 +* Date/Publication: 2024-09-16 16:20:02 UTC +* Number of recursive dependencies: 88 + +Run `revdepcheck::cloud_details(, "distributions3")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(distributions3) + + Attaching package: 'distributions3' + + The following object is masked from 'package:stats': + + ... + + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test-plot.R:50:3'): ggplot2 implementation works ────────────────── + `print(gg1)` produced warnings. + ── Failure ('test-plot.R:56:3'): ggplot2 implementation works ────────────────── + `print(gg3)` produced warnings. + + [ FAIL 2 | WARN 4 | SKIP 0 | PASS 2766 ] + Error: Test failures + Execution halted + ``` + +# dittoViz + +
+ +* Version: 1.0.1 +* GitHub: https://github.com/dtm2451/dittoViz +* Source code: https://github.com/cran/dittoViz +* Date/Publication: 2024-02-02 00:00:12 UTC +* Number of recursive dependencies: 98 + +Run `revdepcheck::cloud_details(, "dittoViz")` for more info
@@ -4857,26 +4121,26 @@ Run `revdepcheck::cloud_details(, "coursekata")` for more info * checking examples ... ERROR ``` - Running examples in ‘coursekata-Ex.R’ failed + Running examples in ‘dittoViz-Ex.R’ failed The error most likely occurred in: - > ### Name: middle - > ### Title: Find a percentage of a distribution - > ### Aliases: middle tails lower upper + > ### Name: barPlot + > ### Title: Outputs a stacked bar plot to show the percent composition of + > ### samples, groups, clusters, or other groupings + > ### Aliases: barPlot > > ### ** Examples > - > ... - > tails(1:10, .5) - [1] TRUE TRUE FALSE FALSE FALSE FALSE FALSE FALSE TRUE TRUE - > - > sampling_distribution <- do(1000) * mean(rnorm(100, 5, 10)) - > sampling_distribution %>% - + gf_histogram(~mean, data = sampling_distribution, fill = ~ middle(mean, .68)) %>% - + gf_refine(scale_fill_manual(values = c("blue", "coral"))) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + 15 3 D 12 32 0.3750000 + 16 4 D 8 32 0.2500000 + > # through hovering the cursor over the relevant parts of the plot + > if (requireNamespace("plotly", quietly = TRUE)) { + + barPlot(example_df, "clustering", group.by = "groups", + + do.hover = TRUE) + + } + Error in pm[[2]] : subscript out of bounds + Calls: barPlot -> -> ggplotly.ggplot -> gg2list Execution halted ``` @@ -4886,111 +4150,101 @@ Run `revdepcheck::cloud_details(, "coursekata")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(coursekata) - Loading required package: dslabs - Loading required package: fivethirtyeight - Some larger datasets need to be installed separately, like senators and - house_district_forecast. To install these, we recommend you install the - fivethirtyeightdata package by running: + > library(dittoViz) + Loading required package: ggplot2 + > test_check("dittoViz") + [ FAIL 29 | WARN 0 | SKIP 0 | PASS 252 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ ... - • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-color.svg - • gf_model-visual/gf-violin-cond-mod-y-on-x-pred-on-facet.svg - • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-color.svg - • gf_model-visual/gf-violin-cond-mod-y-on-y-pred-on-facet.svg - • gf_model-visual/gf-violin-cond-mod-y-on-y.svg - • gf_model-visual/gf-violin-horizontal-mull-mod-y-on-x.svg - • gf_model-visual/gf-violin-mull-mod-y-on-x-2.svg - • gf_model-visual/gf-violin-null-mod-y-on-y.svg + 2. └─dittoViz::freqPlot(...) + 3. └─dittoViz::yPlot(...) + 4. └─dittoViz:::.warn_or_apply_plotly(p, plots) + 5. ├─plotly::ggplotly(p, tooltip = "text") + 6. └─plotly:::ggplotly.ggplot(p, tooltip = "text") + 7. └─plotly::gg2list(...) + + [ FAIL 29 | WARN 0 | SKIP 0 | PASS 252 ] Error: Test failures Execution halted ``` -# covidcast +# divent
-* Version: 0.5.2 -* GitHub: https://github.com/cmu-delphi/covidcast -* Source code: https://github.com/cran/covidcast -* Date/Publication: 2023-07-12 23:40:06 UTC -* Number of recursive dependencies: 93 +* Version: 0.4-4 +* GitHub: https://github.com/EricMarcon/divent +* Source code: https://github.com/cran/divent +* Date/Publication: 2024-11-06 16:10:08 UTC +* Number of recursive dependencies: 95 -Run `revdepcheck::cloud_details(, "covidcast")` for more info +Run `revdepcheck::cloud_details(, "divent")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(covidcast) - We encourage COVIDcast API users to register on our mailing list: - https://lists.andrew.cmu.edu/mailman/listinfo/delphi-covidcast-api - We'll send announcements about new data sources, package updates, - server maintenance, and new features. - > + Running examples in ‘divent-Ex.R’ failed + The error most likely occurred in: + + > ### Name: accum_div_phylo + > ### Title: Phylogenetic Diversity Accumulation of a Community + > ### Aliases: accum_div_phylo accum_ent_phylo accum_ent_phylo.numeric + > ### accum_ent_phylo.abundances accum_div_phylo.numeric + > ### accum_div_phylo.abundances + > + > ### ** Examples ... - • plot/default-county-choropleth.svg - • plot/default-hrr-choropleth-with-include.svg - • plot/default-msa-choropleth-with-include.svg - • plot/default-state-choropleth-with-include.svg - • plot/default-state-choropleth-with-range.svg - • plot/state-choropleth-with-no-metadata.svg - • plot/state-line-graph-with-range.svg - • plot/state-line-graph-with-stderrs.svg - Error: Test failures - Execution halted + 13. │ └─l$compute_geom_2(d, theme = plot$theme) + 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 15. │ └─self$geom$use_defaults(...) + 16. │ └─ggplot2 (local) use_defaults(..., self = self) + 17. │ └─ggplot2:::check_aesthetics(new_params, nrow(data)) + 18. │ └─vctrs::list_sizes(x) + 19. └─vctrs:::stop_scalar_type(...) + 20. └─vctrs:::stop_vctrs(...) + 21. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) + Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘external-data.Rmd’ + when running code in ‘divent.Rmd’ ... - Warning: Metadata for signal mean and standard deviation not available; defaulting to observed mean and standard deviation to set plot range. - Warning in ggplot2::guide_colorbar(title = NULL, horizontal = TRUE, barheight = legend_height, : - Arguments in `...` must be used. - ✖ Problematic argument: - • horizontal = TRUE - ℹ Did you misspell an argument name? + 4 subplot_4 1.56 798 - ... - Error: Rate limit exceeded when fetching data from API anonymously. See the "API keys" section of the `covidcast_signal()` documentation for information on registering for an API key. - ℹ Message from server: - ℹ Rate limit exceeded for anonymous queries. To remove this limit, register a free API key at https://api.delphi.cmu.edu/epidata/admin/registration_form + > autoplot(paracou_6_abd[1, ]) + + When sourcing ‘divent.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 1st layer. + Caused by error in `list_sizes()`: + ! `x$shape` must be a vector, not a object. Execution halted - ‘correlation-utils.Rmd’ using ‘UTF-8’... OK - ‘covidcast.Rmd’ using ‘UTF-8’... OK - ‘external-data.Rmd’ using ‘UTF-8’... failed - ‘multi-signals.Rmd’ using ‘UTF-8’... OK - ‘plotting-signals.Rmd’ using ‘UTF-8’... failed + ‘divent.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘correlation-utils.Rmd’ using rmarkdown - --- finished re-building ‘correlation-utils.Rmd’ - - --- re-building ‘covidcast.Rmd’ using rmarkdown + ... + --- re-building ‘divent.Rmd’ using rmarkdown - Quitting from lines 38-45 [unnamed-chunk-1] (covidcast.Rmd) - Error: processing vignette 'covidcast.Rmd' failed with diagnostics: - Rate limit exceeded when fetching data from API anonymously. See the "API keys" section of the `covidcast_signal()` documentation for information on registering for an API key. - ℹ Message from server: - ... - ℹ Message from server: - ℹ Rate limit exceeded for anonymous queries. To remove this limit, register a free API key at https://api.delphi.cmu.edu/epidata/admin/registration_form - --- failed re-building ‘plotting-signals.Rmd’ + Quitting from lines 59-60 [plot_paracou6] (divent.Rmd) + Error: processing vignette 'divent.Rmd' failed with diagnostics: + Problem while setting up geom aesthetics. + ℹ Error occurred in the 1st layer. + Caused by error in `list_sizes()`: + ! `x$shape` must be a vector, not a object. + --- failed re-building ‘divent.Rmd’ - SUMMARY: processing the following files failed: - ‘covidcast.Rmd’ ‘external-data.Rmd’ ‘multi-signals.Rmd’ - ‘plotting-signals.Rmd’ + SUMMARY: processing the following file failed: + ‘divent.Rmd’ Error: Vignette re-building failed. Execution halted @@ -4998,22 +4252,22 @@ Run `revdepcheck::cloud_details(, "covidcast")` for more info ## In both -* checking data for non-ASCII characters ... NOTE +* checking Rd cross-references ... NOTE ``` - Note: found 20 marked UTF-8 strings + Package unavailable to check Rd xrefs: ‘dbmss’ ``` -# Coxmos +# dotsViolin
-* Version: 1.0.2 -* GitHub: https://github.com/BiostatOmics/Coxmos -* Source code: https://github.com/cran/Coxmos -* Date/Publication: 2024-03-25 20:32:38 UTC -* Number of recursive dependencies: 194 +* Version: 0.0.1 +* GitHub: NA +* Source code: https://github.com/cran/dotsViolin +* Date/Publication: 2023-10-30 13:20:02 UTC +* Number of recursive dependencies: 39 -Run `revdepcheck::cloud_details(, "Coxmos")` for more info +Run `revdepcheck::cloud_details(, "dotsViolin")` for more info
@@ -5021,191 +4275,134 @@ Run `revdepcheck::cloud_details(, "Coxmos")` for more info * checking examples ... ERROR ``` - Running examples in ‘Coxmos-Ex.R’ failed + Running examples in ‘dotsViolin-Ex.R’ failed The error most likely occurred in: - > ### Name: getAutoKM - > ### Title: getAutoKM - > ### Aliases: getAutoKM + > ### Name: dots_and_violin + > ### Title: Makes a composite dot-plot and violin-plot + > ### Aliases: dots_and_violin + > ### Keywords: dot-plot violin-plot > > ### ** Examples > - > data("X_proteomic") ... - > X_train <- X_proteomic[index_train,1:50] - > Y_train <- Y_proteomic[index_train,] - > X_test <- X_proteomic[-index_train,1:50] - > Y_test <- Y_proteomic[-index_train,] - > splsicox.model <- splsicox(X_train, Y_train, n.comp = 2, penalty = 0.5, x.center = TRUE, - + x.scale = TRUE) - > getAutoKM(type = "LP", model = splsicox.model) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: getAutoKM ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + 29. │ └─ggplot2 (local) draw_group(...) + 30. │ ├─ggplot2:::ggname(...) + 31. │ │ └─grid::grobName(grob, prefix) + 32. │ └─ggplot2:::dotstackGrob(...) + 33. └─base::.handleSimpleError(...) + 34. └─rlang (local) h(simpleError(msg, call)) + 35. └─handlers[[1L]](cnd) + 36. └─cli::cli_abort(...) + 37. └─rlang::abort(...) Execution halted ``` ## In both -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Coxmos-MO-pipeline.Rmd’ - ... - - $proteomic - - - > LST_KM_RES_LP <- getAutoKM(type = "LP", model = lst_models$`SB.sPLS-DRCOX`, - + comp = 1:4, top = 10, ori_data = T, BREAKTIME = NULL, only_sig = .... [TRUNCATED] - - ... - Warning in data("Y_proteomic") : data set ‘Y_proteomic’ not found - - > X <- X_proteomic - - When sourcing ‘Coxmos-pipeline.R’: - Error: object 'X_proteomic' not found - Execution halted - - ‘Coxmos-MO-pipeline.Rmd’ using ‘UTF-8’... failed - ‘Coxmos-pipeline.Rmd’ using ‘UTF-8’... failed - ``` - -* checking installed package size ... NOTE +* checking data for non-ASCII characters ... NOTE ``` - installed size is 7.4Mb - sub-directories of 1Mb or more: - R 1.5Mb - data 2.5Mb - doc 2.9Mb + Note: found 2 marked UTF-8 strings ``` -# cpr +# drugsens
-* Version: 0.4.0 -* GitHub: https://github.com/dewittpe/cpr -* Source code: https://github.com/cran/cpr -* Date/Publication: 2024-02-15 15:40:02 UTC -* Number of recursive dependencies: 95 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/drugsens +* Date/Publication: 2025-01-16 15:10:02 UTC +* Number of recursive dependencies: 96 -Run `revdepcheck::cloud_details(, "cpr")` for more info +Run `revdepcheck::cloud_details(, "drugsens")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking whether package ‘drugsens’ can be installed ... WARNING ``` - Errors in running code in vignettes: - when running code in ‘cpr.Rmd’ - ... - Warning: Removed 25 rows containing missing values or values outside the scale range - (`geom_rug()`). - Warning: Removed 26 rows containing missing values or values outside the scale range - (`geom_rug()`). - Warning: Removed 38 rows containing missing values or values outside the scale range - (`geom_rug()`). - - When sourcing ‘cpr.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘cnr.Rmd’ using ‘UTF-8’... OK - ‘cpr.Rmd’ using ‘UTF-8’... failed + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘drugsens’ + See ‘/tmp/workdir/drugsens/new/drugsens.Rcheck/00install.out’ for details. ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘cnr.Rmd’ using rmarkdown - ``` +# duke -## In both +
+ +* Version: 0.0.3 +* GitHub: https://github.com/aidangildea/duke +* Source code: https://github.com/cran/duke +* Date/Publication: 2023-12-15 21:50:16 UTC +* Number of recursive dependencies: 88 + +Run `revdepcheck::cloud_details(, "duke")` for more info + +
+ +## Newly broken * checking tests ... ERROR ``` - Running ‘test-bsplineD.R’ - Running ‘test-bsplines.R’ - Running ‘test-btensor.R’ - Running ‘test-build_tensor.R’ - Running ‘test-cn.R’ - Running ‘test-cnr.R’ - Running ‘test-coef_vcov.R’ - Running the tests in ‘tests/test-coef_vcov.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: - > # Tests for extracting coefficients and vcov matrix from regression fits - ... - + stopifnot(identical(names(COEF_VCOV), c("theta", "coef", "vcov_theta", "vcov"))) - + stopifnot(identical(COEF_VCOV$theta, numeric(0))) - + stopifnot(identical(COEF_VCOV$coef, fixef(fit))) - + stopifnot(identical(COEF_VCOV$vcov_theta, matrix(0)[FALSE, FALSE])) - + stopifnot(identical(COEF_VCOV$vcov, as.matrix(vcov(fit)))) - + }) - Error in initializePtr() : - function 'cholmod_factor_ldetA' not provided by package 'Matrix' - Calls: with ... initialize -> -> initializePtr -> .Call + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files + ... + 2. │ └─testthat:::expect_condition_matching(...) + 3. │ └─testthat:::quasi_capture(...) + 4. │ ├─testthat (local) .capture(...) + 5. │ │ └─base::withCallingHandlers(...) + 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) + 7. └─testthat::expect_equal(ggplot2::layer_data(p3)$fill[9], "#B5B5B5") + + [ FAIL 1 | WARN 9 | SKIP 0 | PASS 27 ] + Error: Test failures Execution halted ``` -* checking installed package size ... NOTE - ``` - installed size is 6.6Mb - sub-directories of 1Mb or more: - doc 1.6Mb - libs 4.1Mb - ``` - -# cpsvote +# dymo
-* Version: 0.1.0 -* GitHub: https://github.com/Reed-EVIC/cpsvote -* Source code: https://github.com/cran/cpsvote -* Date/Publication: 2020-11-05 16:00:02 UTC -* Number of recursive dependencies: 90 +* Version: 1.1.0 +* GitHub: NA +* Source code: https://github.com/cran/dymo +* Date/Publication: 2022-05-05 08:00:02 UTC +* Number of recursive dependencies: 147 -Run `revdepcheck::cloud_details(, "cpsvote")` for more info +Run `revdepcheck::cloud_details(, "dymo")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking whether package ‘dymo’ can be installed ... WARNING ``` - Errors in running code in vignettes: - when running code in ‘voting.Rmd’ - ... - + .... [TRUNCATED] - - > library(usmap) - - > cps16 %>% as_survey_design(weights = turnout_weight) %>% - + mutate(state = STATE) %>% group_by(state) %>% summarize(turnout = survey_mean(hurach .... [TRUNCATED] - - When sourcing ‘voting.R’: - Error: argument is of length zero - Execution halted - - ‘add-variables.Rmd’ using ‘UTF-8’... OK - ‘background.Rmd’ using ‘UTF-8’... OK - ‘basics.Rmd’ using ‘UTF-8’... OK - ‘voting.Rmd’ using ‘UTF-8’... failed + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘dymo’ + See ‘/tmp/workdir/dymo/new/dymo.Rcheck/00install.out’ for details. ``` -# crimeutils +# easysurv
-* Version: 0.5.1 -* GitHub: https://github.com/jacobkap/crimeutils -* Source code: https://github.com/cran/crimeutils -* Date/Publication: 2022-12-07 15:10:07 UTC -* Number of recursive dependencies: 103 +* Version: 2.0.1 +* GitHub: https://github.com/Maple-Health-Group/easysurv +* Source code: https://github.com/cran/easysurv +* Date/Publication: 2024-06-21 10:30:06 UTC +* Number of recursive dependencies: 155 -Run `revdepcheck::cloud_details(, "crimeutils")` for more info +Run `revdepcheck::cloud_details(, "easysurv")` for more info
@@ -5213,126 +4410,118 @@ Run `revdepcheck::cloud_details(, "crimeutils")` for more info * checking examples ... ERROR ``` - Running examples in ‘crimeutils-Ex.R’ failed + Running examples in ‘easysurv-Ex.R’ failed The error most likely occurred in: - > ### Name: scale_linetype_crim - > ### Title: A set of linetypes - > ### Aliases: scale_linetype_crim + > ### Name: get_km + > ### Title: Generate Kaplan-Meier estimates + > ### Aliases: get_km > > ### ** Examples > - > ggplot2::ggplot(mtcars, ggplot2::aes(x = mpg, y = hp, linetype = as.character(cyl))) + - + ggplot2::geom_line(size = 1) + - + scale_linetype_crim() + - + theme_crim() - Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. - ℹ Please use `linewidth` instead. - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > km_results <- get_km( + ... + Poor Poor 228 145 3.101736 0.1772520 2.183562 1.978082 2.619178 + Median follow-up + Good 4.452055 + Medium 4.712329 + Poor 4.115068 + + Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = "{n.risk}", : + argument "risktable_height" is missing, with no default + Calls: ... ggsurvfit_build -> -> .construct_risktable + Execution halted + ``` + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘easysurv.Rmd’ + ... + Median follow-up + Tab+Vis 2.217659 + Tab->Vis 2.220397 + Tab 2.308008 + Vis 2.198494 + + + When sourcing ‘easysurv.R’: + Error: argument "risktable_height" is missing, with no default + Execution halted + + ‘easysurv.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + ... + --- re-building ‘easysurv.Rmd’ using rmarkdown + + Quitting from lines 149-157 [km] (easysurv.Rmd) + Error: processing vignette 'easysurv.Rmd' failed with diagnostics: + argument "risktable_height" is missing, with no default + --- failed re-building ‘easysurv.Rmd’ + + SUMMARY: processing the following file failed: + ‘easysurv.Rmd’ + + Error: Vignette re-building failed. Execution halted ``` -# crmPack +# EbayesThresh
-* Version: 1.0.6 -* GitHub: https://github.com/openpharma/crmPack -* Source code: https://github.com/cran/crmPack -* Date/Publication: 2024-06-26 15:00:14 UTC -* Number of recursive dependencies: 70 +* Version: 1.4-12 +* GitHub: https://github.com/stephenslab/EbayesThresh +* Source code: https://github.com/cran/EbayesThresh +* Date/Publication: 2017-08-08 04:02:13 UTC +* Number of recursive dependencies: 66 -Run `revdepcheck::cloud_details(, "crmPack")` for more info +Run `revdepcheck::cloud_details(, "EbayesThresh")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘crmPack-Ex.R’ failed - The error most likely occurred in: - - > ### Name: DataMixture-class - > ### Title: Class for the data with mixture sharing - > ### Aliases: DataMixture-class .DataMixture - > ### Keywords: classes - > - > ### ** Examples - > - ... - + refDose = 50) - > - > nodata <- Data(doseGrid=doseGrid) - > - > priorSamples <- mcmc(nodata, model, options) - > plot(priorSamples, model, nodata) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘example.Rnw’ + when running code in ‘ebayesthresh.Rmd’ ... - [1] -5.070681 - - > newDLTmodel@phi2 - [1] 1.125107 + + t(error_mat.mean_mse)), nzeros = rep(nzeros/nobs, 3 * 2), + + method = rep(rep( .... [TRUNCATED] - > print(plot(samples, model, data)) + > ggplot(data = data.error_plot) + facet_grid(. ~ error_post) + + + geom_line(aes(x = nzeros, y = mse, col = method), size = 1) + + + scale_colo .... [TRUNCATED] - When sourcing ‘example.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘ebayesthresh.R’: + Error: unused argument (h = c(0, 270)) Execution halted - ‘guidelines.Rmd’ using ‘UTF-8’... OK - ‘example.Rnw’ using ‘UTF-8’... failed + ‘ebayesthresh.Rmd’ using ‘UTF-8’... failed ``` -## In both - * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘guidelines.Rmd’ using rmarkdown - --- finished re-building ‘guidelines.Rmd’ - - --- re-building ‘example.Rnw’ using Sweave - Loading required package: ggplot2 - Registered S3 method overwritten by 'crmPack': - method from - print.gtable gtable - Type crmPackHelp() to open help browser - ... - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - - --- failed re-building ‘example.Rnw’ - - SUMMARY: processing the following file failed: - ‘example.Rnw’ - - Error: Vignette re-building failed. - Execution halted + --- re-building ‘ebayesthresh.Rmd’ using rmarkdown ``` -# crosshap +# ecolRxC
-* Version: 1.4.0 -* GitHub: https://github.com/jacobimarsh/crosshap -* Source code: https://github.com/cran/crosshap -* Date/Publication: 2024-03-31 15:40:02 UTC -* Number of recursive dependencies: 117 +* Version: 0.1.1-10 +* GitHub: NA +* Source code: https://github.com/cran/ecolRxC +* Date/Publication: 2023-03-31 07:50:02 UTC +* Number of recursive dependencies: 28 -Run `revdepcheck::cloud_details(, "crosshap")` for more info +Run `revdepcheck::cloud_details(, "ecolRxC")` for more info
@@ -5340,40 +4529,40 @@ Run `revdepcheck::cloud_details(, "crosshap")` for more info * checking examples ... ERROR ``` - Running examples in ‘crosshap-Ex.R’ failed + Running examples in ‘ecolRxC-Ex.R’ failed The error most likely occurred in: - > ### Name: build_bot_halfeyeplot - > ### Title: Bot hap-pheno raincloud plot - > ### Aliases: build_bot_halfeyeplot + > ### Name: plot.ecolRxC + > ### Title: Graphical representation of a RxC ecological inference (vote + > ### transfer) matrix + > ### Aliases: plot.ecolRxC > > ### ** Examples > - > ... - 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) - 13. │ └─l$compute_geom_2(d, theme = plot$theme) - 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) - 15. │ └─self$geom$use_defaults(...) - 16. └─base::.handleSimpleError(...) - 17. └─rlang (local) h(simpleError(msg, call)) - 18. └─handlers[[1L]](cnd) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) + + C3 = c(78L, 7L, 28L, 42L, 28L, 84L, 49L, 85L, 260L, 100L), + + C4 = c(56L, 14L, 20L, 7L, 19L, 54L, 22L, 50L, 330L, 91L), + + C5 = c(14L, 3L, 6L, 2L, 3L, 14L, 8L, 8L, 45L, 7L)), + + row.names = c(NA, 10L), class = "data.frame") + > example <- ecolRxC(votes1, votes2, method = "IPF") + > p <- plot(example, show.plot = FALSE) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#008B8B80", low = "white") + Calls: plot -> plot.ecolRxC -> Execution halted ``` -# ctrialsgov +# EGM
-* Version: 0.2.5 -* GitHub: NA -* Source code: https://github.com/cran/ctrialsgov -* Date/Publication: 2021-10-18 16:00:02 UTC -* Number of recursive dependencies: 100 +* Version: 0.1.0 +* GitHub: https://github.com/shah-in-boots/EGM +* Source code: https://github.com/cran/EGM +* Date/Publication: 2024-05-23 16:10:05 UTC +* Number of recursive dependencies: 76 -Run `revdepcheck::cloud_details(, "ctrialsgov")` for more info +Run `revdepcheck::cloud_details(, "EGM")` for more info
@@ -5385,109 +4574,77 @@ Run `revdepcheck::cloud_details(, "ctrialsgov")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(ctrialsgov) + > library(EGM) + Loading required package: vctrs + Loading required package: data.table + > EGM::set_wfdb_path("/usr/local/bin") > - > test_check("ctrialsgov") - [NCT04553939] ible Local Advanved |Bladder| Cancer - [NCT03517995] of Sulforaphane in |Bladder| Cancer Chemoprevent - [NCT04210479] Comparison of |Bladder| Filling vs. Non-Fil + > test_check("EGM") ... - ▆ - 1. ├─ctrialsgov::ctgov_to_plotly(p) at test-plot.R:12:3 - 2. └─ctrialsgov:::ctgov_to_plotly.ctgov_bar_plot(p) - 3. ├─plotly::ggplotly(p, tooltip = "text") - 4. └─plotly:::ggplotly.ggplot(p, tooltip = "text") - 5. └─plotly::gg2list(...) + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test-ggm.R:63:2'): theming works ────────────────────────────────── + g$labels$x (`actual`) not equal to "sample" (`expected`). - [ FAIL 1 | WARN 6 | SKIP 0 | PASS 43 ] + `actual` is NULL + `expected` is a character vector ('sample') + + [ FAIL 1 | WARN 0 | SKIP 19 | PASS 43 ] Error: Test failures Execution halted ``` -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 1350 marked UTF-8 strings - ``` - -# cubble +# eiCircles
-* Version: 1.0.0 -* GitHub: https://github.com/huizezhang-sherry/cubble -* Source code: https://github.com/cran/cubble -* Date/Publication: 2024-08-27 15:20:02 UTC -* Number of recursive dependencies: 145 +* Version: 0.0.1-7 +* GitHub: NA +* Source code: https://github.com/cran/eiCircles +* Date/Publication: 2024-03-24 19:10:02 UTC +* Number of recursive dependencies: 30 -Run `revdepcheck::cloud_details(, "cubble")` for more info +Run `revdepcheck::cloud_details(, "eiCircles")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘cb5match.Rmd’ - ... - > p2 <- ggplot(res_tm_long, aes(x = date, y = matched, - + group = type, color = type)) + geom_line() + facet_wrap(vars(group)) + - + scale_colo .... [TRUNCATED] - - > (p1 | p2) + patchwork::plot_layout(guides = "collect") + - + plot_annotation(tag_levels = "a") & theme(legend.position = "bottom") + Running examples in ‘eiCircles-Ex.R’ failed + The error most likely occurred in: + > ### Name: plot.BPF + > ### Title: Graphical representation of a RxC ecological inference (vote + > ### transfer) matrix + > ### Aliases: plot.BPF + > + > ### ** Examples + > ... - Error: subscript out of bounds + + C3 = c(78L, 7L, 28L, 42L, 28L, 84L, 49L, 85L, 260L, 100L), + + C4 = c(56L, 14L, 20L, 7L, 19L, 54L, 22L, 50L, 330L, 91L), + + C5 = c(14L, 3L, 6L, 2L, 3L, 14L, 8L, 8L, 45L, 7L)), + + row.names = c(NA, 10L), class = "data.frame") + > example <- BPF(votes1, votes2) + > p <- plot(example, show.plot = FALSE) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#A2CD5A80", low = "white") + Calls: plot -> plot.BPF -> Execution halted - - ‘cb1class.Rmd’ using ‘UTF-8’... OK - ‘cb2create.Rmd’ using ‘UTF-8’... OK - ‘cb3tsibblesf.Rmd’ using ‘UTF-8’... OK - ‘cb4glyph.Rmd’ using ‘UTF-8’... OK - ‘cb5match.Rmd’ using ‘UTF-8’... failed - ‘cb6interactive.Rmd’ using ‘UTF-8’... failed - ‘cb7misc.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘cb1class.Rmd’ using rmarkdown - --- finished re-building ‘cb1class.Rmd’ - - --- re-building ‘cb2create.Rmd’ using rmarkdown - --- finished re-building ‘cb2create.Rmd’ - - --- re-building ‘cb3tsibblesf.Rmd’ using rmarkdown - --- finished re-building ‘cb3tsibblesf.Rmd’ - - --- re-building ‘cb4glyph.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.6Mb - sub-directories of 1Mb or more: - data 3.0Mb - doc 1.4Mb ``` -# curtailment +# entropart
-* Version: 0.2.6 -* GitHub: https://github.com/martinlaw/curtailment -* Source code: https://github.com/cran/curtailment -* Date/Publication: 2023-10-25 15:50:04 UTC -* Number of recursive dependencies: 36 +* Version: 1.6-15 +* GitHub: https://github.com/EricMarcon/entropart +* Source code: https://github.com/cran/entropart +* Date/Publication: 2024-08-26 19:30:09 UTC +* Number of recursive dependencies: 128 -Run `revdepcheck::cloud_details(, "curtailment")` for more info +Run `revdepcheck::cloud_details(, "entropart")` for more info
@@ -5495,131 +4652,131 @@ Run `revdepcheck::cloud_details(, "curtailment")` for more info * checking examples ... ERROR ``` - Running examples in ‘curtailment-Ex.R’ failed + Running examples in ‘entropart-Ex.R’ failed The error most likely occurred in: - > ### Name: drawDiagramGeneric - > ### Title: drawDiagramGeneric - > ### Aliases: drawDiagramGeneric + > ### Name: Accumulation + > ### Title: Diversity accumulation. + > ### Aliases: DivAC EntAC as.AccumCurve is.AccumCurve autoplot.AccumCurve + > ### plot.AccumCurve > > ### ** Examples > - > go <- cbind(6:8, rep(8,3)) ... - 4. └─ggplot2:::ggplot_build.ggplot(x) - 5. └─layout$setup(data, plot$data, plot$plot_env) - 6. └─ggplot2 (local) setup(..., self = self) - 7. └─self$coord$setup_params(data) - 8. └─ggplot2 (local) setup_params(..., self = self) - 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 10. └─ggplot2:::check_logical(expand) - 11. └─ggplot2:::stop_input_type(...) - 12. └─rlang::abort(message, ..., call = call, arg = arg) + 13. │ └─l$compute_geom_2(d, theme = plot$theme) + 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 15. │ └─self$geom$use_defaults(...) + 16. │ └─ggplot2 (local) use_defaults(..., self = self) + 17. │ └─ggplot2:::check_aesthetics(new_params, nrow(data)) + 18. │ └─vctrs::list_sizes(x) + 19. └─vctrs:::stop_scalar_type(...) + 20. └─vctrs:::stop_vctrs(...) + 21. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ``` -# dabestr - -
- -* Version: 2023.9.12 -* GitHub: https://github.com/ACCLAB/dabestr -* Source code: https://github.com/cran/dabestr -* Date/Publication: 2023-10-13 11:50:06 UTC -* Number of recursive dependencies: 85 - -Run `revdepcheck::cloud_details(, "dabestr")` for more info - -
- -## Newly broken - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘tutorial_deltadelta.Rmd’ + when running code in ‘entropart.Rmd’ ... - > paired_delta2.mean_diff <- load(df, x = Treatment, - + y = Measurement, experiment = Genotype, colour = Rep, delta2 = TRUE, - + idx = list(c(" ..." ... [TRUNCATED] + > Abd18 <- as.AbdVector(N18) - > dabest_plot(paired_delta2.mean_diff, raw_marker_size = 0.5, - + raw_marker_alpha = 0.3) + > autoplot(Abd18, Distribution = "lnorm") - ... - Error: argument is of length zero + When sourcing ‘entropart.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 1st layer. + Caused by error in `list_sizes()`: + ! `x$shape` must be a vector, not a object. Execution halted - ‘datasets.Rmd’ using ‘UTF-8’... OK - ‘plot_aesthetics.Rmd’ using ‘UTF-8’... OK - ‘tutorial_basics.Rmd’ using ‘UTF-8’... OK - ‘tutorial_deltadelta.Rmd’ using ‘UTF-8’... failed - ‘tutorial_minimeta.Rmd’ using ‘UTF-8’... failed - ‘tutorial_proportion_plots.Rmd’ using ‘UTF-8’... OK - ‘tutorial_repeated_measures.Rmd’ using ‘UTF-8’... failed + ‘entropart.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘datasets.Rmd’ using rmarkdown - --- finished re-building ‘datasets.Rmd’ + ... + --- re-building ‘entropart.Rmd’ using rmarkdown + + Quitting from lines 53-55 [PlotN18] (entropart.Rmd) + Error: processing vignette 'entropart.Rmd' failed with diagnostics: + Problem while setting up geom aesthetics. + ℹ Error occurred in the 1st layer. + Caused by error in `list_sizes()`: + ! `x$shape` must be a vector, not a object. + --- failed re-building ‘entropart.Rmd’ + + SUMMARY: processing the following file failed: + ‘entropart.Rmd’ - --- re-building ‘plot_aesthetics.Rmd’ using rmarkdown + Error: Vignette re-building failed. + Execution halted ``` -# DAISIEprep +# epiCleanr
-* Version: 0.4.0 -* GitHub: https://github.com/joshwlambert/DAISIEprep -* Source code: https://github.com/cran/DAISIEprep -* Date/Publication: 2024-04-02 11:30:06 UTC -* Number of recursive dependencies: 149 +* Version: 0.2.0 +* GitHub: https://github.com/truenomad/epiCleanr +* Source code: https://github.com/cran/epiCleanr +* Date/Publication: 2023-09-28 12:20:05 UTC +* Number of recursive dependencies: 129 -Run `revdepcheck::cloud_details(, "DAISIEprep")` for more info +Run `revdepcheck::cloud_details(, "epiCleanr")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(DAISIEprep) - > - > test_check("DAISIEprep") - [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2211 ] - - ══ Skipped tests (14) ══════════════════════════════════════════════════════════ + Running examples in ‘epiCleanr-Ex.R’ failed + The error most likely occurred in: + + > ### Name: handle_outliers + > ### Title: Detect and Handle Outliers in Dataset + > ### Aliases: handle_outliers + > + > ### ** Examples + > + > ... - ── Failure ('test-plot_phylod.R:8:3'): plot_phylod runs silent without error ─── - `plot_phylod(phylod = phylod, node_pies = FALSE)` produced warnings. - ── Failure ('test-plot_phylod.R:13:3'): plot_phylod runs silent without error ── - `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings. - ── Failure ('test-plot_phylod.R:18:3'): plot_phylod runs silent without error ── - `plot_phylod(phylod = phylod, node_pies = TRUE)` produced warnings. - - [ FAIL 4 | WARN 2 | SKIP 14 | PASS 2211 ] - Error: Test failures - Execution halted + 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) + 13. │ └─l$compute_geom_2(d, theme = plot$theme) + 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 15. │ └─self$geom$use_defaults(...) + 16. └─base::.handleSimpleError(...) + 17. └─rlang (local) h(simpleError(msg, call)) + 18. └─handlers[[1L]](cnd) + 19. └─cli::cli_abort(...) + 20. └─rlang::abort(...) + Execution halted + ``` + +## In both + +* checking installed package size ... NOTE + ``` + installed size is 5.6Mb + sub-directories of 1Mb or more: + doc 2.9Mb + help 2.5Mb ``` -# dbmss +# epiphy
-* Version: 2.9-2 -* GitHub: https://github.com/EricMarcon/dbmss -* Source code: https://github.com/cran/dbmss -* Date/Publication: 2024-08-24 11:00:02 UTC -* Number of recursive dependencies: 96 +* Version: 0.5.0 +* GitHub: https://github.com/chgigot/epiphy +* Source code: https://github.com/cran/epiphy +* Date/Publication: 2023-11-16 11:20:10 UTC +* Number of recursive dependencies: 91 -Run `revdepcheck::cloud_details(, "dbmss")` for more info +Run `revdepcheck::cloud_details(, "epiphy")` for more info
@@ -5627,148 +4784,84 @@ Run `revdepcheck::cloud_details(, "dbmss")` for more info * checking examples ... ERROR ``` - Running examples in ‘dbmss-Ex.R’ failed + Running examples in ‘epiphy-Ex.R’ failed The error most likely occurred in: - > ### Name: DEnvelope - > ### Title: Estimation of the confidence envelope of the D function under - > ### its null hypothesis - > ### Aliases: DEnvelope + > ### Name: clump + > ### Title: Regroup observational data into even clumps of individuals. + > ### Aliases: clump clump.intensity > > ### ** Examples > + > my_incidence <- incidence(tomato_tswv$field_1929) ... - > r <- 0:30 - > NumberOfSimulations <- 20 - > Alpha <- .05 - > # Plot the envelope (after normalization by pi.r^2) - > autoplot(DEnvelope(X, r, NumberOfSimulations, Alpha, - + "V. Americana", "Q. Rosea", Intertype = TRUE), ./(pi*r^2) ~ r) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘dbmss.Rmd’ - ... - - > autoplot(paracou16, labelSize = expression("Basal area (" ~ - + cm^2 ~ ")"), labelColor = "Species") - - > autoplot(Mhat(paracou16, ReferenceType = "V. Americana", - + NeighborType = "Q. Rosea"), main = "") - - When sourcing ‘dbmss.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + 18. │ └─ggplot2 (local) setup_params(...) + 19. │ └─ggplot2:::make_summary_fun(...) + 20. │ └─rlang::as_function(fun.data) + 21. │ └─base::get(x, envir = env, mode = "function") + 22. └─base::.handleSimpleError(...) + 23. └─rlang (local) h(simpleError(msg, call)) + 24. └─handlers[[1L]](cnd) + 25. └─cli::cli_abort(...) + 26. └─rlang::abort(...) Execution halted - - ‘dbmss.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘dbmss.Rmd’ using rmarkdown ``` -# deeptime +# episensr
-* Version: 2.0.0 -* GitHub: https://github.com/willgearty/deeptime -* Source code: https://github.com/cran/deeptime -* Date/Publication: 2024-08-19 07:00:43 UTC -* Number of recursive dependencies: 197 +* Version: 1.3.0 +* GitHub: https://github.com/dhaine/episensr +* Source code: https://github.com/cran/episensr +* Date/Publication: 2023-08-30 09:20:05 UTC +* Number of recursive dependencies: 105 -Run `revdepcheck::cloud_details(, "deeptime")` for more info +Run `revdepcheck::cloud_details(, "episensr")` for more info
## Newly broken -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(deeptime) - > - > test_check("deeptime") - Scale for y is already present. - Adding another scale for y, which will replace the existing scale. - Scale for y is already present. - ... - • patterns/geo-pattern2-new.svg - • patterns/scale-fill-geopattern-labels-new.svg - • patterns/scale-fill-geopattern-limits-new.svg - • patterns/scale-fill-geopattern-na-new.svg - • patterns/scale-fill-geopattern-na2-new.svg - • points_range/geom-points-range-aes-new.svg - • points_range/geom-points-range-bg-new.svg - • points_range/geom-points-range-h-new.svg - Error: Test failures - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘coord_geo.Rmd’ + when running code in ‘d_other_sens.Rmd’ ... - + y = n)) + scale_x_reverse("Age (Ma)") + ylab("Coral Genera") + - + coord_geo(xlim = .... [TRUNCATED] + Warning: A numeric `legend.position` argument in `theme()` was deprecated in ggplot2 + 3.5.0. + ℹ Please use the `legend.position.inside` argument of `theme()` instead. - > ggplot(coral_div) + geom_line(aes(x = stage_age, y = n)) + - + scale_x_reverse("Age (Ma)") + ylab("Coral Genera") + coord_geo(dat = "periods", - + .... [TRUNCATED] - - ... - Error: argument is of length zero + When sourcing ‘d_other_sens.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 3rd layer. + Caused by error in `list_sizes()`: + ! `x$label` must be a vector, not an expression vector. Execution halted - ‘coord.Rmd’ using ‘UTF-8’... OK - ‘coord_geo.Rmd’ using ‘UTF-8’... failed - ‘geo.Rmd’ using ‘UTF-8’... OK - ‘ggarrange2.Rmd’ using ‘UTF-8’... OK - ‘phylogenies.Rmd’ using ‘UTF-8’... OK - ‘time.Rmd’ using ‘UTF-8’... failed - ‘traits.Rmd’ using ‘UTF-8’... OK + ‘b_probabilistic.Rmd’ using ‘UTF-8’... OK + ‘c_multiple_bias.Rmd’ using ‘UTF-8’... OK + ‘d_other_sens.Rmd’ using ‘UTF-8’... failed + ‘episensr.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘coord.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.9Mb - sub-directories of 1Mb or more: - R 2.8Mb - doc 1.8Mb - help 1.1Mb + --- re-building ‘b_probabilistic.Rmd’ using rmarkdown ``` -# descriptio +# EQUALSTATS
-* Version: 1.3 -* GitHub: https://github.com/nicolas-robette/descriptio -* Source code: https://github.com/cran/descriptio -* Date/Publication: 2024-03-07 11:00:02 UTC -* Number of recursive dependencies: 98 +* Version: 0.5.0 +* GitHub: NA +* Source code: https://github.com/cran/EQUALSTATS +* Date/Publication: 2024-09-23 08:30:02 UTC +* Number of recursive dependencies: 131 -Run `revdepcheck::cloud_details(, "descriptio")` for more info +Run `revdepcheck::cloud_details(, "EQUALSTATS")` for more info
@@ -5776,20 +4869,26 @@ Run `revdepcheck::cloud_details(, "descriptio")` for more info * checking examples ... ERROR ``` - Running examples in ‘descriptio-Ex.R’ failed + Running examples in ‘EQUALSTATS-Ex.R’ failed The error most likely occurred in: - > ### Name: ggassoc_crosstab - > ### Title: Proportional area plot - > ### Aliases: ggassoc_crosstab - > ### Keywords: multivariate aplot + > ### Name: function.Survival_Analysis + > ### Title: Perform Survival Analysis + > ### Aliases: function.Survival_Analysis > > ### ** Examples > - > data(Movies) - > ggassoc_crosstab(data=Movies, mapping=ggplot2::aes(Genre, Country)) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggassoc_crosstab ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > # Create simulated data #### + ... + > rv$second_menu_choice <- NA + > rv$entry[[1]] <- "Admission to care home" + > rv$entry[[2]] <- "Follow-up" + > rv$entry[[3]] <- "Treatment" + > # Final function #### + > Results <- function.Survival_Analysis(Predefined_lists, rv) + Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = c("{n.risk}", : + argument "risktable_height" is missing, with no default + Calls: function.Survival_Analysis Execution halted ``` @@ -5797,61 +4896,20 @@ Run `revdepcheck::cloud_details(, "descriptio")` for more info * checking Rd cross-references ... NOTE ``` - Packages unavailable to check Rd xrefs: ‘FactoMineR’, ‘vcd’ - ``` - -# directlabels - -
- -* Version: 2024.1.21 -* GitHub: https://github.com/tdhock/directlabels -* Source code: https://github.com/cran/directlabels -* Date/Publication: 2024-01-24 19:20:07 UTC -* Number of recursive dependencies: 82 - -Run `revdepcheck::cloud_details(, "directlabels")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘examples.Rmd’ - ... - Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. - ℹ Please use `linewidth` instead. - `geom_smooth()` using method = 'loess' and formula = 'y ~ x' - - When sourcing ‘examples.R’: - Error: Problem while computing stat. - ℹ Error occurred in the 3rd layer. - Caused by error in `get()`: - ! object 'last.qp' of mode 'function' was not found - Execution halted - - ‘examples.Rmd’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘examples.Rmd’ using knitr + Package unavailable to check Rd xrefs: ‘lmerTest’ ``` -# disto +# errors
-* Version: 0.2.0 -* GitHub: https://github.com/talegari/disto -* Source code: https://github.com/cran/disto -* Date/Publication: 2018-08-02 12:50:02 UTC -* Number of recursive dependencies: 115 +* Version: 0.4.3 +* GitHub: https://github.com/r-quantities/errors +* Source code: https://github.com/cran/errors +* Date/Publication: 2025-01-18 18:10:05 UTC +* Number of recursive dependencies: 68 -Run `revdepcheck::cloud_details(, "disto")` for more info +Run `revdepcheck::cloud_details(, "errors")` for more info
@@ -5859,193 +4917,121 @@ Run `revdepcheck::cloud_details(, "disto")` for more info * checking examples ... ERROR ``` - Running examples in ‘disto-Ex.R’ failed + Running examples in ‘errors-Ex.R’ failed The error most likely occurred in: - > ### Name: plot.disto - > ### Title: Plot a disto object - > ### Aliases: plot.disto + > ### Name: geom_errors + > ### Title: Errorbars for 'errors' objects + > ### Aliases: geom_errors > > ### ** Examples > - > temp <- stats::dist(iris[,1:4]) + > if (requireNamespace("ggplot2", quietly=TRUE)) { ... - > dio <- disto(objectname = "temp") - > plot(dio, type = "heatmap") - > plot(dio, type = "dendrogram") - Warning: The `` argument of `guides()` cannot be `FALSE`. Use "none" instead as - of ggplot2 3.3.4. - ℹ The deprecated feature was likely used in the factoextra package. - Please report the issue at . - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + 20. │ └─self$draw_panel(data, panel_params, coord, width = 0.05, height = 0.05) + 21. │ └─errors (local) draw_panel(...) + 22. │ ├─base::append(...) + 23. │ └─ggplot2::GeomErrorbarh$draw_panel(...) + 24. └─base::.handleSimpleError(...) + 25. └─rlang (local) h(simpleError(msg, call)) + 26. └─handlers[[1L]](cnd) + 27. └─cli::cli_abort(...) + 28. └─rlang::abort(...) Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘vignette_disto.Rmd’ + when running code in ‘rjournal.Rmd’ ... - > plot(dio, type = "dendrogram") - Warning: The `` argument of `guides()` cannot be `FALSE`. Use "none" instead as - of ggplot2 3.3.4. - ℹ The deprecated feature was likely used in the factoextra package. - Please report the issue at . + > print(p, vp = vp1) + Warning: In '<' : boolean operators not defined for 'errors' objects, uncertainty dropped - When sourcing ‘vignette_disto.R’: - Error: argument is of length zero + When sourcing ‘rjournal.R’: + Error: Problem while converting geom to grob. + ℹ Error occurred in the 2nd layer. + Caused by error in `draw_panel()`: + ! unused argument (height = NULL) Execution halted - ‘vignette_disto.Rmd’ using ‘UTF-8’... failed + ‘rjournal.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘vignette_disto.Rmd’ using rmarkdown + --- re-building ‘rjournal.Rmd’ using rmarkdown - Quitting from lines 42-72 [unnamed-chunk-1] (vignette_disto.Rmd) - Error: processing vignette 'vignette_disto.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘vignette_disto.Rmd’ + Quitting from lines 253-272 [plot] (rjournal.Rmd) + Error: processing vignette 'rjournal.Rmd' failed with diagnostics: + Problem while converting geom to grob. + ℹ Error occurred in the 2nd layer. + Caused by error in `draw_panel()`: + ! unused argument (height = NULL) + --- failed re-building ‘rjournal.Rmd’ SUMMARY: processing the following file failed: - ‘vignette_disto.Rmd’ + ‘rjournal.Rmd’ Error: Vignette re-building failed. Execution halted ``` -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘dplyr’ ‘proxy’ - All declared Imports should be used. - ``` - -# distributional - -
- -* Version: 0.4.0 -* GitHub: https://github.com/mitchelloharawild/distributional -* Source code: https://github.com/cran/distributional -* Date/Publication: 2024-02-07 13:30:02 UTC -* Number of recursive dependencies: 64 - -Run `revdepcheck::cloud_details(, "distributional")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘distributional-Ex.R’ failed - The error most likely occurred in: - - > ### Name: dist_truncated - > ### Title: Truncate a distribution - > ### Aliases: dist_truncated - > - > ### ** Examples - > - > dist <- dist_truncated(dist_normal(2,1), lower = 0) - ... - 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) - 13. │ └─l$compute_geom_2(d, theme = plot$theme) - 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) - 15. │ └─self$geom$use_defaults(...) - 16. └─base::.handleSimpleError(...) - 17. └─rlang (local) h(simpleError(msg, call)) - 18. └─handlers[[1L]](cnd) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - Execution halted - ``` - -# dittoViz +# eRTG3D
-* Version: 1.0.1 -* GitHub: https://github.com/dtm2451/dittoViz -* Source code: https://github.com/cran/dittoViz -* Date/Publication: 2024-02-02 00:00:12 UTC -* Number of recursive dependencies: 99 +* Version: 0.7.0 +* GitHub: https://github.com/munterfi/eRTG3D +* Source code: https://github.com/cran/eRTG3D +* Date/Publication: 2022-02-25 12:10:05 UTC +* Number of recursive dependencies: 114 -Run `revdepcheck::cloud_details(, "dittoViz")` for more info +Run `revdepcheck::cloud_details(, "eRTG3D")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘dittoViz-Ex.R’ failed - The error most likely occurred in: - - > ### Name: barPlot - > ### Title: Outputs a stacked bar plot to show the percent composition of - > ### samples, groups, clusters, or other groupings - > ### Aliases: barPlot - > - > ### ** Examples - > - ... - 15 3 D 12 32 0.3750000 - 16 4 D 8 32 0.2500000 - > # through hovering the cursor over the relevant parts of the plot - > if (requireNamespace("plotly", quietly = TRUE)) { - + barPlot(example_df, "clustering", group.by = "groups", - + do.hover = TRUE) - + } - Error in pm[[2]] : subscript out of bounds - Calls: barPlot -> -> ggplotly.ggplot -> gg2list - Execution halted - ``` - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(dittoViz) - Loading required package: ggplot2 - > test_check("dittoViz") - [ FAIL 89 | WARN 2 | SKIP 0 | PASS 63 ] + > library(eRTG3D) + > + > test_check("eRTG3D") + [ FAIL 1 | WARN 3 | SKIP 0 | PASS 103 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ... - 6. └─dittoViz:::.yPlot_add_data_y_direction(...) - 7. └─ggplot2:::`+.gg`(p, do.call(geom_boxplot, boxplot.args)) - 8. └─ggplot2:::add_ggplot(e1, e2, e2name) - 9. ├─ggplot2::ggplot_add(object, p, objectname) - 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 11. └─ggplot2:::new_layer_names(object, names(plot$layers)) + 18. └─base::serialize(data, node$con, xdr = FALSE) - [ FAIL 89 | WARN 2 | SKIP 0 | PASS 63 ] + [ FAIL 1 | WARN 3 | SKIP 0 | PASS 103 ] Error: Test failures + In addition: Warning messages: + 1: In for (i in seq_len(differences)) r <- r[i1] - r[-length(r):-(length(r) - : + closing unused connection 7 (<-localhost:11153) + 2: In for (i in seq_len(differences)) r <- r[i1] - r[-length(r):-(length(r) - : + closing unused connection 6 (<-localhost:11153) Execution halted ``` -# dotwhisker +# esci
-* Version: 0.8.2 -* GitHub: https://github.com/fsolt/dotwhisker -* Source code: https://github.com/cran/dotwhisker -* Date/Publication: 2024-06-07 12:20:06 UTC -* Number of recursive dependencies: 72 +* Version: 1.0.6 +* GitHub: https://github.com/rcalinjageman/esci +* Source code: https://github.com/cran/esci +* Date/Publication: 2024-12-21 16:00:02 UTC +* Number of recursive dependencies: 92 -Run `revdepcheck::cloud_details(, "dotwhisker")` for more info +Run `revdepcheck::cloud_details(, "esci")` for more info
@@ -6053,105 +5039,74 @@ Run `revdepcheck::cloud_details(, "dotwhisker")` for more info * checking examples ... ERROR ``` - Running examples in ‘dotwhisker-Ex.R’ failed + Running examples in ‘esci-Ex.R’ failed The error most likely occurred in: - > ### Name: small_multiple - > ### Title: Generate a 'Small Multiple' Plot of Regression Results - > ### Aliases: small_multiple + > ### Name: estimate_mdiff_2x2_between + > ### Title: Estimates for a 2x2 between-subjects design with a continuous + > ### outcome variable + > ### Aliases: estimate_mdiff_2x2_between > > ### ** Examples > - > library(broom) ... - + m[[i]] <- update(m[[i-1]], paste(". ~ . +", ordered_vars[i])) - + m123456_df <- rbind(m123456_df, m[[i]] %>% tidy %>% by_2sd(mtcars) %>% - + mutate(model = paste("Model", i))) - + } - > - > # Generate a 'small multiple' plot - > small_multiple(m123456_df) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: small_multiple ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + + estimates_from_summary$interaction, + + effect_size = "mean" + + ) + Warning: Using size for a discrete variable is not advised. + Warning: Using alpha for a discrete variable is not advised. + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, + Calls: ... -> -> compute_geom_2 -> Execution halted ``` -* checking running R code from vignettes ... ERROR +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘dotwhisker-vignette.Rmd’ - ... - + wt = "Weight", cyl = "Cylinders", disp = "Displacement", - + .... [TRUNCATED] - - > small_multiple(m123456_df) + theme_bw(base_size = 4) + - + ylab("Coefficient Estimate") + geom_hline(yintercept = 0, - + colour = "grey60", li .... [TRUNCATED] - + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(esci) + > + > test_check("esci") + [1] "WARNING: ratio-scale scores cannot be negative" + [1] "WARNING: ratio-scale scores cannot be negative" + [1] "WARNING: ratio-scale scores cannot be negative" ... - - > small_multiple(results_df, show_stats = FALSE) + scale_x_discrete(limits = model_names) + - + theme_bw() + ylab("Coefficient Estimate") + geom_hl .... [TRUNCATED] - - When sourcing ‘kl2007_examples.R’: - Error: argument is of length zero - Execution halted - - ‘dotwhisker-vignette.Rmd’ using ‘UTF-8’... failed - ‘kl2007_examples.Rmd’ using ‘ASCII’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘dotwhisker-vignette.Rmd’ using rmarkdown + 17. │ └─self$geom$use_defaults(...) + 18. └─base::.handleSimpleError(...) + 19. └─rlang (local) h(simpleError(msg, call)) + 20. └─handlers[[1L]](cnd) + 21. └─cli::cli_abort(...) + 22. └─rlang::abort(...) + + [ FAIL 3 | WARN 0 | SKIP 52 | PASS 2889 ] + Error: Test failures + Execution halted ``` -# DRomics +# evalITR
-* Version: 2.5-2 -* GitHub: https://github.com/aursiber/DRomics -* Source code: https://github.com/cran/DRomics -* Date/Publication: 2024-01-31 09:30:02 UTC -* Number of recursive dependencies: 153 +* Version: 1.0.0 +* GitHub: https://github.com/MichaelLLi/evalITR +* Source code: https://github.com/cran/evalITR +* Date/Publication: 2023-08-25 23:10:06 UTC +* Number of recursive dependencies: 166 -Run `revdepcheck::cloud_details(, "DRomics")` for more info +Run `revdepcheck::cloud_details(, "evalITR")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘DRomics-Ex.R’ failed - The error most likely occurred in: - - > ### Name: PCAdataplot - > ### Title: Performs and plots the results of a PCA on omic data - > ### Aliases: PCAdataplot - > - > ### ** Examples - > - > - ... - Number of items: 100 - Identifiers of the first 20 items: - [1] "1" "2" "3" "4" "5.1" "6.1" "7.1" "8.1" "9.1" "10.1" - [11] "11.1" "12.1" "13.1" "14.1" "15" "16.1" "17.1" "18.1" "19.1" "20.1" - Data were normalized between arrays using the following method: cyclicloess - > plot(o) - > PCAdataplot(o) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: PCAdataplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘DRomics_vignette.Rmd’ using rmarkdown + --- re-building ‘cv_multiple_alg.Rmd’ using rmarkdown ``` ## In both @@ -6159,40 +5114,46 @@ Run `revdepcheck::cloud_details(, "DRomics")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘DRomics_vignette.Rmd’ + when running code in ‘cv_multiple_alg.Rmd’ ... - [16] "ENSDARG00000100660" "ENSDARG00000113107" "ENSDARG00000099787" - [19] "ENSDARG00000112451" "ENSDARG00000070546" - Data were normalized with respect to library size and tranformed using - the following method: rlog + intersect, setdiff, setequal, union - > PCAdataplot(o, batch = zebraf$batch) + theme_bw() - When sourcing ‘DRomics_vignette.R’: - Error: argument is of length zero + > load("../data/star.rda") + Warning in readChar(con, 5L, useBytes = TRUE) : + cannot open compressed file '../data/star.rda', probable reason 'No such file or directory' + + ... Execution halted - ‘DRomics_vignette.Rmd’ using ‘UTF-8’... failed + ‘cv_multiple_alg.Rmd’ using ‘UTF-8’... failed + ‘cv_single_alg.Rmd’ using ‘UTF-8’... failed + ‘install.Rmd’ using ‘UTF-8’... OK + ‘paper_alg1.Rmd’ using ‘UTF-8’... OK + ‘sample_split.Rmd’ using ‘UTF-8’... failed + ‘sample_split_caret.Rmd’ using ‘UTF-8’... failed + ‘user_itr.Rmd’ using ‘UTF-8’... failed + ‘user_itr_algs.Rmd’ using ‘UTF-8’... failed ``` -* checking installed package size ... NOTE +* checking dependencies in R code ... NOTE ``` - installed size is 6.2Mb - sub-directories of 1Mb or more: - doc 2.9Mb + Namespaces in Imports field not imported from: + ‘forcats’ ‘rqPen’ ‘utils’ + All declared Imports should be used. ``` -# dtwclust +# eventstudyr
-* Version: 6.0.0 -* GitHub: https://github.com/asardaes/dtwclust -* Source code: https://github.com/cran/dtwclust -* Date/Publication: 2024-07-23 08:50:02 UTC -* Number of recursive dependencies: 96 +* Version: 1.1.3 +* GitHub: https://github.com/JMSLab/eventstudyr +* Source code: https://github.com/cran/eventstudyr +* Date/Publication: 2024-03-04 15:00:02 UTC +* Number of recursive dependencies: 100 -Run `revdepcheck::cloud_details(, "dtwclust")` for more info +Run `revdepcheck::cloud_details(, "eventstudyr")` for more info
@@ -6203,62 +5164,37 @@ Run `revdepcheck::cloud_details(, "dtwclust")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(dtwclust) - Loading required package: proxy - - Attaching package: 'proxy' - - The following objects are masked from 'package:stats': - + > library(testthat) + > library(eventstudyr) + > + > test_check("eventstudyr") + Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. + Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. + Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. ... - 7. └─dtwclust (local) .local(x, y = y, ...) - 8. └─ggplot2:::`+.gg`(gg, do_call(ggrepel::geom_label_repel, labels)) - 9. └─ggplot2:::add_ggplot(e1, e2, e2name) - 10. ├─ggplot2::ggplot_add(object, p, objectname) - 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 12. └─ggplot2:::new_layer_names(object, names(plot$layers)) + `expected` is a character vector ('ci_lower') + ── Failure ('test-EventStudyPlot.R:128:5'): confidence intervals are appropriately present or absent ── + p_ci$labels$ymax (`actual`) not equal to "ci_upper" (`expected`). - [ FAIL 1 | WARN 0 | SKIP 15 | PASS 1930 ] + `actual` is NULL + `expected` is a character vector ('ci_upper') + + [ FAIL 6 | WARN 0 | SKIP 0 | PASS 258 ] Error: Test failures Execution halted ``` -## In both - -* checking re-building of vignette outputs ... WARNING - ``` - Error(s) in re-building vignettes: - --- re-building ‘parallelization-considerations.Rmd’ using rmarkdown_notangle - --- finished re-building ‘parallelization-considerations.Rmd’ - - --- re-building ‘timing-experiments.Rmd’ using rmarkdown_notangle - ``` - -* checking installed package size ... NOTE - ``` - installed size is 15.5Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 2.1Mb - libs 11.1Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# duke +# expirest
-* Version: 0.0.3 -* GitHub: https://github.com/aidangildea/duke -* Source code: https://github.com/cran/duke -* Date/Publication: 2023-12-15 21:50:16 UTC -* Number of recursive dependencies: 89 +* Version: 0.1.6 +* GitHub: https://github.com/piusdahinden/expirest +* Source code: https://github.com/cran/expirest +* Date/Publication: 2024-03-25 16:30:02 UTC +* Number of recursive dependencies: 45 -Run `revdepcheck::cloud_details(, "duke")` for more info +Run `revdepcheck::cloud_details(, "expirest")` for more info
@@ -6269,115 +5205,37 @@ Run `revdepcheck::cloud_details(, "duke")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - 2. │ └─testthat:::expect_condition_matching(...) - 3. │ └─testthat:::quasi_capture(...) - 4. │ ├─testthat (local) .capture(...) - 5. │ │ └─base::withCallingHandlers(...) - 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) - 7. └─testthat::expect_equal(ggplot2::layer_data(p3)$fill[9], "#B5B5B5") + > library(testthat) + > library(expirest) + > + > test_check("expirest") + [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ] - [ FAIL 1 | WARN 9 | SKIP 0 | PASS 27 ] + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + ── Failure ('test-plot_expirest_wisle.R:260:3'): plot_expirest_wisle_succeeds ── + tmp4l2[["Graph"]]$labels has length 0, not length 8. + ── Failure ('test-plot_expirest_wisle.R:264:3'): plot_expirest_wisle_succeeds ── + tmp4b1[["Graph"]]$labels has length 0, not length 5. + ── Failure ('test-plot_expirest_wisle.R:269:3'): plot_expirest_wisle_succeeds ── + tmp4b2[["Graph"]]$labels has length 0, not length 5. + + [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ] Error: Test failures Execution halted ``` -# easysurv - -
- -* Version: 2.0.1 -* GitHub: https://github.com/Maple-Health-Group/easysurv -* Source code: https://github.com/cran/easysurv -* Date/Publication: 2024-06-21 10:30:06 UTC -* Number of recursive dependencies: 156 - -Run `revdepcheck::cloud_details(, "easysurv")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘easysurv-Ex.R’ failed - The error most likely occurred in: - - > ### Name: get_km - > ### Title: Generate Kaplan-Meier estimates - > ### Aliases: get_km - > - > ### ** Examples - > - > km_results <- get_km( - ... - Poor Poor 228 145 3.101736 0.1772520 2.183562 1.978082 2.619178 - Median follow-up - Good 4.452055 - Medium 4.712329 - Poor 4.115068 - - Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = "{n.risk}", : - argument "risktable_height" is missing, with no default - Calls: ... ggsurvfit_build -> -> .construct_risktable - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘easysurv.Rmd’ - ... - Median follow-up - Tab+Vis 2.217659 - Tab->Vis 2.220397 - Tab 2.308008 - Vis 2.198494 - - - When sourcing ‘easysurv.R’: - Error: argument "risktable_height" is missing, with no default - Execution halted - - ‘easysurv.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘easysurv.Rmd’ using rmarkdown - - Quitting from lines 149-157 [km] (easysurv.Rmd) - Error: processing vignette 'easysurv.Rmd' failed with diagnostics: - argument "risktable_height" is missing, with no default - --- failed re-building ‘easysurv.Rmd’ - - SUMMARY: processing the following file failed: - ‘easysurv.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# EGAnet +# explainer
-* Version: 2.0.7 -* GitHub: https://github.com/hfgolino/EGAnet -* Source code: https://github.com/cran/EGAnet -* Date/Publication: 2024-09-02 20:00:01 UTC -* Number of recursive dependencies: 190 +* Version: 1.0.2 +* GitHub: https://github.com/PERSIMUNE/explainer +* Source code: https://github.com/cran/explainer +* Date/Publication: 2024-09-30 17:30:02 UTC +* Number of recursive dependencies: 186 -Run `revdepcheck::cloud_details(, "EGAnet")` for more info +Run `revdepcheck::cloud_details(, "explainer")` for more info
@@ -6385,50 +5243,48 @@ Run `revdepcheck::cloud_details(, "EGAnet")` for more info * checking examples ... ERROR ``` - Running examples in ‘EGAnet-Ex.R’ failed + Running examples in ‘explainer-Ex.R’ failed The error most likely occurred in: - > ### Name: dimensionStability - > ### Title: Dimension Stability Statistics from 'bootEGA' - > ### Aliases: dimensionStability + > ### Name: eDecisionCurve + > ### Title: Decision Curve Plot + > ### Aliases: eDecisionCurve > > ### ** Examples > - > # Load data + > library("explainer") ... - 16. │ └─e1 %+% e2 - 17. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 18. │ ├─ggplot2::ggplot_add(object, p, objectname) - 19. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 20. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 21. └─base::.handleSimpleError(...) - 22. └─purrr (local) h(simpleError(msg, call)) - 23. └─cli::cli_abort(...) - 24. └─rlang::abort(...) + > mylrn$train(maintask, splits$train) + > myplot <- eDecisionCurve( + + task = maintask, + + trained_model = mylrn, + + splits = splits, + + seed = seed + + ) + Error in pm[[2]] : subscript out of bounds + Calls: eDecisionCurve -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` ## In both -* checking installed package size ... NOTE +* checking dependencies in R code ... NOTE ``` - installed size is 5.6Mb - sub-directories of 1Mb or more: - R 1.5Mb - data 3.5Mb + Namespace in Imports field not imported from: ‘ggpmisc’ + All declared Imports should be used. ``` -# EGM +# ezEDA
-* Version: 0.1.0 -* GitHub: https://github.com/shah-in-boots/EGM -* Source code: https://github.com/cran/EGM -* Date/Publication: 2024-05-23 16:10:05 UTC -* Number of recursive dependencies: 77 +* Version: 0.1.1 +* GitHub: https://github.com/kviswana/ezEDA +* Source code: https://github.com/cran/ezEDA +* Date/Publication: 2021-06-29 04:40:10 UTC +* Number of recursive dependencies: 79 -Run `revdepcheck::cloud_details(, "EGM")` for more info +Run `revdepcheck::cloud_details(, "ezEDA")` for more info
@@ -6440,168 +5296,84 @@ Run `revdepcheck::cloud_details(, "EGM")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(EGM) - Loading required package: vctrs - Loading required package: data.table - > EGM::set_wfdb_path("/usr/local/bin") + > library(ezEDA) > - > test_check("EGM") - ... - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-ggm.R:63:2'): theming works ────────────────────────────────── - g$labels$x (`actual`) not equal to "sample" (`expected`). + > test_check("ezEDA") + [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ] - `actual` is NULL - `expected` is a character vector ('sample') + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + ── Error ('test_two_measures_relationship.R:19:3'): y axis is labeled 'hwy' ──── + Error in `expect_match(p$labels$y, "hwy")`: is.character(act$val) is not TRUE + Backtrace: + ▆ + 1. └─testthat::expect_match(p$labels$y, "hwy") at test_two_measures_relationship.R:19:3 + 2. └─base::stopifnot(is.character(act$val)) - [ FAIL 1 | WARN 0 | SKIP 19 | PASS 43 ] + [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ] Error: Test failures Execution halted ``` -# emmeans +# fable.prophet
-* Version: 1.10.4 -* GitHub: https://github.com/rvlenth/emmeans -* Source code: https://github.com/cran/emmeans -* Date/Publication: 2024-08-21 03:00:01 UTC -* Number of recursive dependencies: 159 +* Version: 0.1.0 +* GitHub: https://github.com/mitchelloharawild/fable.prophet +* Source code: https://github.com/cran/fable.prophet +* Date/Publication: 2020-08-20 09:30:03 UTC +* Number of recursive dependencies: 113 -Run `revdepcheck::cloud_details(, "emmeans")` for more info +Run `revdepcheck::cloud_details(, "fable.prophet")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘emmeans-Ex.R’ failed - The error most likely occurred in: - - > ### Name: auto.noise - > ### Title: Auto Pollution Filter Noise - > ### Aliases: auto.noise - > ### Keywords: datasets - > - > ### ** Examples - > - > # (Based on belief that noise/10 is in decibel units) - > noise.lm <- lm(noise/10 ~ size * type * side, data = auto.noise) - > - > # Interaction plot of predictions - > emmip(noise.lm, type ~ size | side) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: emmip ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘basics.Rmd’ + when running code in ‘intro.Rmd’ ... - 'emmGrid' object with variables: - source = fish, soy, skim - percent = 9, 12, 15, 18 - Transformation: “inverse” + 9 Domestic mdl 2019 Dec sample[5000] 5335490. + 10 Domestic mdl 2020 Jan sample[5000] 4889716. + # ℹ 62 more rows - > emmip(RG4, source ~ percent, style = "factor") + > fc %>% autoplot(lax_passengers) - ... - ‘messy-data.Rmd’ using ‘UTF-8’... failed - ‘models.Rmd’ using ‘UTF-8’... OK - ‘predictions.Rmd’ using ‘UTF-8’... failed - ‘re-engineering-clds.rmd’ using ‘UTF-8’... OK - ‘sophisticated.Rmd’ using ‘UTF-8’... failed - ‘transformations.Rmd’ using ‘UTF-8’... failed - ‘utilities.Rmd’ using ‘UTF-8’... OK - ‘vignette-topics.Rmd’ using ‘UTF-8’... OK - ‘xplanations.Rmd’ using ‘UTF-8’... failed - ‘xtending.Rmd’ using ‘UTF-8’... OK - ``` - -* checking package dependencies ... NOTE - ``` - Packages which this enhances but not available for checking: - 'CARBayes', 'coxme', 'gee', 'geepack', 'MCMCglmm', 'MCMCpack', - 'mice', 'pscl', 'rstanarm', 'sommer' + When sourcing ‘intro.R’: + Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, N + Execution halted + + ‘intro.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘AQuickStart.Rmd’ using rmarkdown - --- finished re-building ‘AQuickStart.Rmd’ - - --- re-building ‘FAQs.Rmd’ using rmarkdown - --- finished re-building ‘FAQs.Rmd’ - - --- re-building ‘basics.Rmd’ using rmarkdown - - Quitting from lines 260-262 [unnamed-chunk-13] (basics.Rmd) - Error: processing vignette 'basics.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘basics.Rmd’ - - --- re-building ‘comparisons.Rmd’ using rmarkdown + --- re-building ‘intro.Rmd’ using rmarkdown ``` -# EMMIXmfa - -
- -* Version: 2.0.14 -* GitHub: https://github.com/suren-rathnayake/EMMIXmfa -* Source code: https://github.com/cran/EMMIXmfa -* Date/Publication: 2024-01-25 20:30:02 UTC -* Number of recursive dependencies: 59 - -Run `revdepcheck::cloud_details(, "EMMIXmfa")` for more info - -
- -## Newly broken +## In both -* checking examples ... ERROR +* checking LazyData ... NOTE ``` - Running examples in ‘EMMIXmfa-Ex.R’ failed - The error most likely occurred in: - - > ### Name: factor_scores - > ### Title: Computes Factor Scores - > ### Aliases: factor_scores factor_scores.mcfa factor_scores.mctfa - > ### plot.emmix - > ### Keywords: cluster multivariate models - > - > ### ** Examples - ... - > Y <- iris[-c(sel_subset), -5] - > Y <- as.matrix(Y) - > clust <- predict(model, Y) - > - > fa_scores <- factor_scores(model, Y) - > # Visualizing new data in factor space - > plot_factors(fa_scores, type = "Umean", clust = clust) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_factors ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + 'LazyData' is specified without a 'data' directory ``` -# entropart +# fabletools
-* Version: 1.6-15 -* GitHub: https://github.com/EricMarcon/entropart -* Source code: https://github.com/cran/entropart -* Date/Publication: 2024-08-26 19:30:09 UTC -* Number of recursive dependencies: 125 +* Version: 0.5.0 +* GitHub: https://github.com/tidyverts/fabletools +* Source code: https://github.com/cran/fabletools +* Date/Publication: 2024-09-17 07:30:02 UTC +* Number of recursive dependencies: 107 -Run `revdepcheck::cloud_details(, "entropart")` for more info +Run `revdepcheck::cloud_details(, "fabletools")` for more info
@@ -6609,183 +5381,198 @@ Run `revdepcheck::cloud_details(, "entropart")` for more info * checking examples ... ERROR ``` - Running examples in ‘entropart-Ex.R’ failed + Running examples in ‘fabletools-Ex.R’ failed The error most likely occurred in: - > ### Name: Accumulation - > ### Title: Diversity accumulation. - > ### Aliases: DivAC EntAC as.AccumCurve is.AccumCurve autoplot.AccumCurve - > ### plot.AccumCurve + > ### Name: autoplot.fbl_ts + > ### Title: Plot a set of forecasts + > ### Aliases: autoplot.fbl_ts autolayer.fbl_ts > > ### ** Examples > + > ## Don't show: ... - 11. │ └─base::withCallingHandlers(...) - 12. └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) - 13. └─l$compute_geom_2(d, theme = plot$theme) - 14. └─ggplot2 (local) compute_geom_2(..., self = self) - 15. └─self$geom$use_defaults(...) - 16. └─ggplot2 (local) use_defaults(..., self = self) - 17. └─ggplot2:::check_aesthetics(new_params, nrow(data)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) + > library(fable) + > library(tsibbledata) + > fc <- aus_production %>% model(ets = ETS(log(Beer) ~ error("M") + trend("Ad") + + + season("A"))) %>% forecast(h = "3 years") + > fc %>% autoplot(aus_production) + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, + Calls: ... -> -> compute_geom_2 -> Execution halted ``` -* checking running R code from vignettes ... ERROR +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘entropart.Rmd’ - ... - - > autoplot(Abd18, Distribution = "lnorm") - - When sourcing ‘entropart.R’: - Error: Problem while setting up geom aesthetics. - ℹ Error occurred in the 1st layer. - Caused by error in `check_aesthetics()`: - ! Aesthetics must be either length 1 or the same as the data (149). - ✖ Fix the following mappings: `shape`, `colour`, and `size`. - Execution halted - - ‘entropart.Rmd’ using ‘UTF-8’... failed + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(dplyr) + + Attaching package: 'dplyr' + + The following object is masked from 'package:testthat': + + ... + 28. └─ggplot2 (local) compute_geom_2(..., self = self) + 29. └─self$geom$use_defaults(...) + ── Failure ('test-graphics.R:327:3'): autoplot_dcmp_ts() ─────────────────────── + `print(p)` produced warnings. + ── Failure ('test-graphics.R:346:3'): autoplot_dcmp_ts() ─────────────────────── + `print(p)` produced warnings. + + [ FAIL 4 | WARN 5 | SKIP 1 | PASS 266 ] + Error: Test failures + Execution halted ``` -* checking re-building of vignette outputs ... NOTE +# fairmodels + +
+ +* Version: 1.2.1 +* GitHub: https://github.com/ModelOriented/fairmodels +* Source code: https://github.com/cran/fairmodels +* Date/Publication: 2022-08-23 19:50:06 UTC +* Number of recursive dependencies: 86 + +Run `revdepcheck::cloud_details(, "fairmodels")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘entropart.Rmd’ using rmarkdown - - Quitting from lines 53-55 [PlotN18] (entropart.Rmd) - Error: processing vignette 'entropart.Rmd' failed with diagnostics: - Problem while setting up geom aesthetics. - ℹ Error occurred in the 1st layer. - Caused by error in `check_aesthetics()`: - ! Aesthetics must be either length 1 or the same as the data (149). - ✖ Fix the following mappings: `shape`, `colour`, and `size`. - --- failed re-building ‘entropart.Rmd’ - - SUMMARY: processing the following file failed: - ‘entropart.Rmd’ - - Error: Vignette re-building failed. - Execution halted + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(fairmodels) + > + > + > test_check("fairmodels") + Welcome to DALEX (version: 2.4.3). + Find examples and detailed introduction at: http://ema.drwhy.ai/ + ... + [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test_plot_density.R:14:3'): Test plot_density ───────────────────── + plt$labels$x not equal to "probability". + target is NULL, current is character + + [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ] + Error: Test failures + Execution halted ``` -# EnvStats +# fddm
-* Version: 3.0.0 -* GitHub: https://github.com/alexkowa/EnvStats -* Source code: https://github.com/cran/EnvStats -* Date/Publication: 2024-08-24 23:10:05 UTC -* Number of recursive dependencies: 79 +* Version: 1.0-2 +* GitHub: https://github.com/rtdists/fddm +* Source code: https://github.com/cran/fddm +* Date/Publication: 2024-07-02 16:00:07 UTC +* Number of recursive dependencies: 92 -Run `revdepcheck::cloud_details(, "EnvStats")` for more info +Run `revdepcheck::cloud_details(, "fddm")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘EnvStats-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘benchmark.Rmd’ + ... + > mi <- min(bm_vec[, -seq_len(t_idx)]) + + > ma <- max(bm_vec[, (t_idx + 1):(ncol(bm_vec) - 4)]) + + > ggplot(mbm_vec, aes(x = factor(FuncName, levels = Names_vec), + + y = time, color = factor(FuncName, levels = Names_vec), fill = factor(FuncName, .... [TRUNCATED] - > ### Name: geom_stripchart - > ### Title: 1-D Scatter Plots with Confidence Intervals Using ggplot2 - > ### Aliases: geom_stripchart - > ### Keywords: hplot htest - > - > ### ** Examples - > ... - > - > p + geom_stripchart() + - + labs(x = "Number of Cylinders", y = "Miles per Gallon") - Warning: The `fun.y` argument of `stat_summary()` is deprecated as of ggplot2 3.3.0. - ℹ Please use the `fun` argument instead. - ℹ The deprecated feature was likely used in the EnvStats package. - Please report the issue to the authors. - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names + + When sourcing ‘pfddm.R’: + Error: Not a unit object Execution halted + + ‘benchmark.Rmd’ using ‘UTF-8’... failed + ‘example.Rmd’ using ‘UTF-8’... OK + ‘math.Rmd’ using ‘UTF-8’... OK + ‘pfddm.Rmd’ using ‘UTF-8’... failed + ‘validity.Rmd’ using ‘UTF-8’... OK ``` ## In both * checking installed package size ... NOTE ``` - installed size is 7.8Mb + installed size is 16.6Mb sub-directories of 1Mb or more: - R 3.5Mb - help 3.5Mb + doc 1.6Mb + libs 14.1Mb ``` -# epiCleanr +# feasts
-* Version: 0.2.0 -* GitHub: https://github.com/truenomad/epiCleanr -* Source code: https://github.com/cran/epiCleanr -* Date/Publication: 2023-09-28 12:20:05 UTC -* Number of recursive dependencies: 130 +* Version: 0.4.1 +* GitHub: https://github.com/tidyverts/feasts +* Source code: https://github.com/cran/feasts +* Date/Publication: 2024-09-25 23:40:02 UTC +* Number of recursive dependencies: 100 -Run `revdepcheck::cloud_details(, "epiCleanr")` for more info +Run `revdepcheck::cloud_details(, "feasts")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘epiCleanr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: handle_outliers - > ### Title: Detect and Handle Outliers in Dataset - > ### Aliases: handle_outliers - > - > ### ** Examples - > - > + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(feasts) + Loading required package: fabletools + > + > test_check("feasts") + [ FAIL 2 | WARN 1 | SKIP 0 | PASS 100 ] + ... - 12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) - 13. │ └─l$compute_geom_2(d, theme = plot$theme) - 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) - 15. │ └─self$geom$use_defaults(...) - 16. └─base::.handleSimpleError(...) - 17. └─rlang (local) h(simpleError(msg, call)) - 18. └─handlers[[1L]](cnd) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.6Mb - sub-directories of 1Mb or more: - doc 2.9Mb - help 2.5Mb + ── Error ('test-graphics.R:192:3'): gg_tsdisplay() plots ─────────────────────── + Error in `p + ggplot2::labs(x = "x", y = "y", title = "title")`: non-numeric argument to binary operator + ── Failure ('test-graphics.R:273:3'): gg_arma() plots ────────────────────────── + p_built$plot$labels[c("x", "y")] not equivalent to list(x = "Re(1/root)", y = "Im(1/root)"). + Component "x": 1 string mismatch + Component "y": 1 string mismatch + + [ FAIL 2 | WARN 1 | SKIP 0 | PASS 100 ] + Error: Test failures + Execution halted ``` -# epiphy +# ffp
-* Version: 0.5.0 -* GitHub: https://github.com/chgigot/epiphy -* Source code: https://github.com/cran/epiphy -* Date/Publication: 2023-11-16 11:20:10 UTC -* Number of recursive dependencies: 91 +* Version: 0.2.2 +* GitHub: https://github.com/Reckziegel/FFP +* Source code: https://github.com/cran/ffp +* Date/Publication: 2022-09-29 15:10:06 UTC +* Number of recursive dependencies: 106 -Run `revdepcheck::cloud_details(, "epiphy")` for more info +Run `revdepcheck::cloud_details(, "ffp")` for more info
@@ -6793,40 +5580,37 @@ Run `revdepcheck::cloud_details(, "epiphy")` for more info * checking examples ... ERROR ``` - Running examples in ‘epiphy-Ex.R’ failed + Running examples in ‘ffp-Ex.R’ failed The error most likely occurred in: - > ### Name: clump - > ### Title: Regroup observational data into even clumps of individuals. - > ### Aliases: clump clump.intensity + > ### Name: scenario_density + > ### Title: Plot Scenarios + > ### Aliases: scenario_density scenario_histogram > > ### ** Examples > - > my_incidence <- incidence(tomato_tswv$field_1929) - ... - 18. │ └─ggplot2 (local) setup_params(...) - 19. │ └─ggplot2:::make_summary_fun(...) - 20. │ └─rlang::as_function(fun.data) - 21. │ └─base::get(x, envir = env, mode = "function") - 22. └─base::.handleSimpleError(...) - 23. └─rlang (local) h(simpleError(msg, call)) - 24. └─handlers[[1L]](cnd) - 25. └─cli::cli_abort(...) - 26. └─rlang::abort(...) + > x <- diff(log(EuStockMarkets))[, 1] + > p <- exp_decay(x, 0.005) + > + > scenario_density(x, p, 500) + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NU + Calls: ... -> -> compute_geom_2 -> Execution halted ``` -# EQUALSTATS +# fgeo.plot
-* Version: 0.4.0 -* GitHub: NA -* Source code: https://github.com/cran/EQUALSTATS -* Date/Publication: 2024-09-06 16:10:15 UTC -* Number of recursive dependencies: 120 +* Version: 1.1.11 +* GitHub: https://github.com/forestgeo/fgeo.plot +* Source code: https://github.com/cran/fgeo.plot +* Date/Publication: 2022-09-03 18:30:02 UTC +* Number of recursive dependencies: 99 -Run `revdepcheck::cloud_details(, "EQUALSTATS")` for more info +Run `revdepcheck::cloud_details(, "fgeo.plot")` for more info
@@ -6834,47 +5618,65 @@ Run `revdepcheck::cloud_details(, "EQUALSTATS")` for more info * checking examples ... ERROR ``` - Running examples in ‘EQUALSTATS-Ex.R’ failed + Running examples in ‘fgeo.plot-Ex.R’ failed The error most likely occurred in: - > ### Name: function.Survival_Analysis - > ### Title: Perform Survival Analysis - > ### Aliases: function.Survival_Analysis + > ### Name: autoplot_by_species.sp_elev + > ### Title: List plots of species distribution and topography (good for pdf + > ### output). + > ### Aliases: autoplot_by_species.sp_elev autoplot_by_species.sp > > ### ** Examples > - > # Create simulated data #### ... - > rv$second_menu_choice <- NA - > rv$entry[[1]] <- "Admission to care home" - > rv$entry[[2]] <- "Follow-up" - > rv$entry[[3]] <- "Treatment" - > # Final function #### - > Results <- function.Survival_Analysis(Predefined_lists, rv) - Error in .construct_risktable(x, geom_blank.times = NULL, geom_blank.risktable_stats = c("{n.risk}", : - argument "risktable_height" is missing, with no default - Calls: function.Survival_Analysis + > + > # Species and elevation (optional) --------------------------------------- + > + > # Species and elevation + > elevation <- fgeo.x::elevation + > autoplot_by_species(sp_elev(census, elevation)) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "blue", high = "red") + Calls: autoplot_by_species ... best_elev_legend -> add_elevation_contours -> scale_colour_continuous Execution halted ``` -## In both - -* checking Rd cross-references ... NOTE +* checking tests ... ERROR ``` - Package unavailable to check Rd xrefs: ‘lmerTest’ + Running ‘spelling.R’ + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(fgeo.plot) + > + > test_check("fgeo.plot") + [ FAIL 6 | WARN 5 | SKIP 0 | PASS 114 ] + + ... + 6. ├─fgeo.plot:::plot_elev(elevation, xlim = 0) + 7. │ └─fgeo.plot:::map_pure_elev(...) + 8. │ └─... %>% ... + 9. ├─fgeo.plot:::best_elev_legend(., hide_color_legend = hide_color_legend) + 10. └─fgeo.plot:::add_elevation_contours(...) + 11. └─ggplot2::scale_colour_continuous(low = low, high = high) + + [ FAIL 6 | WARN 5 | SKIP 0 | PASS 114 ] + Error: Test failures + Execution halted ``` -# ergm.multi +# fido
-* Version: 0.2.1 -* GitHub: https://github.com/statnet/ergm.multi -* Source code: https://github.com/cran/ergm.multi -* Date/Publication: 2024-02-20 23:20:05 UTC -* Number of recursive dependencies: 82 +* Version: 1.1.1 +* GitHub: https://github.com/jsilve24/fido +* Source code: https://github.com/cran/fido +* Date/Publication: 2024-06-05 21:30:06 UTC +* Number of recursive dependencies: 133 -Run `revdepcheck::cloud_details(, "ergm.multi")` for more info +Run `revdepcheck::cloud_details(, "fido")` for more info
@@ -6882,143 +5684,183 @@ Run `revdepcheck::cloud_details(, "ergm.multi")` for more info * checking examples ... ERROR ``` - Running examples in ‘ergm.multi-Ex.R’ failed + Running examples in ‘fido-Ex.R’ failed The error most likely occurred in: - > ### Name: gofN - > ### Title: Linear model diagnostics for multinetwork linear models - > ### Aliases: gofN [.gofN augment.gofN summary.gofN + > ### Name: plot.pibblefit + > ### Title: Plot Summaries of Posterior Distribution of pibblefit Parameters + > ### Aliases: plot.pibblefit > > ### ** Examples > - > data(samplk) - ... - > - > ### If 'ggplot2' and 'ggrepel' are installed, illustrate the autoplot() method. - > if(require("ggplot2") && requireNamespace("ggrepel")){ - + autoplot(fit.gof) - + } - Loading required package: ggplot2 - Loading required namespace: ggrepel - Error in if (new_name %in% existing) { : argument is of length zero - Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > sim <- pibble_sim(N=10, D=4, Q=3) + > fit <- pibble(sim$Y, sim$X) + > plot(fit, par="Lambda") + Scale for colour is already present. + Adding another scale for colour, which will replace the existing scale. + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 4.95, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(4.95, 0, 0, 0), NULL, TRUE), + Calls: ... -> -> compute_geom_2 -> Execution halted ``` +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(fido) + > + > #Sys.setenv(KMP_DUPLICATE_LIB_OK="TRUE") + > test_check("fido") + [1] 0.27980164 -0.69169550 -0.53205652 0.11488451 -0.42419872 2.20261388 + [7] -1.62190133 -0.90893172 0.07891428 0.75060681 0.43593605 0.26819442 + ... + 21. └─base::Map(...) + 22. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) + 23. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) + 24. └─layer$compute_geom_2(key, single_params, theme) + 25. └─ggplot2 (local) compute_geom_2(..., self = self) + 26. └─self$geom$use_defaults(...) + + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 114 ] + Error: Test failures + Execution halted + ``` + +## In both + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Goeyvaerts_reproduction.Rmd’ + when running code in ‘non-linear-models.Rmd’ ... - [1] 0.9763295 + The following object is masked from ‘package:dplyr’: + select - > autoplot(gof.wd) - Loading required namespace: ggrepel - When sourcing ‘Goeyvaerts_reproduction.R’: - Error: argument is of length zero + When sourcing ‘non-linear-models.R’: + Error: package or namespace load failed for ‘MCMCpack’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): + namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required Execution halted - ‘Goeyvaerts_reproduction.Rmd’ using ‘UTF-8’... failed + ‘introduction-to-fido.Rmd’ using ‘UTF-8’... OK + ‘mitigating-pcrbias.Rmd’ using ‘UTF-8’... OK + ‘non-linear-models.Rmd’ using ‘UTF-8’... failed + ‘orthus.Rmd’ using ‘UTF-8’... OK + ‘picking_priors.Rmd’ using ‘UTF-8’... OK + ``` + +* checking installed package size ... NOTE + ``` + installed size is 106.6Mb + sub-directories of 1Mb or more: + data 4.0Mb + libs 100.8Mb ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘Goeyvaerts_reproduction.Rmd’ using rmarkdown - - Quitting from lines 157-158 [unnamed-chunk-16] (Goeyvaerts_reproduction.Rmd) - Error: processing vignette 'Goeyvaerts_reproduction.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Goeyvaerts_reproduction.Rmd’ + --- re-building ‘introduction-to-fido.Rmd’ using rmarkdown + --- finished re-building ‘introduction-to-fido.Rmd’ - SUMMARY: processing the following file failed: - ‘Goeyvaerts_reproduction.Rmd’ + --- re-building ‘mitigating-pcrbias.Rmd’ using rmarkdown + --- finished re-building ‘mitigating-pcrbias.Rmd’ - Error: Vignette re-building failed. - Execution halted + --- re-building ‘non-linear-models.Rmd’ using rmarkdown ``` -# esci +# flexsurv
-* Version: 1.0.3 -* GitHub: https://github.com/rcalinjageman/esci -* Source code: https://github.com/cran/esci -* Date/Publication: 2024-07-08 21:40:10 UTC -* Number of recursive dependencies: 93 +* Version: 2.3.2 +* GitHub: https://github.com/chjackson/flexsurv +* Source code: https://github.com/cran/flexsurv +* Date/Publication: 2024-08-17 05:50:02 UTC +* Number of recursive dependencies: 150 -Run `revdepcheck::cloud_details(, "esci")` for more info +Run `revdepcheck::cloud_details(, "flexsurv")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘esci-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘standsurv.Rmd’ + ... - > ### Name: estimate_mdiff_2x2_between - > ### Title: Estimates for a 2x2 between-subjects design with a continuous - > ### outcome variable - > ### Aliases: estimate_mdiff_2x2_between - > - > ### ** Examples - > - ... - + estimates_from_summary$interaction, - + effect_size = "mean" - + ) - Warning: Using size for a discrete variable is not advised. - Warning: Using alpha for a discrete variable is not advised. - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, - Calls: ... -> -> compute_geom_2 -> + > kmsurvplot <- ggsurvplot(km) + + > kmsurvplot + xlab("Time from diagnosis (years)") + Warning in eval(ei, envir) : + Incompatible methods ("+.ggsurv", "+.gg") for "+" + + When sourcing ‘standsurv.R’: + Error: non-numeric argument to binary operator Execution halted + + ‘standsurv.Rmd’ using ‘UTF-8’... failed + ‘flexsurv.Rnw’ using ‘UTF-8’... OK + ‘multistate.Rnw’ using ‘UTF-8’... OK + ‘distributions.Rnw’ using ‘UTF-8’... OK + ‘flexsurv-examples.Rnw’ using ‘UTF-8’... OK ``` -* checking tests ... ERROR +## In both + +* checking installed package size ... NOTE ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(esci) - > - > test_check("esci") - Loading required package: Matrix - Loading required package: metadat - Loading required package: numDeriv + installed size is 7.4Mb + sub-directories of 1Mb or more: + R 1.5Mb + doc 1.9Mb + libs 3.4Mb + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘standsurv.Rmd’ using rmarkdown + + Quitting from lines 113-116 [unnamed-chunk-4] (standsurv.Rmd) + Error: processing vignette 'standsurv.Rmd' failed with diagnostics: + non-numeric argument to binary operator + --- failed re-building ‘standsurv.Rmd’ + + --- re-building ‘flexsurv.Rnw’ using knitr + --- finished re-building ‘flexsurv.Rnw’ ... - 17. │ └─self$geom$use_defaults(...) - 18. └─base::.handleSimpleError(...) - 19. └─rlang (local) h(simpleError(msg, call)) - 20. └─handlers[[1L]](cnd) - 21. └─cli::cli_abort(...) - 22. └─rlang::abort(...) - - [ FAIL 14 | WARN 0 | SKIP 0 | PASS 3182 ] - Error: Test failures - Execution halted + ^^M + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘flexsurv-examples.Rnw’ + + SUMMARY: processing the following files failed: + ‘standsurv.Rmd’ ‘multistate.Rnw’ ‘distributions.Rnw’ + ‘flexsurv-examples.Rnw’ + + Error: Vignette re-building failed. + Execution halted ``` -# evalITR +# flipr
-* Version: 1.0.0 -* GitHub: https://github.com/MichaelLLi/evalITR -* Source code: https://github.com/cran/evalITR -* Date/Publication: 2023-08-25 23:10:06 UTC -* Number of recursive dependencies: 167 +* Version: 0.3.3 +* GitHub: https://github.com/LMJL-Alea/flipr +* Source code: https://github.com/cran/flipr +* Date/Publication: 2023-08-23 09:00:02 UTC +* Number of recursive dependencies: 106 -Run `revdepcheck::cloud_details(, "evalITR")` for more info +Run `revdepcheck::cloud_details(, "flipr")` for more info
@@ -7027,7 +5869,17 @@ Run `revdepcheck::cloud_details(, "evalITR")` for more info * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘cv_multiple_alg.Rmd’ using rmarkdown + --- re-building ‘alternative.Rmd’ using rmarkdown + --- finished re-building ‘alternative.Rmd’ + + --- re-building ‘exactness.Rmd’ using rmarkdown + + Quitting from lines 142-177 [unnamed-chunk-1] (exactness.Rmd) + Error: processing vignette 'exactness.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘exactness.Rmd’ + + --- re-building ‘flipr.Rmd’ using rmarkdown ``` ## In both @@ -7035,87 +5887,97 @@ Run `revdepcheck::cloud_details(, "evalITR")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘cv_multiple_alg.Rmd’ + when running code in ‘exactness.Rmd’ ... - intersect, setdiff, setequal, union + > library(flipr) - > load("../data/star.rda") + > load("../R/sysdata.rda") Warning in readChar(con, 5L, useBytes = TRUE) : - cannot open compressed file '../data/star.rda', probable reason 'No such file or directory' + cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory' ... + cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory' + + When sourcing ‘plausibility.R’: + Error: cannot open the connection Execution halted - ‘cv_multiple_alg.Rmd’ using ‘UTF-8’... failed - ‘cv_single_alg.Rmd’ using ‘UTF-8’... failed - ‘install.Rmd’ using ‘UTF-8’... OK - ‘paper_alg1.Rmd’ using ‘UTF-8’... OK - ‘sample_split.Rmd’ using ‘UTF-8’... failed - ‘sample_split_caret.Rmd’ using ‘UTF-8’... failed - ‘user_itr.Rmd’ using ‘UTF-8’... failed - ‘user_itr_algs.Rmd’ using ‘UTF-8’... failed + ‘alternative.Rmd’ using ‘UTF-8’... OK + ‘exactness.Rmd’ using ‘UTF-8’... failed + ‘flipr.Rmd’ using ‘UTF-8’... failed + ‘plausibility.Rmd’ using ‘UTF-8’... failed ``` -* checking dependencies in R code ... NOTE +* checking installed package size ... NOTE ``` - Namespaces in Imports field not imported from: - ‘forcats’ ‘rqPen’ ‘utils’ - All declared Imports should be used. + installed size is 11.2Mb + sub-directories of 1Mb or more: + doc 9.1Mb + libs 1.4Mb ``` -# eventstudyr +# forestPSD
-* Version: 1.1.3 -* GitHub: https://github.com/JMSLab/eventstudyr -* Source code: https://github.com/cran/eventstudyr -* Date/Publication: 2024-03-04 15:00:02 UTC -* Number of recursive dependencies: 98 +* Version: 1.0.0 +* GitHub: NA +* Source code: https://github.com/cran/forestPSD +* Date/Publication: 2024-11-11 16:50:05 UTC +* Number of recursive dependencies: 47 -Run `revdepcheck::cloud_details(, "eventstudyr")` for more info +Run `revdepcheck::cloud_details(, "forestPSD")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(eventstudyr) - > - > test_check("eventstudyr") - Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. - Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. - Defaulting to strongest lead of differenced policy variable: proxyIV = z_fd_lead3. To specify a different proxyIV use the proxyIV argument. + Running examples in ‘forestPSD-Ex.R’ failed + The error most likely occurred in: + + > ### Name: psdfun + > ### Title: Regression analysis for survival curves. + > ### Aliases: psdfun + > + > ### ** Examples + > + > data(Npop) ... - `expected` is a character vector ('ci_lower') - ── Failure ('test-EventStudyPlot.R:128:5'): confidence intervals are appropriately present or absent ── - p_ci$labels$ymax (`actual`) not equal to "ci_upper" (`expected`). - - `actual` is NULL - `expected` is a character vector ('ci_upper') - - [ FAIL 6 | WARN 0 | SKIP 0 | PASS 258 ] - Error: Test failures - Execution halted + 13. │ └─l$compute_geom_2(d, theme = plot$theme) + 14. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 15. │ └─self$geom$use_defaults(...) + 16. │ └─ggplot2 (local) use_defaults(..., self = self) + 17. │ └─ggplot2:::check_aesthetics(new_params, nrow(data)) + 18. │ └─vctrs::list_sizes(x) + 19. └─vctrs:::stop_scalar_type(``(``), "x$label", ``) + 20. └─vctrs:::stop_vctrs(...) + 21. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) + Execution halted + ``` + +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘ggplot2’ ‘reshape2’ + All declared Imports should be used. ``` -# EvoPhylo +# frailtyEM
-* Version: 0.3.2 -* GitHub: https://github.com/tiago-simoes/EvoPhylo -* Source code: https://github.com/cran/EvoPhylo -* Date/Publication: 2022-11-03 17:00:02 UTC -* Number of recursive dependencies: 145 +* Version: 1.0.1 +* GitHub: https://github.com/tbalan/frailtyEM +* Source code: https://github.com/cran/frailtyEM +* Date/Publication: 2019-09-22 13:00:10 UTC +* Number of recursive dependencies: 78 -Run `revdepcheck::cloud_details(, "EvoPhylo")` for more info +Run `revdepcheck::cloud_details(, "frailtyEM")` for more info
@@ -7123,123 +5985,141 @@ Run `revdepcheck::cloud_details(, "EvoPhylo")` for more info * checking examples ... ERROR ``` - Running examples in ‘EvoPhylo-Ex.R’ failed + Running examples in ‘frailtyEM-Ex.R’ failed The error most likely occurred in: - > ### Name: make_clusters - > ### Title: Estimate and plot character partitions - > ### Aliases: make_clusters plot.cluster_df + > ### Name: summary.emfrail + > ### Title: Summary for 'emfrail' objects + > ### Aliases: summary.emfrail > > ### ** Examples > - > # See vignette("char-part") for how to use this + > data("bladder") ... - > # tSNE (3 dimensions; default is 2) - > cluster_df_tsne <- make_clusters(Dmatrix, k = 3, tsne = TRUE, - + tsne_dim = 2) - > - > # Plot clusters, plots divided into 2 rows, and increasing - > # overlap of text labels (default = 10) - > plot(cluster_df_tsne, nrow = 2, max.overlaps = 20) - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits + filter + + The following object is masked from ‘package:graphics’: + + layout + + > ggplotly(pl2) + Error in pm[[2]] : subscript out of bounds + Calls: ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking LazyData ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘char-part.Rmd’ using rmarkdown + 'LazyData' is specified without a 'data' directory ``` -## In both - -* checking running R code from vignettes ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘char-part.Rmd’ - ... - + collapse = TRUE, dpi = 300) + Error(s) in re-building vignettes: + --- re-building ‘frailtyEM_manual.Rnw’ using Sweave + Loading required package: survival + Loading required package: gridExtra + Warning: The `` argument of `guides()` cannot be `FALSE`. Use + "none" instead as of ggplot2 3.3.4. + Warning: Removed 2 rows containing missing values or values outside + the scale range (`geom_path()`). + Warning in data("kidney") : data set ‘kidney’ not found + Warning in emfrail(Surv(time, status) ~ age + sex + cluster(id), data = kidney, : + ... + l.179 \RequirePackage{grfext}\relax + ^^M + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘frailtyEM_manual.Rnw’ - > devtools::load_all(".") + SUMMARY: processing the following file failed: + ‘frailtyEM_manual.Rnw’ - When sourcing ‘char-part.R’: - Error: Could not find a root 'DESCRIPTION' file that starts with '^Package' in - '/tmp/Rtmp6FtfyP/file1a7972246c9b/vignettes'. - ... - ℹ Are you in your project directory and does your project have a 'DESCRIPTION' - file? + Error: Vignette re-building failed. Execution halted - - ‘char-part.Rmd’ using ‘UTF-8’... failed - ‘data_treatment.Rmd’ using ‘UTF-8’... OK - ‘fbd-params.Rmd’ using ‘UTF-8’... failed - ‘offset_handling.Rmd’ using ‘UTF-8’... failed - ‘rates-selection_BEAST2.Rmd’ using ‘UTF-8’... failed - ‘rates-selection_MrBayes.Rmd’ using ‘UTF-8’... failed ``` -* checking installed package size ... NOTE +# func2vis + +
+ +* Version: 1.0-3 +* GitHub: NA +* Source code: https://github.com/cran/func2vis +* Date/Publication: 2023-03-16 17:30:02 UTC +* Number of recursive dependencies: 115 + +Run `revdepcheck::cloud_details(, "func2vis")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR ``` - installed size is 6.8Mb - sub-directories of 1Mb or more: - data 2.5Mb - doc 1.6Mb - extdata 2.4Mb + Running examples in ‘func2vis-Ex.R’ failed + The error most likely occurred in: + + > ### Name: plot_pathways + > ### Title: Plot clean enriched pathways as a bubble plot + > ### Aliases: plot_pathways + > + > ### ** Examples + > + > data("t.tests.treatment.sign") + > data("enriched_pathways") + > revised_pathway <- clean_pathways(df_case_vs_ctrl=t.tests.treatment.sign, + + df_pathway = enriched_pathways) + > p <- plot_pathways(revised_pathway) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "blue", high = "red") + Calls: plot_pathways -> scale_color_continuous + Execution halted ``` -# expirest +# FuncNN
-* Version: 0.1.6 -* GitHub: https://github.com/piusdahinden/expirest -* Source code: https://github.com/cran/expirest -* Date/Publication: 2024-03-25 16:30:02 UTC -* Number of recursive dependencies: 46 +* Version: 1.0 +* GitHub: https://github.com/b-thi/FuncNN +* Source code: https://github.com/cran/FuncNN +* Date/Publication: 2020-09-15 09:40:15 UTC +* Number of recursive dependencies: 166 -Run `revdepcheck::cloud_details(, "expirest")` for more info +Run `revdepcheck::cloud_details(, "FuncNN")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘FuncNN’ can be installed ... WARNING ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(expirest) - > - > test_check("expirest") - [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - ── Failure ('test-plot_expirest_wisle.R:260:3'): plot_expirest_wisle_succeeds ── - tmp4l2[["Graph"]]$labels has length 0, not length 8. - ── Failure ('test-plot_expirest_wisle.R:264:3'): plot_expirest_wisle_succeeds ── - tmp4b1[["Graph"]]$labels has length 0, not length 5. - ── Failure ('test-plot_expirest_wisle.R:269:3'): plot_expirest_wisle_succeeds ── - tmp4b2[["Graph"]]$labels has length 0, not length 5. - - [ FAIL 9 | WARN 0 | SKIP 0 | PASS 1122 ] - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘FuncNN’ + See ‘/tmp/workdir/FuncNN/new/FuncNN.Rcheck/00install.out’ for details. ``` -# explainer +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘foreach’ + All declared Imports should be used. + ``` + +# GCalignR
-* Version: 1.0.1 -* GitHub: https://github.com/PERSIMUNE/explainer -* Source code: https://github.com/cran/explainer -* Date/Publication: 2024-04-18 09:00:02 UTC -* Number of recursive dependencies: 183 +* Version: 1.0.7 +* GitHub: https://github.com/mottensmann/GCalignR +* Source code: https://github.com/cran/GCalignR +* Date/Publication: 2024-07-03 18:00:01 UTC +* Number of recursive dependencies: 83 -Run `revdepcheck::cloud_details(, "explainer")` for more info +Run `revdepcheck::cloud_details(, "GCalignR")` for more info
@@ -7247,48 +6127,88 @@ Run `revdepcheck::cloud_details(, "explainer")` for more info * checking examples ... ERROR ``` - Running examples in ‘explainer-Ex.R’ failed + Running examples in ‘GCalignR-Ex.R’ failed The error most likely occurred in: - > ### Name: eDecisionCurve - > ### Title: Decision Curve Plot - > ### Aliases: eDecisionCurve + > ### Name: gc_heatmap + > ### Title: Visualises peak alignments in form of a heatmap + > ### Aliases: gc_heatmap > > ### ** Examples > - > library("explainer") - ... - > mylrn$train(maintask, splits$train) - > myplot <- eDecisionCurve( - + task = maintask, - + trained_model = mylrn, - + splits = splits, - + seed = seed - + ) - Error in pm[[2]] : subscript out of bounds - Calls: eDecisionCurve -> ggplotly -> ggplotly.ggplot -> gg2list + > + > ## aligned gc-dataset + > data("aligned_peak_data") + > ## Default settings: The final output is plotted + > gc_heatmap(aligned_peak_data, algorithm_step = "aligned") + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "blue", high = "red") + Calls: gc_heatmap -> scale_fill_continuous Execution halted ``` -## In both +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(GCalignR) + > + > test_check("GCalignR") + Run GCalignR + Start: 2025-01-21 13:02:50 + + ... + Error in `continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, + ...)`: unused arguments (low = "blue", high = "red") + Backtrace: + ▆ + 1. └─GCalignR::gc_heatmap(x) at test-gc_heatmap.R:6:1 + 2. └─ggplot2::scale_fill_continuous(...) + + [ FAIL 1 | WARN 2 | SKIP 1 | PASS 32 ] + Error: Test failures + Execution halted + ``` -* checking dependencies in R code ... NOTE +* checking running R code from vignettes ... ERROR ``` - Namespace in Imports field not imported from: ‘ggpmisc’ - All declared Imports should be used. + Errors in running code in vignettes: + when running code in ‘GCalignR_step_by_step.Rmd’ + ... + 0.03 + + + > data("aligned_peak_data") + + > gc_heatmap(aligned_peak_data, threshold = 0.03) + + When sourcing ‘GCalignR_step_by_step.R’: + Error: unused arguments (low = "blue", high = "red") + Execution halted + + ‘GCalignR_How_does_the_Algorithm_work.Rmd’ using ‘UTF-8’... OK + ‘GCalignR_step_by_step.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘GCalignR_How_does_the_Algorithm_work.Rmd’ using rmarkdown ``` -# exuber +# geoheatmap
-* Version: 1.0.2 -* GitHub: https://github.com/kvasilopoulos/exuber -* Source code: https://github.com/cran/exuber -* Date/Publication: 2023-03-22 23:10:02 UTC -* Number of recursive dependencies: 101 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/geoheatmap +* Date/Publication: 2024-09-05 15:40:02 UTC +* Number of recursive dependencies: 105 -Run `revdepcheck::cloud_details(, "exuber")` for more info +Run `revdepcheck::cloud_details(, "geoheatmap")` for more info
@@ -7297,184 +6217,165 @@ Run `revdepcheck::cloud_details(, "exuber")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘exuber.Rmd’ + when running code in ‘geoheatmap.Rmd’ ... - 370 1 1 1 0 - 371 1 1 0 0 - 372 1 1 0 0 - - > autoplot(est_stocks) - Using `radf_crit` for `cv`. - - ... + > internet_2015 <- subset(internet, year == 2015) - > autoplot(estimation, crit_values) + > geoheatmap(facet_data = internet_2015, grid_data = europe_countries_grid1, + + facet_col = "country", value_col = "users", low = "#56B1F7", + + .... [TRUNCATED] + Data contains facets that are not in the grid. Consider checking dataset. - When sourcing ‘plotting.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘geoheatmap.R’: + Error: unused arguments (low = "#56B1F7", high = "#132B43") Execution halted - ‘exuber.Rmd’ using ‘UTF-8’... failed - ‘plotting.Rmd’ using ‘UTF-8’... failed - ‘simulation.Rmd’ using ‘UTF-8’... OK + ‘geoheatmap.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘exuber.Rmd’ using rmarkdown - - Quitting from lines 73-74 [plot-radf] (exuber.Rmd) - Error: processing vignette 'exuber.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘exuber.Rmd’ + ... + --- re-building ‘geoheatmap.Rmd’ using rmarkdown - --- re-building ‘plotting.Rmd’ using rmarkdown + Quitting from lines 76-81 [unnamed-chunk-5] (geoheatmap.Rmd) + Error: processing vignette 'geoheatmap.Rmd' failed with diagnostics: + unused arguments (low = "#56B1F7", high = "#132B43") + --- failed re-building ‘geoheatmap.Rmd’ - Quitting from lines 58-59 [autoplot-basic] (plotting.Rmd) - Error: processing vignette 'plotting.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘plotting.Rmd’ + SUMMARY: processing the following file failed: + ‘geoheatmap.Rmd’ - --- re-building ‘simulation.Rmd’ using rmarkdown + Error: Vignette re-building failed. + Execution halted ``` -# ezEDA +# geomtextpath
-* Version: 0.1.1 -* GitHub: https://github.com/kviswana/ezEDA -* Source code: https://github.com/cran/ezEDA -* Date/Publication: 2021-06-29 04:40:10 UTC -* Number of recursive dependencies: 92 +* Version: 0.1.5 +* GitHub: https://github.com/AllanCameron/geomtextpath +* Source code: https://github.com/cran/geomtextpath +* Date/Publication: 2025-01-14 17:40:02 UTC +* Number of recursive dependencies: 93 -Run `revdepcheck::cloud_details(, "ezEDA")` for more info +Run `revdepcheck::cloud_details(, "geomtextpath")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ezEDA) + Running examples in ‘geomtextpath-Ex.R’ failed + The error most likely occurred in: + + > ### Name: geom_textsf + > ### Title: Visualise sf objects with labels + > ### Aliases: geom_textsf geom_labelsf + > + > ### ** Examples + > + > ggplot(waterways) + + ... + 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) + 20. │ └─self$draw_panel(...) + 21. │ └─geomtextpath (local) draw_panel(...) + 22. │ └─geomtextpath:::sf_textgrob(...) + 23. └─base::.handleSimpleError(...) + 24. └─rlang (local) h(simpleError(msg, call)) + 25. └─handlers[[1L]](cnd) + 26. └─cli::cli_abort(...) + 27. └─rlang::abort(...) + Execution halted + ``` + +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(geomtextpath) + Loading required package: ggplot2 > - > test_check("ezEDA") - [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ] + > test_check("geomtextpath") + [ FAIL 2 | WARN 0 | SKIP 4 | PASS 462 ] - ══ Failed tests ════════════════════════════════════════════════════════════════ ... - ── Error ('test_two_measures_relationship.R:19:3'): y axis is labeled 'hwy' ──── - Error in `expect_match(p$labels$y, "hwy")`: is.character(act$val) is not TRUE + `expected` is an expression vector + ── Error ('test-sf.R:91:3'): We can make grobs from sf features ──────────────── + Error in `(x$boxlinewidth %||% defaults$linewidth[type_ind]) * 3.779528`: non-numeric argument to binary operator Backtrace: ▆ - 1. └─testthat::expect_match(p$labels$y, "hwy") at test_two_measures_relationship.R:19:3 - 2. └─base::stopifnot(is.character(act$val)) + 1. └─geomtextpath:::sf_textgrob(river, as_textbox = TRUE) at test-sf.R:91:3 - [ FAIL 22 | WARN 0 | SKIP 0 | PASS 57 ] + [ FAIL 2 | WARN 0 | SKIP 4 | PASS 462 ] Error: Test failures Execution halted ``` -# ezplot - -
- -* Version: 0.7.13 -* GitHub: NA -* Source code: https://github.com/cran/ezplot -* Date/Publication: 2024-01-28 11:30:05 UTC -* Number of recursive dependencies: 109 - -Run `revdepcheck::cloud_details(, "ezplot")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ezplot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: model_plot - > ### Title: model_plot - > ### Aliases: model_plot - > - > ### ** Examples - > - > y = rnorm(26) - > df = data.frame(ID = 1:26, actual = y + rnorm(26), fitted = y, id = letters) - > model_plot(df, "ID", "actual", "fitted") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -# fable.prophet +# ggalign
-* Version: 0.1.0 -* GitHub: https://github.com/mitchelloharawild/fable.prophet -* Source code: https://github.com/cran/fable.prophet -* Date/Publication: 2020-08-20 09:30:03 UTC -* Number of recursive dependencies: 114 +* Version: 0.0.5 +* GitHub: https://github.com/Yunuuuu/ggalign +* Source code: https://github.com/cran/ggalign +* Date/Publication: 2024-11-14 08:00:02 UTC +* Number of recursive dependencies: 78 -Run `revdepcheck::cloud_details(, "fable.prophet")` for more info +Run `revdepcheck::cloud_details(, "ggalign")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘intro.Rmd’ - ... - 9 Domestic mdl 2019 Dec sample[5000] 5338093. - 10 Domestic mdl 2020 Jan sample[5000] 4888643. - # ℹ 62 more rows - - > fc %>% autoplot(lax_passengers) - - When sourcing ‘intro.R’: - Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL - Execution halted - - ‘intro.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE +* checking for code/documentation mismatches ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘intro.Rmd’ using rmarkdown + Codoc mismatches from documentation object 'plot_theme': + plot_theme + Code: function(..., line, rect, text, title, geom, spacing, margins, + aspect.ratio, axis.title, axis.title.x, + axis.title.x.top, axis.title.x.bottom, axis.title.y, + axis.title.y.left, axis.title.y.right, axis.text, + axis.text.x, axis.text.x.top, axis.text.x.bottom, + axis.text.y, axis.text.y.left, axis.text.y.right, + axis.text.theta, axis.text.r, axis.ticks, + axis.ticks.x, axis.ticks.x.top, axis.ticks.x.bottom, + ... + strip.text.x.top, strip.text.y, strip.text.y.left, + strip.text.y.right, strip.switch.pad.grid, + strip.switch.pad.wrap, complete = FALSE, validate = + TRUE) + Argument names in code not in docs: + geom spacing margins panel.widths panel.heights + Mismatches in argument names (first 3): + Position: 6 Code: geom Docs: aspect.ratio + Position: 7 Code: spacing Docs: axis.title + Position: 8 Code: margins Docs: axis.title.x ``` ## In both -* checking LazyData ... NOTE +* checking Rd cross-references ... NOTE ``` - 'LazyData' is specified without a 'data' directory + Packages unavailable to check Rd xrefs: ‘ComplexHeatmap’, ‘pheatmap’ ``` -# fabletools +# GGally
-* Version: 0.4.2 -* GitHub: https://github.com/tidyverts/fabletools -* Source code: https://github.com/cran/fabletools -* Date/Publication: 2024-04-22 11:22:41 UTC -* Number of recursive dependencies: 106 +* Version: 2.2.1 +* GitHub: https://github.com/ggobi/ggally +* Source code: https://github.com/cran/GGally +* Date/Publication: 2024-02-14 00:53:32 UTC +* Number of recursive dependencies: 145 -Run `revdepcheck::cloud_details(, "fabletools")` for more info +Run `revdepcheck::cloud_details(, "GGally")` for more info
@@ -7482,106 +6383,65 @@ Run `revdepcheck::cloud_details(, "fabletools")` for more info * checking examples ... ERROR ``` - Running examples in ‘fabletools-Ex.R’ failed + Running examples in ‘GGally-Ex.R’ failed The error most likely occurred in: - > ### Name: autoplot.fbl_ts - > ### Title: Plot a set of forecasts - > ### Aliases: autoplot.fbl_ts autolayer.fbl_ts + > ### Name: ggpairs + > ### Title: ggplot2 generalized pairs plot + > ### Aliases: ggpairs + > ### Keywords: hplot > > ### ** Examples > - > ## Don't show: ... - > library(fable) - > library(tsibbledata) - > fc <- aus_production %>% model(ets = ETS(log(Beer) ~ error("M") + trend("Ad") + - + season("A"))) %>% forecast(h = "3 years") - > fc %>% autoplot(aus_production) - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU - Calls: ... -> -> compute_geom_2 -> + > custom_car <- ggpairs(mtcars[, c("mpg", "wt", "cyl")], upper = "blank", title = "Custom Example") + > # ggplot example taken from example(geom_text) + > plot <- ggplot2::ggplot(mtcars, ggplot2::aes(x = wt, y = mpg, label = rownames(mtcars))) + > plot <- plot + + + ggplot2::geom_text(ggplot2::aes(colour = factor(cyl)), size = 3) + + + ggplot2::scale_colour_discrete(l = 40) + Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, : + argument 4 matches multiple formal arguments + Calls: Execution halted ``` * checking tests ... ERROR ``` + Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(dplyr) - - Attaching package: 'dplyr' - - The following object is masked from 'package:testthat': - + > if (requireNamespace("testthat", quietly = TRUE)) { + + library(testthat) + + library(GGally) + + + + test_check("GGally") + + } ... - 28. └─ggplot2 (local) compute_geom_2(..., self = self) - 29. └─self$geom$use_defaults(...) - ── Failure ('test-graphics.R:327:3'): autoplot_dcmp_ts() ─────────────────────── - `print(p)` produced warnings. - ── Failure ('test-graphics.R:346:3'): autoplot_dcmp_ts() ─────────────────────── - `print(p)` produced warnings. + `expected` is a character vector ('tip') + ── Failure ('test-ggsurv.R:26:3'): multiple ──────────────────────────────────── + !is.null(a$labels$group) is not TRUE - [ FAIL 4 | WARN 5 | SKIP 1 | PASS 267 ] + `actual`: FALSE + `expected`: TRUE + + [ FAIL 3 | WARN 5 | SKIP 26 | PASS 477 ] Error: Test failures Execution halted ``` -# factoextra - -
- -* Version: 1.0.7 -* GitHub: https://github.com/kassambara/factoextra -* Source code: https://github.com/cran/factoextra -* Date/Publication: 2020-04-01 21:20:02 UTC -* Number of recursive dependencies: 116 - -Run `revdepcheck::cloud_details(, "factoextra")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘factoextra-Ex.R’ failed - The error most likely occurred in: - - > ### Name: eclust - > ### Title: Visual enhancement of clustering analysis - > ### Aliases: eclust - > - > ### ** Examples - > - > # Load and scale data - ... - 12. │ └─ggplot2:::`+.gg`(...) - 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. │ ├─ggplot2::ggplot_add(object, p, objectname) - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - Execution halted - ``` - -# fairmodels +# gganimate
-* Version: 1.2.1 -* GitHub: https://github.com/ModelOriented/fairmodels -* Source code: https://github.com/cran/fairmodels -* Date/Publication: 2022-08-23 19:50:06 UTC -* Number of recursive dependencies: 87 +* Version: 1.0.9 +* GitHub: https://github.com/thomasp85/gganimate +* Source code: https://github.com/cran/gganimate +* Date/Publication: 2024-02-27 14:00:03 UTC +* Number of recursive dependencies: 96 -Run `revdepcheck::cloud_details(, "fairmodels")` for more info +Run `revdepcheck::cloud_details(, "gganimate")` for more info
@@ -7593,36 +6453,61 @@ Run `revdepcheck::cloud_details(, "fairmodels")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(fairmodels) - > + > library(gganimate) + Loading required package: ggplot2 > - > test_check("fairmodels") - Welcome to DALEX (version: 2.4.3). - Find examples and detailed introduction at: http://ema.drwhy.ai/ - ... - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ] + > test_check("gganimate") + [ FAIL 2 | WARN 3 | SKIP 1 | PASS 4 ] - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test_plot_density.R:14:3'): Test plot_density ───────────────────── - plt$labels$x not equal to "probability". - target is NULL, current is character + ... + 22. └─self$extract_key(...) + 23. └─ggplot2 (local) extract_key(...) + 24. └─Guide$extract_key(scale, aesthetic, ...) + 25. └─ggplot2 (local) extract_key(...) + 26. └─scale$map(breaks) + 27. └─ggplot2 (local) map(..., self = self) - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 312 ] + [ FAIL 2 | WARN 3 | SKIP 1 | PASS 4 ] Error: Test failures Execution halted ``` -# fastR2 +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘gganimate.Rmd’ + ... + Theme element `panel.grid.major.x` is missing + Theme element `panel.background` is missing + Warning: Failed to plot frame + Caused by error in `UseMethod()`: + ! no applicable method for 'element_grob' applied to an object of class "NULL" + + When sourcing ‘gganimate.R’: + Error: Provided file (/tmp/Rtmp3dHdpP/20956cec4984/gganim_plot0001.png) does + not exist + Execution halted + + ‘gganimate.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘gganimate.Rmd’ using rmarkdown + ``` + +# ggblanket
-* Version: 1.2.4 -* GitHub: https://github.com/rpruim/fastR2 -* Source code: https://github.com/cran/fastR2 -* Date/Publication: 2023-11-09 06:30:03 UTC -* Number of recursive dependencies: 165 +* Version: 11.1.0 +* GitHub: https://github.com/davidhodge931/ggblanket +* Source code: https://github.com/cran/ggblanket +* Date/Publication: 2024-12-17 22:40:02 UTC +* Number of recursive dependencies: 111 -Run `revdepcheck::cloud_details(, "fastR2")` for more info +Run `revdepcheck::cloud_details(, "ggblanket")` for more info
@@ -7630,80 +6515,67 @@ Run `revdepcheck::cloud_details(, "fastR2")` for more info * checking examples ... ERROR ``` - Running examples in ‘fastR2-Ex.R’ failed + Running examples in ‘ggblanket-Ex.R’ failed The error most likely occurred in: - > ### Name: ACTgpa - > ### Title: ACT scores and GPA - > ### Aliases: ACTgpa - > ### Keywords: datasets + > ### Name: gg_boxplot + > ### Title: Boxplot ggplot + > ### Aliases: gg_boxplot > > ### ** Examples > - > - > gf_point(GPA ~ ACT, data = ACTgpa) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: gf_point ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > library(ggplot2) + ... + • `shape = "NULL"` + • `size = "NULL"` + • `linewidth = "NULL"` + • `linetype = "NULL"` + • `pattern = "NULL"` + Warning: Removed 2 rows containing non-finite outside the scale range + (`stat_boxplot()`). + Error in unit(y, default.units) : 'x' and 'units' must have length > 0 + Calls: ... grobTree -> gTree -> setChildren -> gList -> linesGrob -> unit Execution halted ``` -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.1Mb - sub-directories of 1Mb or more: - data 2.0Mb - snippet 3.7Mb - ``` - -# faux +# ggdark
-* Version: 1.2.1 -* GitHub: https://github.com/debruine/faux -* Source code: https://github.com/cran/faux -* Date/Publication: 2023-04-20 07:00:11 UTC -* Number of recursive dependencies: 132 +* Version: 0.2.1 +* GitHub: NA +* Source code: https://github.com/cran/ggdark +* Date/Publication: 2019-01-11 17:30:06 UTC +* Number of recursive dependencies: 45 -Run `revdepcheck::cloud_details(, "faux")` for more info +Run `revdepcheck::cloud_details(, "ggdark")` for more info
## Newly broken -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘codebook.Rmd’ using rmarkdown - --- finished re-building ‘codebook.Rmd’ - - --- re-building ‘continuous.Rmd’ using rmarkdown - ``` - -## In both - * checking examples ... ERROR ``` - Running examples in ‘faux-Ex.R’ failed + Running examples in ‘ggdark-Ex.R’ failed The error most likely occurred in: - > ### Name: beta2norm - > ### Title: Convert beta to normal - > ### Aliases: beta2norm + > ### Name: dark_mode + > ### Title: Activate dark mode on a 'ggplot2' theme + > ### Aliases: dark_mode > > ### ** Examples > + > library(ggplot2) + ... + > + > p1 <- ggplot(iris, aes(Sepal.Width, Sepal.Length, color = Species)) + + + geom_point() > - > x <- rbeta(10000, 2, 3) - > y <- beta2norm(x) - shape1 was set to 1.96704823352025 - shape2 was set to 2.94110338061547 - > g <- ggplot2::ggplot() + ggplot2::geom_point(ggplot2::aes(x, y)) - > ggExtra::ggMarginal(g, type = "histogram") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > p1 # theme returned by theme_get() + > p1 + dark_mode() # activate dark mode on theme returned by theme_get() + Error in match(x, table, nomatch = 0L) : + 'match' requires vector arguments + Calls: dark_mode -> %in% Execution halted ``` @@ -7713,153 +6585,170 @@ Run `revdepcheck::cloud_details(, "faux")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(faux) + > library(ggdark) + > + > test_check("ggdark") + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] - ************ - Welcome to faux. For support and examples visit: - https://debruine.github.io/faux/ - - Get and set global package options with: faux_options() - ... - 6. └─methods (local) ``(...) - 7. └─methods::new(def, ...) - 8. ├─methods::initialize(value, ...) - 9. └─methods::initialize(value, ...) - 10. └─.Object$initialize(...) - 11. └─lme4 (local) initializePtr() + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + ── Error ('test_dark_mode.R:10:1'): (code run outside of `test_that()`) ──────── + Error in `match(x, table, nomatch = 0L)`: 'match' requires vector arguments + Backtrace: + ▆ + 1. └─ggdark::dark_mode(light_theme) at test_dark_mode.R:10:1 + 2. └─geoms[["GeomPoint"]]$default_aes$colour %in% ... - [ FAIL 20 | WARN 6 | SKIP 14 | PASS 1331 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR +## In both + +* checking LazyData ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘norta.Rmd’ - ... - - > p <- ggplot(dat, aes(uniform_var, poisson_var)) + - + geom_point() + geom_smooth() - - > ggMarginal(p, type = "histogram") - `geom_smooth()` using method = 'gam' and formula = 'y ~ s(x, bs = "cs")' - - ... - Error: argument is of length zero - Execution halted - - ‘codebook.Rmd’ using ‘UTF-8’... OK - ‘continuous.Rmd’ using ‘UTF-8’... OK - ‘contrasts.Rmd’ using ‘UTF-8’... OK - ‘norta.Rmd’ using ‘UTF-8’... failed - ‘rnorm_multi.Rmd’ using ‘UTF-8’... OK - ‘sim_design.Rmd’ using ‘UTF-8’... OK - ‘sim_df.Rmd’ using ‘UTF-8’... OK + 'LazyData' is specified without a 'data' directory ``` -# fddm +# ggdist
-* Version: 1.0-2 -* GitHub: https://github.com/rtdists/fddm -* Source code: https://github.com/cran/fddm -* Date/Publication: 2024-07-02 16:00:07 UTC -* Number of recursive dependencies: 93 +* Version: 3.3.2 +* GitHub: https://github.com/mjskay/ggdist +* Source code: https://github.com/cran/ggdist +* Date/Publication: 2024-03-05 05:30:23 UTC +* Number of recursive dependencies: 126 -Run `revdepcheck::cloud_details(, "fddm")` for more info +Run `revdepcheck::cloud_details(, "ggdist")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘benchmark.Rmd’ - ... - > mi <- min(bm_vec[, -seq_len(t_idx)]) - - > ma <- max(bm_vec[, (t_idx + 1):(ncol(bm_vec) - 4)]) - - > ggplot(mbm_vec, aes(x = factor(FuncName, levels = Names_vec), - + y = time, color = factor(FuncName, levels = Names_vec), fill = factor(FuncName, .... [TRUNCATED] + Running examples in ‘ggdist-Ex.R’ failed + The error most likely occurred in: + > ### Name: Pr_ + > ### Title: Probability expressions in ggdist aesthetics + > ### Aliases: Pr_ p_ + > + > ### ** Examples + > + > library(ggplot2) ... - - When sourcing ‘pfddm.R’: - Error: Not a unit object + + ) + > + > # map density onto alpha of the fill + > ggplot(df, aes(y = name, xdist = d)) + + + stat_slabinterval(aes(alpha = !!p_(x))) + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, + Calls: ... -> -> compute_geom_2 -> Execution halted - - ‘benchmark.Rmd’ using ‘UTF-8’... failed - ‘example.Rmd’ using ‘UTF-8’... OK - ‘math.Rmd’ using ‘UTF-8’... OK - ‘pfddm.Rmd’ using ‘UTF-8’... failed - ‘validity.Rmd’ using ‘UTF-8’... OK - ``` - -## In both - -* checking installed package size ... NOTE ``` - installed size is 16.6Mb - sub-directories of 1Mb or more: - doc 1.6Mb - libs 14.1Mb - ``` - -# feasts - -
- -* Version: 0.3.2 -* GitHub: https://github.com/tidyverts/feasts -* Source code: https://github.com/cran/feasts -* Date/Publication: 2024-03-15 09:10:02 UTC -* Number of recursive dependencies: 101 - -Run `revdepcheck::cloud_details(, "feasts")` for more info - -
- -## Newly broken * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(feasts) - Loading required package: fabletools - > - > test_check("feasts") - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ] - + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html ... - ── Error ('test-graphics.R:192:3'): gg_tsdisplay() plots ─────────────────────── - Error in `p + ggplot2::labs(x = "x", y = "y", title = "title")`: non-numeric argument to binary operator - ── Failure ('test-graphics.R:273:3'): gg_arma() plots ────────────────────────── - p_built$plot$labels[c("x", "y")] not equivalent to list(x = "Re(1/root)", y = "Im(1/root)"). - Component "x": 1 string mismatch - Component "y": 1 string mismatch - - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ] + • test.stat_sample_slabinterval/nas-with-na-rm-true.svg + • test.subguide/dots-subguide-with-side-vertical.svg + • test.subguide/integer-subguide-with-zero-range.svg + • test.subguide/slab-subguide-with-inside-labels-vertical.svg + • test.subguide/slab-subguide-with-outside-labels-vert.svg + • test.subguide/slab-subguide-with-outside-labels.svg + • test.subguide/slab-subguide-with-side-vertical.svg + • test.theme_ggdist/facet-titles-on-left.svg Error: Test failures Execution halted ``` -# fergm +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘dotsinterval.Rmd’ using rmarkdown + Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : + cannot find pngquant; please install and put it in PATH + Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : + cannot find pngquant; please install and put it in PATH + + Quitting from lines 49-161 [dotsinterval_components] (dotsinterval.Rmd) + Error: processing vignette 'dotsinterval.Rmd' failed with diagnostics: + Problem while setting up geom aesthetics. + ... + + --- re-building ‘freq-uncertainty-vis.Rmd’ using rmarkdown + Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : + cannot find pngquant; please install and put it in PATH + Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : + cannot find pngquant; please install and put it in PATH + Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : + cannot find pngquant; please install and put it in PATH + Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : + cannot find pngquant; please install and put it in PATH + ``` + +## In both + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘dotsinterval.Rmd’ + ... + + xdist = dist)) + geom_hline(yintercept = 0:1, color = "gray95") + + + stat_dotsin .... [TRUNCATED] + + When sourcing ‘dotsinterval.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 2nd layer. + Caused by error in `use_defaults()`: + ... + ℹ Error occurred in the 1st layer. + Caused by error in `use_defaults()`: + ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, + 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0 + Execution halted + + ‘dotsinterval.Rmd’ using ‘UTF-8’... failed + ‘freq-uncertainty-vis.Rmd’ using ‘UTF-8’... failed + ‘lineribbon.Rmd’ using ‘UTF-8’... failed + ‘slabinterval.Rmd’ using ‘UTF-8’... failed + ``` + +* checking installed package size ... NOTE + ``` + installed size is 5.6Mb + sub-directories of 1Mb or more: + R 1.5Mb + doc 1.3Mb + help 1.5Mb + ``` + +# ggedit
-* Version: 1.1.4 -* GitHub: https://github.com/benjamin-w-campbell/fergm -* Source code: https://github.com/cran/fergm -* Date/Publication: 2018-10-17 22:20:11 UTC -* Number of recursive dependencies: 101 +* Version: 0.4.1 +* GitHub: https://github.com/yonicd/ggedit +* Source code: https://github.com/cran/ggedit +* Date/Publication: 2024-03-04 14:40:02 UTC +* Number of recursive dependencies: 94 -Run `revdepcheck::cloud_details(, "fergm")` for more info +Run `revdepcheck::cloud_details(, "ggedit")` for more info
@@ -7867,40 +6756,36 @@ Run `revdepcheck::cloud_details(, "fergm")` for more info * checking examples ... ERROR ``` - Running examples in ‘fergm-Ex.R’ failed + Running examples in ‘ggedit-Ex.R’ failed The error most likely occurred in: - > ### Name: coef_posterior_density - > ### Title: Plots the posterior density for FERGM model terms. - > ### Aliases: coef_posterior_density - > ### Keywords: FERGM interpret summary + > ### Name: compare + > ### Title: compare + > ### Aliases: compare > > ### ** Examples > - ... - > data("ergm.fit") - > data("fergm.fit") - > data("mesa") - > - > # rstan functions - > # Histogram of the posterior - > rstan::stan_hist(fergm.fit$stan.fit, par = "beta") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > compare(ggplot2::theme_bw(),ggplot2::theme_get()) + [1] "theme(panel.background=element_rect(fill='white'),panel.grid=element_line(arrow.fill=''#'*EBEBEBFF',colour=''#'*EBEBEBFF'),strip.background=element_rect(colour=''#'*333333FF'))" + > compare(ggplot2::theme_bw(),ggplot2::theme_get(),verbose=FALSE) + Error in parse(text = out) : :2:0: unexpected end of input + 1: theme(panel.background=element_rect(fill='white'),panel.grid=element_line(arrow.fill=''#'*EBEBEBFF',colour=''#'*EBEBEBFF'),strip.background=element_rect(colour=''#'*333333FF')) + ^ + Calls: compare -> eval -> parse Execution halted ``` -# ffp +# ggenealogy
-* Version: 0.2.2 -* GitHub: https://github.com/Reckziegel/FFP -* Source code: https://github.com/cran/ffp -* Date/Publication: 2022-09-29 15:10:06 UTC -* Number of recursive dependencies: 107 +* Version: 1.0.3 +* GitHub: NA +* Source code: https://github.com/cran/ggenealogy +* Date/Publication: 2024-02-21 16:00:02 UTC +* Number of recursive dependencies: 84 -Run `revdepcheck::cloud_details(, "ffp")` for more info +Run `revdepcheck::cloud_details(, "ggenealogy")` for more info
@@ -7908,111 +6793,89 @@ Run `revdepcheck::cloud_details(, "ffp")` for more info * checking examples ... ERROR ``` - Running examples in ‘ffp-Ex.R’ failed + Running examples in ‘ggenealogy-Ex.R’ failed The error most likely occurred in: - > ### Name: scenario_density - > ### Title: Plot Scenarios - > ### Aliases: scenario_density scenario_histogram + > ### Name: plotDegMatrix + > ### Title: Returns the image object to show the heat map of degrees between + > ### the inputted set of vertices + > ### Aliases: plotDegMatrix > > ### ** Examples > - > x <- diff(log(EuStockMarkets))[, 1] - > p <- exp_decay(x, 0.005) - > - > scenario_density(x, p, 500) - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, - Calls: ... -> -> compute_geom_2 -> + > data(sbGeneal) + > ig <- dfToIG(sbGeneal) + > varieties <- c("Bedford", "Calland", "Narow", "Pella", "Tokyo", "Young", "Zane") + > p <- plotDegMatrix(varieties, ig, sbGeneal) + > p + ggplot2::scale_fill_continuous(low = "white", high = "darkgreen") + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "white", high = "darkgreen") + Calls: Execution halted ``` -# fic - -
- -* Version: 1.0.0 -* GitHub: https://github.com/chjackson/fic -* Source code: https://github.com/cran/fic -* Date/Publication: 2019-04-13 08:32:39 UTC -* Number of recursive dependencies: 119 - -Run `revdepcheck::cloud_details(, "fic")` for more info - -
- -## Newly broken - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘linear.Rnw’ + when running code in ‘ggenealogy.Rnw’ ... - > library(ggplot2) + > p = plotDegMatrix(varieties, ig, sbGeneal) - > if (requireNamespace("GGally", quietly = TRUE)) { - + GGally::ggpairs(mtcars[, c("mpg", "am", "wt", "qsec", "disp", - + "hp")], aes(colour .... [TRUNCATED] + > p + ggplot2::scale_fill_continuous(low = "white", + + high = "darkgreen") + ggplot2::theme(legend.title = ggplot2::element_text(size = 15), + + .... [TRUNCATED] - ... - When sourcing 'linear.R': - Error: argument is of length zero + When sourcing ‘ggenealogy.R’: + Error: unused arguments (low = "white", high = "darkgreen") Execution halted - ‘fic.Rnw’ using ‘UTF-8’... OK - ‘linear.Rnw’ using ‘UTF-8’... failed - ‘loss.Rnw’ using ‘UTF-8’... OK - ‘multistate.Rnw’ using ‘UTF-8’... OK - ‘skewnormal.Rnw’ using ‘UTF-8’... OK - ‘survival.Rnw’ using ‘UTF-8’... OK + ‘ggenealogy.Rnw’ using ‘UTF-8’... failed ``` ## In both -* checking dependencies in R code ... NOTE +* checking data for non-ASCII characters ... NOTE ``` - Namespace in Imports field not imported from: ‘numDeriv’ - All declared Imports should be used. + Note: found 2356 marked UTF-8 strings ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘fic.Rnw’ using knitr - Error: processing vignette 'fic.Rnw' failed with diagnostics: - Running 'texi2dvi' on 'fic.tex' failed. - LaTeX errors: - ! LaTeX Error: File `grfext.sty' not found. - - Type X to quit or to proceed, - or enter new name. (Default extension: sty) - + ... + --- re-building ‘ggenealogy.Rnw’ using Sweave + Warning: Removed 1 row containing missing values or values outside + the scale range (`geom_segment()`). + Warning: Removed 1 row containing missing values or values outside + the scale range (`geom_segment()`). + Warning: Removed 1 row containing missing values or values outside + the scale range (`geom_segment()`). + Warning: Removed 1 row containing missing values or values outside ... - --- finished re-building ‘skewnormal.Rnw’ + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "white", high = "darkgreen") - --- re-building ‘survival.Rnw’ using knitr - --- finished re-building ‘survival.Rnw’ + --- failed re-building ‘ggenealogy.Rnw’ - SUMMARY: processing the following files failed: - ‘fic.Rnw’ ‘linear.Rnw’ ‘multistate.Rnw’ + SUMMARY: processing the following file failed: + ‘ggenealogy.Rnw’ Error: Vignette re-building failed. Execution halted ``` -# fido +# ggESDA
-* Version: 1.1.1 -* GitHub: https://github.com/jsilve24/fido -* Source code: https://github.com/cran/fido -* Date/Publication: 2024-06-05 21:30:06 UTC -* Number of recursive dependencies: 134 +* Version: 0.2.0 +* GitHub: https://github.com/kiangkiangkiang/ggESDA +* Source code: https://github.com/cran/ggESDA +* Date/Publication: 2022-08-19 08:40:10 UTC +* Number of recursive dependencies: 218 -Run `revdepcheck::cloud_details(, "fido")` for more info +Run `revdepcheck::cloud_details(, "ggESDA")` for more info
@@ -8020,108 +6883,133 @@ Run `revdepcheck::cloud_details(, "fido")` for more info * checking examples ... ERROR ``` - Running examples in ‘fido-Ex.R’ failed + Running examples in ‘ggESDA-Ex.R’ failed The error most likely occurred in: - > ### Name: plot.pibblefit - > ### Title: Plot Summaries of Posterior Distribution of pibblefit Parameters - > ### Aliases: plot.pibblefit + > ### Name: ggInterval_scaMatrix + > ### Title: scatter plot for all variable by interval data. + > ### Aliases: ggInterval_scaMatrix > > ### ** Examples > - > sim <- pibble_sim(N=10, D=4, Q=3) - > fit <- pibble(sim$Y, sim$X) - > plot(fit, par="Lambda") - Scale for colour is already present. - Adding another scale for colour, which will replace the existing scale. - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL - Calls: ... -> -> compute_geom_2 -> + > a<-rnorm(1000,0,5) + ... + > b<-runif(1000,-20,-10) + > c<-rgamma(1000,10,5) + > d<-as.data.frame(cbind(norm=a,unif=b,gamma_10_5=c)) + > ggInterval_scaMatrix(d) + Warning in testData(data) : + Automatically transform a classical data to symbolic data + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` +# ggfixest + +
+ +* Version: 0.1.0 +* GitHub: https://github.com/grantmcdermott/ggfixest +* Source code: https://github.com/cran/ggfixest +* Date/Publication: 2023-12-14 08:00:06 UTC +* Number of recursive dependencies: 78 + +Run `revdepcheck::cloud_details(, "ggfixest")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. Complete output: - > library(testthat) - > library(fido) + > ## Throttle CPU threads if R CMD check (for CRAN) > - > #Sys.setenv(KMP_DUPLICATE_LIB_OK="TRUE") - > test_check("fido") - [1] 0.27980164 -0.69169550 -0.53205652 0.11488451 -0.42419872 2.20261388 - [7] -1.62190133 -0.90893172 0.07891428 0.75060681 0.43593605 0.26819442 + > if (any(grepl("_R_CHECK", names(Sys.getenv()), fixed = TRUE))) { + + # fixest + + if (requireNamespace("fixest", quietly = TRUE)) { + + library(fixest) + + setFixest_nthreads(1) ... - 21. └─base::Map(...) - 22. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) - 23. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) - 24. └─layer$compute_geom_2(key, single_params, theme) - 25. └─ggplot2 (local) compute_geom_2(..., self = self) - 26. └─self$geom$use_defaults(...) - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 114 ] - Error: Test failures + diff| 1774 + info| Diff plot saved to: _tinysnapshot_review/ggiplot_multi_complex_kitchen_iid.png + Error: 16 out of 101 tests failed + In addition: Warning message: + `guide_axis_nested()` was deprecated in ggh4x 0.3.0. + ℹ Please use `legendry::guide_axis_nested()` instead. + ℹ The deprecated feature was likely used in the ggfixest package. + Please report the issue at + . Execution halted ``` -## In both +# ggforce -* checking running R code from vignettes ... ERROR +
+ +* Version: 0.4.2 +* GitHub: https://github.com/thomasp85/ggforce +* Source code: https://github.com/cran/ggforce +* Date/Publication: 2024-02-19 11:00:02 UTC +* Number of recursive dependencies: 69 + +Run `revdepcheck::cloud_details(, "ggforce")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘non-linear-models.Rmd’ - ... - - The following object is masked from ‘package:dplyr’: - - select - + Running examples in ‘ggforce-Ex.R’ failed + The error most likely occurred in: - When sourcing ‘non-linear-models.R’: - Error: package or namespace load failed for ‘MCMCpack’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): - namespace ‘Matrix’ 1.5-4.1 is already loaded, but >= 1.6.0 is required + > ### Name: facet_matrix + > ### Title: Facet by different data columns + > ### Aliases: facet_matrix + > + > ### ** Examples + > + > # Standard use: + ... + 13. │ └─l$draw_geom(d, layout) + 14. │ └─ggplot2 (local) draw_geom(..., self = self) + 15. │ └─self$geom$handle_na(data, self$computed_geom_params) + 16. │ └─ggplot2 (local) handle_na(..., self = self) + 17. └─base::.handleSimpleError(...) + 18. └─rlang (local) h(simpleError(msg, call)) + 19. └─handlers[[1L]](cnd) + 20. └─cli::cli_abort(...) + 21. └─rlang::abort(...) Execution halted - - ‘introduction-to-fido.Rmd’ using ‘UTF-8’... OK - ‘mitigating-pcrbias.Rmd’ using ‘UTF-8’... OK - ‘non-linear-models.Rmd’ using ‘UTF-8’... failed - ‘orthus.Rmd’ using ‘UTF-8’... OK - ‘picking_priors.Rmd’ using ‘UTF-8’... OK ``` +## In both + * checking installed package size ... NOTE ``` - installed size is 106.5Mb + installed size is 27.8Mb sub-directories of 1Mb or more: - data 4.0Mb - libs 100.6Mb - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘introduction-to-fido.Rmd’ using rmarkdown - --- finished re-building ‘introduction-to-fido.Rmd’ - - --- re-building ‘mitigating-pcrbias.Rmd’ using rmarkdown - --- finished re-building ‘mitigating-pcrbias.Rmd’ - - --- re-building ‘non-linear-models.Rmd’ using rmarkdown + R 1.5Mb + help 1.2Mb + libs 25.0Mb ``` -# fitdistrplus +# ggformula
-* Version: 1.2-1 -* GitHub: https://github.com/lbbe-software/fitdistrplus -* Source code: https://github.com/cran/fitdistrplus -* Date/Publication: 2024-07-12 12:20:02 UTC -* Number of recursive dependencies: 108 +* Version: 0.12.0 +* GitHub: https://github.com/ProjectMOSAIC/ggformula +* Source code: https://github.com/cran/ggformula +* Date/Publication: 2023-11-09 12:30:07 UTC +* Number of recursive dependencies: 122 -Run `revdepcheck::cloud_details(, "fitdistrplus")` for more info +Run `revdepcheck::cloud_details(, "ggformula")` for more info
@@ -8129,313 +7017,331 @@ Run `revdepcheck::cloud_details(, "fitdistrplus")` for more info * checking examples ... ERROR ``` - Running examples in ‘fitdistrplus-Ex.R’ failed + Running examples in ‘ggformula-Ex.R’ failed The error most likely occurred in: - > ### Name: CIcdfplot - > ### Title: Empirical cumulative distribution function with pointwise - > ### confidence intervals on probabilities or on quantiles - > ### Aliases: CIcdfplot - > ### Keywords: distribution + > ### Name: gf_boxplot + > ### Title: Formula interface to geom_boxplot() + > ### Aliases: gf_boxplot > > ### ** Examples - ... - > f1 <- fitdist(s1, "exp") - > b1 <- bootdist(f1, niter= 11) #voluntarily low to decrease computation time > - > # plot 95 percent bilateral confidence intervals on y values (probabilities) - > CIcdfplot(b1, CI.level= 95/100, CI.output = "probability") - > if (ggplotEx) CIcdfplot(b1, CI.level= 95/100, CI.output = "probability", plotstyle = "ggplot") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > gf_boxplot(age ~ substance, data = mosaicData::HELPrct) + > gf_boxplot(age ~ substance, data = mosaicData::HELPrct, varwidth = TRUE) + > gf_boxplot(age ~ substance, data = mosaicData::HELPrct, color = ~sex) + Error in unit(x, default.units) : 'x' and 'units' must have length > 0 + Calls: ... grobTree -> gTree -> setChildren -> gList -> linesGrob -> unit Execution halted ``` * checking tests ... ERROR ``` - Running ‘t-CIcdfplot.R’ - Running the tests in ‘tests/t-CIcdfplot.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(fitdistrplus) - Loading required package: MASS - Loading required package: survival - > - > nbboot <- 201 - > nbboot <- 10 - > ggplotEx <- requireNamespace("ggplot2", quietly = TRUE) + > library(testthat) + > library(ggformula) + Loading required package: ggplot2 + Loading required package: scales + Loading required package: ggridges + + New to ggformula? Try the tutorials: ... - 97.5 % 2.152084 2.778622 - > - > par(mfrow=c(1,2)) - > CIcdfplot(b1, CI.level=95/100, CI.output = "probability", CI.fill="grey80", CI.col="black") - > CIcdfplot(b1, CI.level=95/100, CI.output = "quantile", datacol="blue") - > if(ggplotEx) CIcdfplot(b1, CI.level=95/100, CI.output = "probability", CI.fill="grey80", CI.col="black", plotstyle = "ggplot") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + • layer-factory/gf-text1.svg + • layer-factory/gf-text2.svg + • layer-factory/gf-tile1.svg + • layer-factory/proportions-within-all-dodge.svg + • layer-factory/proportions-within-fill-dodge.svg + • layer-factory/proportions-within-fill-facet-grid-and-group.svg + • layer-factory/proportions-within-fill-facet-grid.svg + • layer-factory/proportions-within-group-facet-grid.svg + Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR +* checking for code/documentation mismatches ... WARNING ``` - Errors in running code in vignettes: - when running code in ‘FAQ.Rmd’ - ... - - > dcomp <- denscomp(list(fitW, fitln, fitg), legendtext = c("Weibull", - + "lognormal", "gamma"), xlab = "serving sizes (g)", xlim = c(0, - + 25 .... [TRUNCATED] - - > dcomp + ggplot2::theme_minimal() + ggplot2::ggtitle("Ground beef fits") - - When sourcing ‘FAQ.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘FAQ.Rmd’ using ‘UTF-8’... failed - ‘Optimalgo.Rmd’ using ‘UTF-8’... OK - ‘fitdistrplus_vignette.Rmd’ using ‘UTF-8’... OK - ‘starting-values.Rmd’ using ‘UTF-8’... OK + Codoc mismatches from documentation object 'gf_abline': + gf_hline + Code: function(object = NULL, gformula = NULL, data = NULL, ..., + yintercept, color, linetype, linewidth, alpha, xlab, + ylab, title, subtitle, caption, position = "identity", + show.legend = NA, show.help = NULL, inherit = FALSE, + environment = parent.frame()) + Docs: function(object = NULL, gformula = NULL, data = NULL, ..., + yintercept, color, linetype, linewidth, alpha, xlab, + ylab, title, subtitle, caption, show.legend = NA, + ... + xintercept, color, linetype, linewidth, alpha, xlab, + ylab, title, subtitle, caption, show.legend = NA, + show.help = NULL, inherit = FALSE, environment = + parent.frame()) + Argument names in code not in docs: + position + Mismatches in argument names (first 3): + Position: 15 Code: position Docs: show.legend + Position: 16 Code: show.legend Docs: show.help + Position: 17 Code: show.help Docs: inherit ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking Rd cross-references ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘FAQ.Rmd’ using rmarkdown + Packages unavailable to check Rd xrefs: ‘akima’, ‘ggforce’ ``` -# fitlandr +# ggfortify
-* Version: 0.1.0 -* GitHub: https://github.com/Sciurus365/fitlandr -* Source code: https://github.com/cran/fitlandr -* Date/Publication: 2023-02-10 10:40:02 UTC -* Number of recursive dependencies: 123 +* Version: 0.4.17 +* GitHub: https://github.com/sinhrks/ggfortify +* Source code: https://github.com/cran/ggfortify +* Date/Publication: 2024-04-17 04:30:04 UTC +* Number of recursive dependencies: 124 -Run `revdepcheck::cloud_details(, "fitlandr")` for more info +Run `revdepcheck::cloud_details(, "ggfortify")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘fitlandr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: fit_2d_vf - > ### Title: Estimate a 2D vector field - > ### Aliases: fit_2d_vf - > - > ### ** Examples - > - > # generate data - > single_output_grad <- simlandr::sim_fun_grad(length = 200, seed = 1614) - > # fit the vector field - > v2 <- fit_2d_vf(single_output_grad, x = "x", y = "y", method = "MVKE") - > plot(v2) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Running ‘test-all.R’ + Running the tests in ‘tests/test-all.R’ failed. + Complete output: + > library(testthat) + > + > suppressWarnings(RNGversion("3.5.0")) + > set.seed(1, sample.kind = "Rejection") + > + > test_check('ggfortify') + Loading required package: ggfortify + ... + + x[3]: "#595959FF" + y[3]: "grey35" + + x[4]: "#595959FF" + y[4]: "grey35" + + [ FAIL 5 | WARN 13 | SKIP 48 | PASS 734 ] + Error: Test failures + Execution halted ``` -# flexsurv +# gggenomes
-* Version: 2.3.2 -* GitHub: https://github.com/chjackson/flexsurv -* Source code: https://github.com/cran/flexsurv -* Date/Publication: 2024-08-17 05:50:02 UTC -* Number of recursive dependencies: 147 +* Version: 1.0.1 +* GitHub: https://github.com/thackl/gggenomes +* Source code: https://github.com/cran/gggenomes +* Date/Publication: 2024-08-30 11:40:02 UTC +* Number of recursive dependencies: 111 -Run `revdepcheck::cloud_details(, "flexsurv")` for more info +Run `revdepcheck::cloud_details(, "gggenomes")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘standsurv.Rmd’ - ... - 5 0 967 Good 2.649315 68.74975 25110 1986-05-18 female Good - 6 0 629 Good 1.723288 64.53328 23570 1987-03-07 female Good - - > km <- survfit(Surv(recyrs, censrec) ~ group2, data = bc) - - > kmsurvplot <- ggsurvplot(km) - - When sourcing ‘standsurv.R’: - Error: argument is of length zero - Execution halted - - ‘standsurv.Rmd’ using ‘UTF-8’... failed - ‘flexsurv.Rnw’ using ‘UTF-8’... OK - ‘multistate.Rnw’ using ‘UTF-8’... OK - ‘distributions.Rnw’ using ‘UTF-8’... OK - ‘flexsurv-examples.Rnw’ using ‘UTF-8’... OK - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 7.4Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 1.9Mb - libs 3.4Mb - ``` - -* checking re-building of vignette outputs ... NOTE +* checking examples ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘standsurv.Rmd’ using rmarkdown - - Quitting from lines 113-116 [unnamed-chunk-4] (standsurv.Rmd) - Error: processing vignette 'standsurv.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘standsurv.Rmd’ + Running examples in ‘gggenomes-Ex.R’ failed + The error most likely occurred in: - --- re-building ‘flexsurv.Rnw’ using knitr - --- finished re-building ‘flexsurv.Rnw’ + > ### Name: pick + > ### Title: Pick bins and seqs by name or position + > ### Aliases: pick pick_seqs pick_seqs_within pick_by_tree + > + > ### ** Examples + > + > s0 <- tibble::tibble( ... - ^^M - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘flexsurv-examples.Rnw’ - - SUMMARY: processing the following files failed: - ‘standsurv.Rmd’ ‘multistate.Rnw’ ‘distributions.Rnw’ - ‘flexsurv-examples.Rnw’ - - Error: Vignette re-building failed. + 24. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) + 25. │ └─self$draw_panel(...) + 26. │ └─ggtree (local) draw_panel(...) + 27. │ └─ggplot2:::empty(data) + 28. └─base::.handleSimpleError(...) + 29. └─rlang (local) h(simpleError(msg, call)) + 30. └─handlers[[1L]](cnd) + 31. └─cli::cli_abort(...) + 32. └─rlang::abort(...) Execution halted ``` -# flipr +# ggh4x
-* Version: 0.3.3 -* GitHub: https://github.com/LMJL-Alea/flipr -* Source code: https://github.com/cran/flipr -* Date/Publication: 2023-08-23 09:00:02 UTC -* Number of recursive dependencies: 107 +* Version: 0.3.0 +* GitHub: https://github.com/teunbrand/ggh4x +* Source code: https://github.com/cran/ggh4x +* Date/Publication: 2024-12-15 17:20:02 UTC +* Number of recursive dependencies: 76 -Run `revdepcheck::cloud_details(, "flipr")` for more info +Run `revdepcheck::cloud_details(, "ggh4x")` for more info
## Newly broken -* checking re-building of vignette outputs ... NOTE +* checking examples ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘alternative.Rmd’ using rmarkdown - --- finished re-building ‘alternative.Rmd’ - - --- re-building ‘exactness.Rmd’ using rmarkdown - - Quitting from lines 142-177 [unnamed-chunk-1] (exactness.Rmd) - Error: processing vignette 'exactness.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘exactness.Rmd’ + Running examples in ‘ggh4x-Ex.R’ failed + The error most likely occurred in: - --- re-building ‘flipr.Rmd’ using rmarkdown + > ### Name: guide_stringlegend + > ### Title: String legend + > ### Aliases: guide_stringlegend + > + > ### ** Examples + > + > p <- ggplot(mpg, aes(displ, hwy)) + + + geom_point(aes(colour = manufacturer)) + > + > # String legend can be set in the `guides()` function + > p + guides(colour = guide_stringlegend(ncol = 2)) + Error in get_layer_key(...) : + unused argument (list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, + NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, N + Calls: ... -> -> process_layers -> + Execution halted ``` -## In both +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(ggh4x) + Loading required package: ggplot2 + > + > test_check("ggh4x") + [ FAIL 1 | WARN 0 | SKIP 15 | PASS 663 ] + + ... + 11. └─base::Map(...) + 12. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) + 13. └─ggplot2 (local) ``(guide = dots[[1L]][[1L]], param = dots[[2L]][[1L]]) + 14. └─guide$process_layers(param, layers, data, theme) + 15. └─ggplot2 (local) process_layers(..., self = self) + 16. └─self$get_layer_key(params, layers[include], data[include], theme) + + [ FAIL 1 | WARN 0 | SKIP 15 | PASS 663 ] + Error: Test failures + Execution halted + ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘exactness.Rmd’ + when running code in ‘Miscellaneous.Rmd’ ... + + aest .... [TRUNCATED] - > library(flipr) - - > load("../R/sysdata.rda") - Warning in readChar(con, 5L, useBytes = TRUE) : - cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory' - - ... - cannot open compressed file '../R/sysdata.rda', probable reason 'No such file or directory' + > ggplot(diamonds, aes(price, carat, colour = clarity)) + + + geom_point(shape = ".") + scale_colour_brewer(palette = "Dark2", + + guide = "stri ..." ... [TRUNCATED] - When sourcing ‘plausibility.R’: - Error: cannot open the connection + When sourcing ‘Miscellaneous.R’: + Error: unused argument (list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, + NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NUL Execution halted - ‘alternative.Rmd’ using ‘UTF-8’... OK - ‘exactness.Rmd’ using ‘UTF-8’... failed - ‘flipr.Rmd’ using ‘UTF-8’... failed - ‘plausibility.Rmd’ using ‘UTF-8’... failed + ‘Facets.Rmd’ using ‘UTF-8’... OK + ‘Miscellaneous.Rmd’ using ‘UTF-8’... failed + ‘Statistics.Rmd’ using ‘UTF-8’... OK + ‘ggh4x.Rmd’ using ‘UTF-8’... OK ``` -* checking installed package size ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - installed size is 11.2Mb - sub-directories of 1Mb or more: - doc 9.1Mb - libs 1.4Mb + Error(s) in re-building vignettes: + --- re-building ‘Facets.Rmd’ using rmarkdown ``` -# FLOPART +# gghalves
-* Version: 2024.6.19 -* GitHub: NA -* Source code: https://github.com/cran/FLOPART -* Date/Publication: 2024-06-20 21:30:10 UTC -* Number of recursive dependencies: 55 +* Version: 0.1.4 +* GitHub: https://github.com/erocoar/gghalves +* Source code: https://github.com/cran/gghalves +* Date/Publication: 2022-11-20 11:40:02 UTC +* Number of recursive dependencies: 52 -Run `revdepcheck::cloud_details(, "FLOPART")` for more info +Run `revdepcheck::cloud_details(, "gghalves")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘comparison.Rmd’ - ... - - > if (require("ggplot2")) { - + ggplot() + ggtitle("Models with label constraints (FLOPART) and without (penalty values)") + - + scale_fill_m .... [TRUNCATED] - Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. - ℹ Please use `linewidth` instead. + Running examples in ‘gghalves-Ex.R’ failed + The error most likely occurred in: - When sourcing ‘comparison.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + > ### Name: geom_half_boxplot + > ### Title: A half boxplot + > ### Aliases: geom_half_boxplot + > + > ### ** Examples + > + > ggplot(iris, aes(x = Species, y = Petal.Width, fill = Species)) + + + geom_half_boxplot() + Error in unit(x, default.units) : 'x' and 'units' must have length > 0 + Calls: ... grobTree -> gTree -> setChildren -> gList -> linesGrob -> unit Execution halted - - ‘comparison.Rmd’... failed ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking dependencies in R code ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘comparison.Rmd’ using knitr + Namespaces in Imports field not imported from: + ‘grDevices’ ‘gtable’ + All declared Imports should be used. ``` -# fmesher +# ggheatmap
-* Version: 0.1.7 -* GitHub: https://github.com/inlabru-org/fmesher -* Source code: https://github.com/cran/fmesher -* Date/Publication: 2024-07-01 13:00:02 UTC -* Number of recursive dependencies: 93 +* Version: 2.2 +* GitHub: NA +* Source code: https://github.com/cran/ggheatmap +* Date/Publication: 2022-09-10 13:32:55 UTC +* Number of recursive dependencies: 133 + +Run `revdepcheck::cloud_details(, "ggheatmap")` for more info + +
+ +## Newly broken + +* checking whether package ‘ggheatmap’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘ggheatmap’ + See ‘/tmp/workdir/ggheatmap/new/ggheatmap.Rcheck/00install.out’ for details. + ``` + +# gghighlight + +
+ +* Version: 0.4.1 +* GitHub: https://github.com/yutannihilation/gghighlight +* Source code: https://github.com/cran/gghighlight +* Date/Publication: 2023-12-16 01:00:02 UTC +* Number of recursive dependencies: 85 -Run `revdepcheck::cloud_details(, "fmesher")` for more info +Run `revdepcheck::cloud_details(, "gghighlight")` for more info
@@ -8443,76 +7349,90 @@ Run `revdepcheck::cloud_details(, "fmesher")` for more info * checking examples ... ERROR ``` - Running examples in ‘fmesher-Ex.R’ failed + Running examples in ‘gghighlight-Ex.R’ failed The error most likely occurred in: - > ### Name: fm_mesh_1d - > ### Title: Make a 1D mesh object - > ### Aliases: fm_mesh_1d + > ### Name: gghighlight + > ### Title: Highlight Data With Predicate + > ### Aliases: gghighlight > > ### ** Examples > - > if (require("ggplot2")) { + > d <- data.frame( ... - + boundary = c("neumann", "free"), - + degree = 2 - + ) - + ggplot() + - + geom_fm(data = m, xlim = c(0.5, 10.5)) - + } - Loading required package: ggplot2 - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names + 8. │ ├─purrr:::with_indexed_errors(...) + 9. │ │ └─base::withCallingHandlers(...) + 10. │ ├─purrr:::call_with_cleanup(...) + 11. │ └─gghighlight (local) .f(.x[[i]], .y[[i]], ...) + 12. │ └─gghighlight:::get_default_aes_param(nm, layer$geom, layer$mapping) + 13. └─base::.handleSimpleError(...) + 14. └─purrr (local) h(simpleError(msg, call)) + 15. └─cli::cli_abort(...) + 16. └─rlang::abort(...) Execution halted ``` +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(gghighlight) + Loading required package: ggplot2 + > + > test_check("gghighlight") + label_key: type + label_key: type + ... + 15. └─cli::cli_abort(...) + 16. └─rlang::abort(...) + + [ FAIL 2 | WARN 2 | SKIP 1 | PASS 178 ] + Deleting unused snapshots: + • vdiffr/simple-bar-chart-with-facet.svg + • vdiffr/simple-line-chart.svg + • vdiffr/simple-point-chart.svg + Error: Test failures + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘basic_use.Rmd’ + when running code in ‘gghighlight.Rmd’ ... + Warning in is.na(non_null_default_aes[[aes_param_name]]) : + is.na() applied to non-(list or vector) of type 'language' - > plot(mesh2) - - > suppressPackageStartupMessages(library(ggplot2)) - - > ggplot() + geom_fm(data = mesh2) - - When sourcing ‘basic_use.R’: - Error: argument is of length zero + When sourcing ‘gghighlight.R’: + Error: ℹ In index: 1. + ℹ With name: geom_point. + Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ + aes_param_name]])`: + ! 'length = 2' in coercion to 'logical(1)' Execution halted - ‘basic_use.Rmd’ using ‘UTF-8’... failed - ‘fmesher_library.Rmd’ using ‘UTF-8’... OK - ‘inla_conversion.Rmd’ using ‘UTF-8’... OK + ‘gghighlight.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘basic_use.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 12.5Mb - sub-directories of 1Mb or more: - libs 10.5Mb + --- re-building ‘gghighlight.Rmd’ using rmarkdown ``` -# fmf +# ggiraph
-* Version: 1.1.1 -* GitHub: NA -* Source code: https://github.com/cran/fmf -* Date/Publication: 2020-09-03 07:32:12 UTC -* Number of recursive dependencies: 175 +* Version: 0.8.12 +* GitHub: https://github.com/davidgohel/ggiraph +* Source code: https://github.com/cran/ggiraph +* Date/Publication: 2025-01-08 11:10:02 UTC +* Number of recursive dependencies: 89 -Run `revdepcheck::cloud_details(, "fmf")` for more info +Run `revdepcheck::cloud_details(, "ggiraph")` for more info
@@ -8520,89 +7440,75 @@ Run `revdepcheck::cloud_details(, "fmf")` for more info * checking examples ... ERROR ``` - Running examples in ‘fmf-Ex.R’ failed + Running examples in ‘ggiraph-Ex.R’ failed The error most likely occurred in: - > ### Name: plot - > ### Title: PCA Plot of the Noise Score of Each Individual - > ### Aliases: plot + > ### Name: geom_boxplot_interactive + > ### Title: Create interactive boxplot + > ### Aliases: geom_boxplot_interactive > > ### ** Examples > - > + > # add interactive boxplot ------- ... - 17. │ └─ggplot2:::`+.gg`(...) - 18. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 19. │ ├─ggplot2::ggplot_add(object, p, objectname) - 20. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 21. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 22. └─base::.handleSimpleError(...) - 23. └─purrr (local) h(simpleError(msg, call)) - 24. └─cli::cli_abort(...) - 25. └─rlang::abort(...) + 24. │ └─ggplot2 (local) draw_panel(..., self = self) + 25. │ └─base::lapply(...) + 26. │ └─ggplot2 (local) FUN(X[[i]], ...) + 27. │ └─self$draw_group(group, panel_params, coord, ...) + 28. └─base::.handleSimpleError(...) + 29. └─rlang (local) h(simpleError(msg, call)) + 30. └─handlers[[1L]](cnd) + 31. └─cli::cli_abort(...) + 32. └─rlang::abort(...) Execution halted ``` -## In both - -* checking C++ specification ... NOTE +* checking tests ... ERROR ``` - Specified C++11: please drop specification unless essential + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. + Complete output: + > if (requireNamespace("tinytest", quietly = TRUE)) { + + tinytest::test_package("ggiraph") + + } + + test-annotate_interactive.R... 0 tests + test-annotate_interactive.R... 0 tests + test-annotate_interactive.R... 0 tests + ... + 30. │ └─base::lapply(...) + 31. │ └─ggplot2 (local) FUN(X[[i]], ...) + 32. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) + 33. │ └─self$draw_panel(...) + 34. └─base::.handleSimpleError(...) + 35. └─rlang (local) h(simpleError(msg, call)) + 36. └─handlers[[1L]](cnd) + 37. └─cli::cli_abort(...) + 38. └─rlang::abort(...) + Execution halted ``` -# forestly - -
- -* Version: 0.1.1 -* GitHub: https://github.com/Merck/forestly -* Source code: https://github.com/cran/forestly -* Date/Publication: 2024-07-08 19:40:02 UTC -* Number of recursive dependencies: 84 - -Run `revdepcheck::cloud_details(, "forestly")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘forest-plot-static.Rmd’ - ... - Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on 'Treatment← Favor →Placebo' in 'mbcsToSbcs': dot substituted for - Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on 'Treatment← Favor →Placebo' in 'mbcsToSbcs': dot substituted for <86> - Warning in grid.Call(C_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on 'Treatment← Favor →Placebo' in 'mbcsToSbcs': dot substituted for <92> - - When sourcing ‘forest-plot-static.R’: - Error: object is not a unit - Execution halted - - ‘forest-plot-static.Rmd’ using ‘UTF-8’... failed - ‘forestly-cran.Rmd’ using ‘UTF-8’... OK - ``` +## In both -* checking re-building of vignette outputs ... NOTE +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘forest-plot-static.Rmd’ using rmarkdown + installed size is 8.1Mb + sub-directories of 1Mb or more: + R 1.5Mb + libs 5.2Mb ``` -# FossilSim +# ggiraphExtra
-* Version: 2.4.0 -* GitHub: NA -* Source code: https://github.com/cran/FossilSim -* Date/Publication: 2024-09-05 19:40:02 UTC -* Number of recursive dependencies: 155 +* Version: 0.3.0 +* GitHub: https://github.com/cardiomoon/ggiraphExtra +* Source code: https://github.com/cran/ggiraphExtra +* Date/Publication: 2020-10-06 07:00:02 UTC +* Number of recursive dependencies: 110 -Run `revdepcheck::cloud_details(, "FossilSim")` for more info +Run `revdepcheck::cloud_details(, "ggiraphExtra")` for more info
@@ -8610,34 +7516,40 @@ Run `revdepcheck::cloud_details(, "FossilSim")` for more info * checking examples ... ERROR ``` - Running examples in ‘FossilSim-Ex.R’ failed + Running examples in ‘ggiraphExtra-Ex.R’ failed The error most likely occurred in: - > ### Name: plot.fbdrange - > ### Title: Plot oriented tree with stratigraphic ranges - > ### Aliases: plot.fbdrange + > ### Name: ggBoxplot + > ### Title: Draw boxplots of a data.frame + > ### Aliases: ggBoxplot > > ### ** Examples > - > tree_file <- system.file("extdata", "fbdrange.trees", package = "FossilSim") - > fbdr <- get_fbdrange_from_file(tree_file) - > p <- plot(fbdr, smart.labels = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > require(ggplot2) + ... + 21. │ └─ggplot2 (local) draw_panel(..., self = self) + 22. │ └─base::lapply(...) + 23. │ └─ggplot2 (local) FUN(X[[i]], ...) + 24. │ └─self$draw_group(group, panel_params, coord, ...) + 25. └─base::.handleSimpleError(...) + 26. └─rlang (local) h(simpleError(msg, call)) + 27. └─handlers[[1L]](cnd) + 28. └─cli::cli_abort(...) + 29. └─rlang::abort(...) Execution halted ``` -# FPDclustering +# ggmcmc
-* Version: 2.3.1 -* GitHub: NA -* Source code: https://github.com/cran/FPDclustering -* Date/Publication: 2024-01-30 00:10:06 UTC -* Number of recursive dependencies: 104 +* Version: 1.5.1.1 +* GitHub: https://github.com/xfim/ggmcmc +* Source code: https://github.com/cran/ggmcmc +* Date/Publication: 2021-02-10 10:50:10 UTC +* Number of recursive dependencies: 74 -Run `revdepcheck::cloud_details(, "FPDclustering")` for more info +Run `revdepcheck::cloud_details(, "ggmcmc")` for more info
@@ -8645,438 +7557,386 @@ Run `revdepcheck::cloud_details(, "FPDclustering")` for more info * checking examples ... ERROR ``` - Running examples in ‘FPDclustering-Ex.R’ failed + Running examples in ‘ggmcmc-Ex.R’ failed The error most likely occurred in: - > ### Name: GPDC - > ### Title: Gaussian PD-Clustering - > ### Aliases: GPDC + > ### Name: ggs_geweke + > ### Title: Dotplot of the Geweke diagnostic, the standard Z-score + > ### Aliases: ggs_geweke > > ### ** Examples > - > #Load the data - ... - > #Results - > table(res$label,ais$sex) - - f m - 1 95 1 - 2 5 101 - > plot(res) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > data(linear) + > ggs_geweke(ggs(s)) + Error in grid.Call.graphics(C_polygon, x$x, x$y, index) : + invalid line type + Calls: ... drawDetails -> drawDetails.polygon -> grid.Call.graphics Execution halted ``` -# frailtyEM - -
- -* Version: 1.0.1 -* GitHub: https://github.com/tbalan/frailtyEM -* Source code: https://github.com/cran/frailtyEM -* Date/Publication: 2019-09-22 13:00:10 UTC -* Number of recursive dependencies: 78 - -Run `revdepcheck::cloud_details(, "frailtyEM")` for more info - -
- -## Newly broken +## In both -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘frailtyEM-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘using_ggmcmc.Rmd’ + ... - > ### Name: summary.emfrail - > ### Title: Summary for 'emfrail' objects - > ### Aliases: summary.emfrail - > - > ### ** Examples - > - > data("bladder") - ... - filter + > ggs_crosscorrelation(S) - The following object is masked from ‘package:graphics’: + > ggs_Rhat(S) + xlab("R_hat") - layout + > ggs_geweke(S) - > ggplotly(pl2) - Error in pm[[2]] : subscript out of bounds - Calls: ggplotly -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -## In both - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘frailtyEM_manual.Rnw’ using Sweave - Loading required package: survival - Loading required package: gridExtra - Warning: The `` argument of `guides()` cannot be `FALSE`. Use - "none" instead as of ggplot2 3.3.4. - Warning: Removed 2 rows containing missing values or values outside - the scale range (`geom_path()`). - Warning in data("kidney") : data set ‘kidney’ not found - Warning in emfrail(Surv(time, status) ~ age + sex + cluster(id), data = kidney, : ... - l.179 \RequirePackage{grfext}\relax - ^^M - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘frailtyEM_manual.Rnw’ + + par(mar = c(4, 4, 0.1, 0.1), cex .... [TRUNCATED] - SUMMARY: processing the following file failed: - ‘frailtyEM_manual.Rnw’ + > knit_theme$set("print") - Error: Vignette re-building failed. + When sourcing 'v70i09.R': + Error: argument is of length zero Execution halted + + ‘using_ggmcmc.Rmd’ using ‘UTF-8’... failed + ‘v70i09.Rnw’ using ‘UTF-8’... failed ``` -# funcharts - -
- -* Version: 1.5.0 -* GitHub: https://github.com/unina-sfere/funcharts -* Source code: https://github.com/cran/funcharts -* Date/Publication: 2024-07-19 12:00:31 UTC -* Number of recursive dependencies: 127 - -Run `revdepcheck::cloud_details(, "funcharts")` for more info - -
- -## Newly broken - -* checking examples ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Running examples in ‘funcharts-Ex.R’ failed - The error most likely occurred in: - - > ### Name: pca_mfd - > ### Title: Multivariate functional principal components analysis - > ### Aliases: pca_mfd - > - > ### ** Examples - > - > library(funcharts) - > mfdobj <- data_sim_mfd() - > pca_obj <- pca_mfd(mfdobj) - > plot_pca_mfd(pca_obj) - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘using_ggmcmc.Rmd’ using rmarkdown ``` -# FunnelPlotR +# ggmice
-* Version: 0.5.0 -* GitHub: https://github.com/nhs-r-community/FunnelPlotR -* Source code: https://github.com/cran/FunnelPlotR -* Date/Publication: 2024-04-12 08:40:02 UTC -* Number of recursive dependencies: 85 +* Version: 0.1.0 +* GitHub: https://github.com/amices/ggmice +* Source code: https://github.com/cran/ggmice +* Date/Publication: 2023-08-07 14:20:02 UTC +* Number of recursive dependencies: 122 -Run `revdepcheck::cloud_details(, "FunnelPlotR")` for more info +Run `revdepcheck::cloud_details(, "ggmice")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘FunnelPlotR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: funnel_plot - > ### Title: Funnel plots for comparing institutional performance - > ### Aliases: funnel_plot - > - > ### ** Examples - > - > # We will use the 'medpar' dataset from the 'COUNT' package. - ... - > # Draw plot, returning just the plot object - > fp<-funnel_plot(medpar, denominator=prds, numerator=los, - + group = provnum, limit=95, title="An example funnel plot") - > - > # Methods for viewing/extracting - > print(fp) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: print ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘changing_funnel_plot_options.Rmd’ + when running code in ‘old_friends.Rmd’ ... - + family = "poisson", data = medpar) + layout - > medpar$prds <- predict(mod, newdata = medpar, type = "response") - > funnel_plot(medpar, denominator = prds, numerator = los, - + group = provnum, limit = 99, label = "outlier", draw_unadjusted = TRUE) + > p <- plot_flux(dat) - ... - + group = provnum, title = "Length of Stay Funnel plot for `medpar` data", - + draw .... [TRUNCATED] - Plotting using unadjusted limits + > ggplotly(p) - When sourcing ‘funnel_plots.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘old_friends.R’: + Error: subscript out of bounds Execution halted - ‘changing_funnel_plot_options.Rmd’ using ‘UTF-8’... failed - ‘funnel_plots.Rmd’ using ‘UTF-8’... failed + ‘ggmice.Rmd’ using ‘UTF-8’... OK + ‘old_friends.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘changing_funnel_plot_options.Rmd’ using rmarkdown - - Quitting from lines 33-49 [dtsetup] (changing_funnel_plot_options.Rmd) - Error: processing vignette 'changing_funnel_plot_options.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘changing_funnel_plot_options.Rmd’ - - --- re-building ‘funnel_plots.Rmd’ using rmarkdown + --- re-building ‘ggmice.Rmd’ using rmarkdown ``` -# genekitr +# ggmosaic
-* Version: 1.2.8 -* GitHub: https://github.com/GangLiLab/genekitr -* Source code: https://github.com/cran/genekitr -* Date/Publication: 2024-09-06 13:00:06 UTC -* Number of recursive dependencies: 202 +* Version: 0.3.3 +* GitHub: https://github.com/haleyjeppson/ggmosaic +* Source code: https://github.com/cran/ggmosaic +* Date/Publication: 2021-02-23 19:50:02 UTC +* Number of recursive dependencies: 76 -Run `revdepcheck::cloud_details(, "genekitr")` for more info +Run `revdepcheck::cloud_details(, "ggmosaic")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘ggmosaic’ can be installed ... ERROR ``` - Running examples in ‘genekitr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotVenn - > ### Title: Venn plot for groups of genes - > ### Aliases: plotVenn - > - > ### ** Examples - > - > k1 = requireNamespace("ComplexUpset",quietly = TRUE) - ... - + use_venn = FALSE, - + main_text_size = 15, - + legend_text_size = 8, - + legend_position = 'left' - + ) - + } - Color length should be same with venn_list, auto assign colors... - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plotVenn ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Installation failed. + See ‘/tmp/workdir/ggmosaic/new/ggmosaic.Rcheck/00install.out’ for details. ``` -# geoheatmap +## Newly fixed + +* checking dependencies in R code ... NOTE + ``` + ':::' call which should be '::': ‘scales:::censor’ + See the note in ?`:::` about the use of this operator. + Unexported object imported by a ':::' call: ‘productplots:::bound’ + See the note in ?`:::` about the use of this operator. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘ggmosaic’ ... +** package ‘ggmosaic’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +Error in get(x, envir = ns, inherits = FALSE) : + object 'is.waive' not found +Error: unable to load R code in package ‘ggmosaic’ +Execution halted +ERROR: lazy loading failed for package ‘ggmosaic’ +* removing ‘/tmp/workdir/ggmosaic/new/ggmosaic.Rcheck/ggmosaic’ + + +``` +### CRAN + +``` +* installing *source* package ‘ggmosaic’ ... +** package ‘ggmosaic’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +*** moving datasets to lazyload DB +** inst +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +*** copying figures +** building package indices +** installing vignettes +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (ggmosaic) + + +``` +# ggmulti
-* Version: 0.1.0 +* Version: 1.0.7 * GitHub: NA -* Source code: https://github.com/cran/geoheatmap -* Date/Publication: 2024-09-05 15:40:02 UTC -* Number of recursive dependencies: 106 +* Source code: https://github.com/cran/ggmulti +* Date/Publication: 2024-04-09 09:40:05 UTC +* Number of recursive dependencies: 125 -Run `revdepcheck::cloud_details(, "geoheatmap")` for more info +Run `revdepcheck::cloud_details(, "ggmulti")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘geoheatmap.Rmd’ + Running examples in ‘ggmulti-Ex.R’ failed + The error most likely occurred in: + + > ### Name: coord_radial + > ### Title: Radial axes + > ### Aliases: coord_radial + > + > ### ** Examples + > + > if(require("dplyr")) { + ... + The following objects are masked from ‘package:base’: + + intersect, setdiff, setequal, union + + Warning: Duplicated aesthetics after name standardisation: PTS + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, + Calls: ... -> -> compute_geom_2 -> + Execution halted + ``` + +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > + > + > library(testthat) + > library(ggmulti) + Loading required package: ggplot2 + + Attaching package: 'ggmulti' + ... + 16. └─base::Map(...) + 17. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) + 18. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) + 19. └─layer$compute_geom_2(key, single_params, theme) + 20. └─ggplot2 (local) compute_geom_2(..., self = self) + 21. └─self$geom$use_defaults(...) + + [ FAIL 4 | WARN 5 | SKIP 0 | PASS 30 ] + Error: Test failures + Execution halted + ``` + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘glyph.Rmd’ ... - + facet_col = "state", value_col = "teams", merge_col = "name_de", - + .... [TRUNCATED] + + Sepal.Width, colour = Species), serialaxes.data = iris, axes.layout = "radia ..." ... [TRUNCATED] - > geoheatmap(facet_data = football_teams, grid_data = de_states_grid1, - + facet_col = "state", value_col = "teams", merge_col = "name_de", - + .... [TRUNCATED] + When sourcing ‘glyph.R’: + Error: Base operators are not defined for quosures. Do you need to unquote the + quosure? - When sourcing ‘geoheatmap.R’: - Error: subscript out of bounds + # Bad: myquosure / rhs + ... + > p + + When sourcing ‘highDim.R’: + Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(), NULL, list( + NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, Execution halted - ‘geoheatmap.Rmd’ using ‘UTF-8’... failed + ‘glyph.Rmd’ using ‘UTF-8’... failed + ‘highDim.Rmd’ using ‘UTF-8’... failed + ‘histogram-density-.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘geoheatmap.Rmd’ using rmarkdown + --- re-building ‘glyph.Rmd’ using rmarkdown ``` -# geomtextpath +# ggparallel
-* Version: 0.1.4 -* GitHub: https://github.com/AllanCameron/geomtextpath -* Source code: https://github.com/cran/geomtextpath -* Date/Publication: 2024-06-13 06:40:02 UTC -* Number of recursive dependencies: 94 +* Version: 0.4.0 +* GitHub: https://github.com/heike/ggparallel +* Source code: https://github.com/cran/ggparallel +* Date/Publication: 2024-03-09 22:00:02 UTC +* Number of recursive dependencies: 50 -Run `revdepcheck::cloud_details(, "geomtextpath")` for more info +Run `revdepcheck::cloud_details(, "ggparallel")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘geomtextpath-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_textsf - > ### Title: Visualise sf objects with labels - > ### Aliases: geom_textsf geom_labelsf - > - > ### ** Examples - > - > ggplot(waterways) + - ... - 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) - 20. │ └─self$draw_panel(data, panel_params, coord, na.rm = FALSE, legend = "other") - 21. │ └─geomtextpath (local) draw_panel(...) - 22. │ └─geomtextpath:::sf_textgrob(...) - 23. └─base::.handleSimpleError(...) - 24. └─rlang (local) h(simpleError(msg, call)) - 25. └─handlers[[1L]](cnd) - 26. └─cli::cli_abort(...) - 27. └─rlang::abort(...) - Execution halted - ``` - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(geomtextpath) - Loading required package: ggplot2 - > - > test_check("geomtextpath") - [ FAIL 1 | WARN 0 | SKIP 4 | PASS 463 ] - + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html ... - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Error ('test-sf.R:91:3'): We can make grobs from sf features ──────────────── - Error in `(x$boxlinewidth %||% defaults$linewidth[type_ind]) * 3.779528`: non-numeric argument to binary operator - Backtrace: - ▆ - 1. └─geomtextpath:::sf_textgrob(river, as_textbox = TRUE) at test-sf.R:91:3 + 12. │ └─ggplot2::layer_data(..., self = self) + 13. └─base::.handleSimpleError(...) + 14. └─rlang (local) h(simpleError(msg, call)) + 15. └─handlers[[1L]](cnd) + 16. └─cli::cli_abort(...) + 17. └─rlang::abort(...) - [ FAIL 1 | WARN 0 | SKIP 4 | PASS 463 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted ``` -# geostan +# ggparty
-* Version: 0.6.2 -* GitHub: https://github.com/ConnorDonegan/geostan -* Source code: https://github.com/cran/geostan -* Date/Publication: 2024-06-04 09:45:37 UTC -* Number of recursive dependencies: 108 +* Version: 1.0.0 +* GitHub: https://github.com/martin-borkovec/ggparty +* Source code: https://github.com/cran/ggparty +* Date/Publication: 2019-07-18 10:54:06 UTC +* Number of recursive dependencies: 117 -Run `revdepcheck::cloud_details(, "geostan")` for more info +Run `revdepcheck::cloud_details(, "ggparty")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘geostan-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘ggparty-graphic-partying.Rmd’ + ... - > ### Name: print.geostan_fit - > ### Title: print or plot a fitted geostan model - > ### Aliases: print.geostan_fit plot.geostan_fit - > - > ### ** Examples - > - > data(georgia) - ... - log(income) -1.013 0.001 0.019 -1.049 -1.029 -1.014 -0.998 -0.974 188 1.003 + > ggparty(tr_tree, terminal_space = 0.4, layout = data.frame(id = c(1, + + 2, 5, 7), x = c(0.35, 0.15, 0.7, 0.8), y = c(0.95, 0.6, 0.8, + + 0.55 .... [TRUNCATED] + Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. + ℹ Please use `linewidth` instead. - Samples were drawn using NUTS(diag_e) at Tue Sep 10 09:34:29 2024. - For each parameter, n_eff is a crude measure of effective sample size, - and Rhat is the potential scale reduction factor on split chains (at - convergence, Rhat=1). - > plot(fit) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + When sourcing ‘ggparty-graphic-partying.R’: + Error: unused argument (h.start = 100) Execution halted + + ‘ggparty-graphic-partying.Rmd’ using ‘UTF-8’... failed + ‘on-the-edge.Rmd’ using ‘UTF-8’... OK ``` -## In both - -* checking installed package size ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - installed size is 129.8Mb - sub-directories of 1Mb or more: - libs 127.7Mb + Error(s) in re-building vignettes: + --- re-building ‘ggparty-graphic-partying.Rmd’ using rmarkdown + + Quitting from lines 42-122 [unnamed-chunk-2] (ggparty-graphic-partying.Rmd) + Error: processing vignette 'ggparty-graphic-partying.Rmd' failed with diagnostics: + unused argument (h.start = 100) + --- failed re-building ‘ggparty-graphic-partying.Rmd’ + + --- re-building ‘on-the-edge.Rmd’ using rmarkdown ``` +## In both + * checking dependencies in R code ... NOTE ``` - Namespaces in Imports field not imported from: - ‘RcppParallel’ ‘rstantools’ + Namespace in Imports field not imported from: ‘survival’ All declared Imports should be used. ``` -* checking for GNU extensions in Makefiles ... NOTE +* checking LazyData ... NOTE ``` - GNU make is a SystemRequirements. + 'LazyData' is specified without a 'data' directory ``` -# GGally +# ggplotlyExtra
-* Version: 2.2.1 -* GitHub: https://github.com/ggobi/ggally -* Source code: https://github.com/cran/GGally -* Date/Publication: 2024-02-14 00:53:32 UTC -* Number of recursive dependencies: 146 +* Version: 0.0.1 +* GitHub: NA +* Source code: https://github.com/cran/ggplotlyExtra +* Date/Publication: 2019-12-02 16:20:06 UTC +* Number of recursive dependencies: 70 -Run `revdepcheck::cloud_details(, "GGally")` for more info +Run `revdepcheck::cloud_details(, "ggplotlyExtra")` for more info
@@ -9084,208 +7944,210 @@ Run `revdepcheck::cloud_details(, "GGally")` for more info * checking examples ... ERROR ``` - Running examples in ‘GGally-Ex.R’ failed + Running examples in ‘ggplotlyExtra-Ex.R’ failed The error most likely occurred in: - > ### Name: +.gg - > ### Title: Modify a 'ggmatrix' object by adding an 'ggplot2' object to all - > ### plots - > ### Aliases: +.gg add_to_ggmatrix + > ### Name: ggplotly_histogram + > ### Title: Clean 'ggplot2' Histogram to be Converted to 'Plotly' + > ### Aliases: ggplotly_histogram > > ### ** Examples > - ... - > p_ <- GGally::print_if_interactive - > data(tips) > - > pm <- ggpairs(tips[, 2:4], ggplot2::aes(color = sex)) - > ## change to black and white theme - > pm + ggplot2::theme_bw() + ... + + xlab("len") `stat_bin()` using `bins = 30`. Pick better value with `binwidth`. - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + Warning in geom_bar(data = layerdata, mapping = aes(x = .data$x, y = .data$count, : + Ignoring unknown aesthetics: label1, label2, and label3 + > + > # convert `ggplot` object to `plotly` object + > ggplotly(p, tooltip = c("Range", "count", "density")) + Error in pm[[2]] : subscript out of bounds + Calls: ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -* checking tests ... ERROR +## In both + +* checking LazyData ... NOTE ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > if (requireNamespace("testthat", quietly = TRUE)) { - + library(testthat) - + library(GGally) - + - + test_check("GGally") - + } - ... - 20. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE) - 21. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) - 22. └─grid:::drawGrob(x) - 23. ├─grid::drawDetails(x, recording = FALSE) - 24. └─grid:::drawDetails.polyline(x, recording = FALSE) - 25. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) - - [ FAIL 20 | WARN 1 | SKIP 22 | PASS 426 ] - Error: Test failures - Execution halted + 'LazyData' is specified without a 'data' directory ``` -# gganimate +# ggpol
-* Version: 1.0.9 -* GitHub: https://github.com/thomasp85/gganimate -* Source code: https://github.com/cran/gganimate -* Date/Publication: 2024-02-27 14:00:03 UTC -* Number of recursive dependencies: 97 +* Version: 0.0.7 +* GitHub: https://github.com/erocoar/ggpol +* Source code: https://github.com/cran/ggpol +* Date/Publication: 2020-11-08 13:40:02 UTC +* Number of recursive dependencies: 54 -Run `revdepcheck::cloud_details(, "gganimate")` for more info +Run `revdepcheck::cloud_details(, "ggpol")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(gganimate) - Loading required package: ggplot2 - > - > test_check("gganimate") - [ FAIL 1 | WARN 3 | SKIP 1 | PASS 5 ] - + Running examples in ‘ggpol-Ex.R’ failed + The error most likely occurred in: + + > ### Name: GeomConfmat + > ### Title: Confusion Matrix + > ### Aliases: GeomConfmat geom_confmat stat_confmat + > + > ### ** Examples + > + > x <- sample(LETTERS[seq(4)], 50, replace = TRUE) ... - 3. ├─gganimate::animate(p, nframes = 2) at test-anim_save.R:14:5 - 4. └─gganimate:::animate.gganim(p, nframes = 2) - 5. └─args$renderer(frames_vars$frame_source, args$fps) - 6. └─gganimate:::png_dim(frames[1]) - 7. └─cli::cli_abort("Provided file ({file}) does not exist") - 8. └─rlang::abort(...) - - [ FAIL 1 | WARN 3 | SKIP 1 | PASS 5 ] - Error: Test failures - Execution halted + 21. │ └─ggpol (local) draw_panel(...) + 22. │ └─base::lapply(GeomText$default_aes[missing_aes], rlang::eval_tidy) + 23. │ └─rlang (local) FUN(X[[i]], ...) + 24. ├─ggplot2::from_theme(fontsize) + 25. └─base::.handleSimpleError(...) + 26. └─rlang (local) h(simpleError(msg, call)) + 27. └─handlers[[1L]](cnd) + 28. └─cli::cli_abort(...) + 29. └─rlang::abort(...) + Execution halted ``` -* checking running R code from vignettes ... ERROR +## In both + +* checking dependencies in R code ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘gganimate.Rmd’ - ... - Theme element `panel.grid.major.y` is missing - Theme element `panel.grid.major.x` is missing - Warning: Failed to plot frame - Caused by error in `UseMethod()`: - ! no applicable method for 'element_grob' applied to an object of class "NULL" - - When sourcing ‘gganimate.R’: - Error: Provided file (/tmp/RtmpPBufaF/165c2292cd97/gganim_plot0001.png) does - not exist - Execution halted - - ‘gganimate.Rmd’ using ‘UTF-8’... failed + Namespaces in Imports field not imported from: + ‘dplyr’ ‘grDevices’ + All declared Imports should be used. ``` -* checking re-building of vignette outputs ... NOTE +* checking LazyData ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘gganimate.Rmd’ using rmarkdown + 'LazyData' is specified without a 'data' directory ``` -# ggbrain +# ggpp
-* Version: 0.8.1 -* GitHub: https://github.com/michaelhallquist/ggbrain -* Source code: https://github.com/cran/ggbrain -* Date/Publication: 2023-03-21 18:00:05 UTC -* Number of recursive dependencies: 74 +* Version: 0.5.8-1 +* GitHub: https://github.com/aphalo/ggpp +* Source code: https://github.com/cran/ggpp +* Date/Publication: 2024-07-01 07:40:02 UTC +* Number of recursive dependencies: 81 -Run `revdepcheck::cloud_details(, "ggbrain")` for more info +Run `revdepcheck::cloud_details(, "ggpp")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘ggpp-Ex.R’ failed + The error most likely occurred in: + + > ### Name: geom_label_s + > ### Title: Linked Text + > ### Aliases: geom_label_s geom_text_s + > + > ### ** Examples + > + > + ... + + arrow = arrow(angle = 20, + + length = grid::unit(1.5, "mm"), + + ends = "first", + + type = "closed")) + + + scale_colour_discrete(l = 40) + # luminance, make colours darker + + expand_limits(y = 27) + Error in discrete_scale(aesthetics, palette = NULL, na.value = na.value, : + argument 4 matches multiple formal arguments + Calls: scale_colour_discrete + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggbrain_introduction.Rmd’ + when running code in ‘grammar-extensions.Rmd’ ... - > gg_obj <- gg_base + geom_brain(definition = "underlay", - + fill_scale = scale_fill_gradient(low = "grey8", high = "grey62"), - + show_legend .... [TRUNCATED] + > my.cars <- my.cars[order(my.cars$wt), ] - > gg_obj$render() + > ggplot(my.cars, aes(wt, mpg, label = name)) + geom_point() + + + geom_text_s(aes(colour = factor(cyl)), vjust = 0.5, angle = 90, + + nudge .... [TRUNCATED] - ... - - > plot(gg_obj) - - When sourcing ‘ggbrain_labels.R’: - Error: argument is of length zero + When sourcing ‘grammar-extensions.R’: + Error: argument 4 matches multiple formal arguments Execution halted - ‘ggbrain_aesthetics.Rmd’ using ‘UTF-8’... OK - ‘ggbrain_introduction.Rmd’ using ‘UTF-8’... failed - ‘ggbrain_labels.Rmd’ using ‘UTF-8’... failed + ‘grammar-extensions.Rmd’ using ‘UTF-8’... failed + ‘nudge-examples.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘ggbrain_aesthetics.Rmd’ using rmarkdown - --- finished re-building ‘ggbrain_aesthetics.Rmd’ - - --- re-building ‘ggbrain_introduction.Rmd’ using rmarkdown - - Quitting from lines 238-239 [unnamed-chunk-16] (ggbrain_introduction.Rmd) - Error: processing vignette 'ggbrain_introduction.Rmd' failed with diagnostics: - argument is of length zero - ... - Quitting from lines 47-54 [unnamed-chunk-2] (ggbrain_labels.Rmd) - Error: processing vignette 'ggbrain_labels.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘ggbrain_labels.Rmd’ - - SUMMARY: processing the following files failed: - ‘ggbrain_introduction.Rmd’ ‘ggbrain_labels.Rmd’ - - Error: Vignette re-building failed. - Execution halted + --- re-building ‘grammar-extensions.Rmd’ using rmarkdown ``` -## In both +# ggpubr -* checking installed package size ... NOTE +
+ +* Version: 0.6.0 +* GitHub: https://github.com/kassambara/ggpubr +* Source code: https://github.com/cran/ggpubr +* Date/Publication: 2023-02-10 16:20:02 UTC +* Number of recursive dependencies: 91 + +Run `revdepcheck::cloud_details(, "ggpubr")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - installed size is 10.8Mb - sub-directories of 1Mb or more: - doc 3.0Mb - extdata 1.6Mb - libs 5.5Mb + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(ggpubr) + Loading required package: ggplot2 + + Attaching package: 'ggpubr' + + The following object is masked from 'package:ggplot2': + ... + [6] 6 - 10 == -4 + [7] 19 - 9 == 10 + [9] 1 - 7 == -6 + [10] 6 - 7 == -1 + [11] 13 - 6 == 7 + ... + + [ FAIL 2 | WARN 5 | SKIP 0 | PASS 183 ] + Error: Test failures + Execution halted ``` -# ggbreak +# ggraph
-* Version: 0.1.2 -* GitHub: https://github.com/YuLab-SMU/ggbreak -* Source code: https://github.com/cran/ggbreak -* Date/Publication: 2023-06-26 05:40:02 UTC -* Number of recursive dependencies: 64 +* Version: 2.2.1 +* GitHub: https://github.com/thomasp85/ggraph +* Source code: https://github.com/cran/ggraph +* Date/Publication: 2024-03-07 12:40:02 UTC +* Number of recursive dependencies: 115 -Run `revdepcheck::cloud_details(, "ggbreak")` for more info +Run `revdepcheck::cloud_details(, "ggraph")` for more info
@@ -9293,61 +8155,82 @@ Run `revdepcheck::cloud_details(, "ggbreak")` for more info * checking examples ... ERROR ``` - Running examples in ‘ggbreak-Ex.R’ failed + Running examples in ‘ggraph-Ex.R’ failed The error most likely occurred in: - > ### Name: scale_wrap - > ### Title: scale-wrap - > ### Aliases: scale_wrap + > ### Name: geom_conn_bundle + > ### Title: Create hierarchical edge bundles between node connections + > ### Aliases: geom_conn_bundle geom_conn_bundle2 geom_conn_bundle0 > > ### ** Examples > - > library(ggplot2) - > library(ggbreak) - > p <- ggplot(economics, aes(x=date, y = unemploy, colour = uempmed)) + - + geom_line() - > p + scale_wrap(n=4) - Error in identicalUnits(x) : object is not a unit - Calls: -> print.ggwrap + > # Create a graph of the flare class system + ... + + ) + + + geom_node_point(aes(filter = leaf, colour = class)) + + + scale_edge_colour_distiller('', direction = 1, guide = 'edge_direction') + + + coord_fixed() + + + ggforce::theme_no_axes() + Error in get_layer_key(...) : + unused argument (list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, list(), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, + 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, + Calls: ... -> -> process_layers -> Execution halted ``` +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘Edges.Rmd’ using rmarkdown + ``` + +## In both + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggbreak.Rmd’ + when running code in ‘Edges.Rmd’ ... - > p1 + p2 - - > p2 + scale_x_break(c(18, 21)) + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database - > p1 + scale_x_break(c(7, 17), scales = 1.5) + scale_x_break(c(18, - + 21), scales = 2) + ... + font family 'Arial' not found in PostScript font database - When sourcing ‘ggbreak.R’: - Error: second argument must be a list + When sourcing ‘tidygraph.R’: + Error: invalid font type Execution halted - ‘ggbreak.Rmd’ using ‘UTF-8’... failed + ‘Edges.Rmd’ using ‘UTF-8’... failed + ‘Layouts.Rmd’ using ‘UTF-8’... failed + ‘Nodes.Rmd’ using ‘UTF-8’... failed + ‘tidygraph.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘ggbreak.Rmd’ using rmarkdown + installed size is 8.9Mb + sub-directories of 1Mb or more: + R 1.5Mb + doc 3.9Mb + libs 2.8Mb ``` -# ggcharts +# ggredist
-* Version: 0.2.1 -* GitHub: https://github.com/thomas-neitmann/ggcharts -* Source code: https://github.com/cran/ggcharts -* Date/Publication: 2020-05-20 00:40:02 UTC -* Number of recursive dependencies: 87 +* Version: 0.0.2 +* GitHub: https://github.com/alarm-redist/ggredist +* Source code: https://github.com/cran/ggredist +* Date/Publication: 2022-11-23 11:20:02 UTC +* Number of recursive dependencies: 67 -Run `revdepcheck::cloud_details(, "ggcharts")` for more info +Run `revdepcheck::cloud_details(, "ggredist")` for more info
@@ -9355,47 +8238,66 @@ Run `revdepcheck::cloud_details(, "ggcharts")` for more info * checking examples ... ERROR ``` - Running examples in ‘ggcharts-Ex.R’ failed + Running examples in ‘ggredist-Ex.R’ failed The error most likely occurred in: - > ### Name: bar_chart - > ### Title: Bar Chart - > ### Aliases: bar_chart column_chart + > ### Name: geom_district_text + > ### Title: Label Map Regions + > ### Aliases: geom_district_text geom_district_label + > ### stat_district_coordinates StatDistrictCoordinates GeomDistrictText + > ### Keywords: datasets > > ### ** Examples - > - > data(biomedicalrevenue) - > revenue2018 <- biomedicalrevenue[biomedicalrevenue$year == 2018, ] - > revenue_roche <- biomedicalrevenue[biomedicalrevenue$company == "Roche", ] - > - > ## By default bar_chart() creates a horizontal and sorted plot - > bar_chart(revenue2018, company, revenue) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: bar_chart ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + ... + 22. │ └─coord$transform(data, panel_params) + 23. │ └─ggplot2 (local) transform(..., self = self) + 24. │ └─ggplot2:::sf_rescale01(data[[geom_column(data)]], x_range, y_range) + 25. │ └─sf::st_normalize(x, c(x_range[1], y_range[1], x_range[2], y_range[2])) + 26. └─base::.handleSimpleError(...) + 27. └─rlang (local) h(simpleError(msg, call)) + 28. └─handlers[[1L]](cnd) + 29. └─cli::cli_abort(...) + 30. └─rlang::abort(...) Execution halted ``` +# ggRtsy + +
+ +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/ggRtsy +* Date/Publication: 2023-09-15 19:12:05 UTC +* Number of recursive dependencies: 68 + +Run `revdepcheck::cloud_details(, "ggRtsy")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(ggcharts) - Loading required package: ggplot2 - > - > test_check("ggcharts") - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 4 ] + > library(ggplot2) + > library(dplyr) + + Attaching package: 'dplyr' + The following object is masked from 'package:testthat': ... - 4. └─ggcharts::bar_chart(revenue_2018, company, revenue) - 5. └─ggplot2:::`+.gg`(...) - 6. └─ggplot2:::add_ggplot(e1, e2, e2name) - 7. ├─ggplot2::ggplot_add(object, p, objectname) - 8. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 9. └─ggplot2:::new_layer_names(object, names(plot$layers)) + 13. │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler) + 14. │ └─vctrs::vec_as_location(i, n, names = names, arg = arg, call = call) + 15. └─vctrs (local) ``() + 16. └─vctrs:::stop_subscript_oob(...) + 17. └─vctrs:::stop_subscript(...) + 18. └─rlang::abort(...) - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 4 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 3 ] Error: Test failures Execution halted ``` @@ -9403,132 +8305,83 @@ Run `revdepcheck::cloud_details(, "ggcharts")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘customize.Rmd’ + when running code in ‘Vignette.Rmd’ ... - > dreaded_lang <- tibble::tribble(~language, ~pct, "VBA", - + 75.2, "Objective-C", 68.7, "Assembly", 64.4, "C", 57.5, "PHP", - + 54.2, "Erlang", .... [TRUNCATED] - - > (chart <- lollipop_chart(dreaded_lang, language, pct, - + highlight = "R")) - - ... + |Antique White |(238, 223, 204) |#eedfcc | - > lollipop_chart(diamonds, cut, highlight = "Good") + > RectangleFiller(plotExample, c("#e32636", "#9966cc", + + "#f4c2c2", "#e16827")) - When sourcing ‘themes.R’: - Error: argument is of length zero + When sourcing ‘Vignette.R’: + Error: Can't extract rows past the end. + ℹ Location 1 doesn't exist. + ℹ There are only 0 rows. Execution halted - ‘customize.Rmd’ using ‘UTF-8’... failed - ‘highlight.Rmd’ using ‘UTF-8’... failed - ‘themes.Rmd’ using ‘UTF-8’... failed + ‘Vignette.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘customize.Rmd’ using rmarkdown - - Quitting from lines 25-44 [unnamed-chunk-2] (customize.Rmd) - Error: processing vignette 'customize.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘customize.Rmd’ + ... + --- re-building ‘Vignette.Rmd’ using rmarkdown - --- re-building ‘highlight.Rmd’ using rmarkdown + Quitting from lines 48-49 [unnamed-chunk-2] (Vignette.Rmd) + Error: processing vignette 'Vignette.Rmd' failed with diagnostics: + Can't extract rows past the end. + ℹ Location 1 doesn't exist. + ℹ There are only 0 rows. + --- failed re-building ‘Vignette.Rmd’ - Quitting from lines 37-44 [unnamed-chunk-2] (highlight.Rmd) - Error: processing vignette 'highlight.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘highlight.Rmd’ + SUMMARY: processing the following file failed: + ‘Vignette.Rmd’ - --- re-building ‘themes.Rmd’ using rmarkdown + Error: Vignette re-building failed. + Execution halted ``` -# ggdark +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 19 marked UTF-8 strings + ``` + +# ggScatRidges
-* Version: 0.2.1 -* GitHub: NA -* Source code: https://github.com/cran/ggdark -* Date/Publication: 2019-01-11 17:30:06 UTC -* Number of recursive dependencies: 46 +* Version: 0.1.1 +* GitHub: https://github.com/matbou85/ggScatRidges +* Source code: https://github.com/cran/ggScatRidges +* Date/Publication: 2024-03-25 10:20:05 UTC +* Number of recursive dependencies: 87 -Run `revdepcheck::cloud_details(, "ggdark")` for more info +Run `revdepcheck::cloud_details(, "ggScatRidges")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘ggScatRidges’ can be installed ... WARNING ``` - Running examples in ‘ggdark-Ex.R’ failed - The error most likely occurred in: - - > ### Name: dark_mode - > ### Title: Activate dark mode on a 'ggplot2' theme - > ### Aliases: dark_mode - > - > ### ** Examples - > - > library(ggplot2) - ... - > - > p1 <- ggplot(iris, aes(Sepal.Width, Sepal.Length, color = Species)) + - + geom_point() - > - > p1 # theme returned by theme_get() - > p1 + dark_mode() # activate dark mode on theme returned by theme_get() - Error in match(x, table, nomatch = 0L) : - 'match' requires vector arguments - Calls: dark_mode -> %in% - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggdark) - > - > test_check("ggdark") - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - ── Error ('test_dark_mode.R:10:1'): (code run outside of `test_that()`) ──────── - Error in `match(x, table, nomatch = 0L)`: 'match' requires vector arguments - Backtrace: - ▆ - 1. └─ggdark::dark_mode(light_theme) at test_dark_mode.R:10:1 - 2. └─geoms[["GeomPoint"]]$default_aes$colour %in% ... - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘ggScatRidges’ + See ‘/tmp/workdir/ggScatRidges/new/ggScatRidges.Rcheck/00install.out’ for details. ``` -# ggdist +# ggseqplot
-* Version: 3.3.2 -* GitHub: https://github.com/mjskay/ggdist -* Source code: https://github.com/cran/ggdist -* Date/Publication: 2024-03-05 05:30:23 UTC +* Version: 0.8.5 +* GitHub: https://github.com/maraab23/ggseqplot +* Source code: https://github.com/cran/ggseqplot +* Date/Publication: 2024-10-29 16:30:02 UTC * Number of recursive dependencies: 127 -Run `revdepcheck::cloud_details(, "ggdist")` for more info +Run `revdepcheck::cloud_details(, "ggseqplot")` for more info
@@ -9536,26 +8389,26 @@ Run `revdepcheck::cloud_details(, "ggdist")` for more info * checking examples ... ERROR ``` - Running examples in ‘ggdist-Ex.R’ failed + Running examples in ‘ggseqplot-Ex.R’ failed The error most likely occurred in: - > ### Name: Pr_ - > ### Title: Probability expressions in ggdist aesthetics - > ### Aliases: Pr_ p_ + > ### Name: ggseqtrplot + > ### Title: Sequence Transition Rate Plot + > ### Aliases: ggseqtrplot > > ### ** Examples > - > library(ggplot2) + > # Use example data from TraMineR: biofam data set ... - + ) + 8 7 7 Divorced + [>] sum of weights: 330.07 - min/max: 0/6.02881860733032 + [>] 300 sequences in the data set + [>] min/max sequence length: 16/16 > - > # map density onto alpha of the fill - > ggplot(df, aes(y = name, xdist = d)) + - + stat_slabinterval(aes(alpha = !!p_(x))) - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU - Calls: ... -> -> compute_geom_2 -> + > # Basic transition rate plot (with adjusted x-axis labels) + > ggseqtrplot(biofam.seq, x_n.dodge = 2) + Error in ggseqtrplot(biofam.seq, x_n.dodge = 2) : + labsize must be a single number Execution halted ``` @@ -9564,227 +8417,249 @@ Run `revdepcheck::cloud_details(, "ggdist")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html + > library(testthat) + > library(ggseqplot) + Loading required package: TraMineR + + TraMineR stable version 2.2-11 (Built: 2024-12-09) + Website: http://traminer.unige.ch + Please type 'citation("TraMineR")' for citation information. ... - • test.stat_sample_slabinterval/nas-with-na-rm-true.svg - • test.subguide/dots-subguide-with-side-vertical.svg - • test.subguide/integer-subguide-with-zero-range.svg - • test.subguide/slab-subguide-with-inside-labels-vertical.svg - • test.subguide/slab-subguide-with-outside-labels-vert.svg - • test.subguide/slab-subguide-with-outside-labels.svg - • test.subguide/slab-subguide-with-side-vertical.svg - • test.theme_ggdist/facet-titles-on-left.svg + Backtrace: + ▆ + 1. ├─testthat::expect_s3_class(ggseqtrplot(biofam.seq), "ggplot") at test-ggseqtrplot.R:35:3 + 2. │ └─testthat::quasi_label(enquo(object), arg = "object") + 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) + 4. └─ggseqplot::ggseqtrplot(biofam.seq) + + [ FAIL 1 | WARN 16 | SKIP 0 | PASS 131 ] Error: Test failures Execution halted ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘dotsinterval.Rmd’ using rmarkdown - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - - Quitting from lines 49-161 [dotsinterval_components] (dotsinterval.Rmd) - Error: processing vignette 'dotsinterval.Rmd' failed with diagnostics: - Problem while setting up geom aesthetics. - ... - - --- re-building ‘freq-uncertainty-vis.Rmd’ using rmarkdown - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - ``` - -## In both - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘dotsinterval.Rmd’ + when running code in ‘ggseqplot.Rmd’ ... - + xdist = dist)) + geom_hline(yintercept = 0:1, color = "gray95") + - + stat_dotsin .... [TRUNCATED] + Scale for fill is already present. + Adding another scale for fill, which will replace the existing scale. + Scale for fill is already present. + Adding another scale for fill, which will replace the existing scale. - When sourcing ‘dotsinterval.R’: - Error: Problem while setting up geom aesthetics. - ℹ Error occurred in the 2nd layer. - Caused by error in `use_defaults()`: - ... - ℹ Error occurred in the 1st layer. - Caused by error in `use_defaults()`: - ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, - 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), + > ggseqtrplot(actcal.seq, group = actcal$sex) + + When sourcing ‘ggseqplot.R’: + Error: labsize must be a single number Execution halted - ‘dotsinterval.Rmd’ using ‘UTF-8’... failed - ‘freq-uncertainty-vis.Rmd’ using ‘UTF-8’... failed - ‘lineribbon.Rmd’ using ‘UTF-8’... failed - ‘slabinterval.Rmd’ using ‘UTF-8’... failed + ‘ggseqplot.Rmd’ using ‘UTF-8’... failed ``` -* checking installed package size ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - installed size is 5.6Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 1.3Mb - help 1.5Mb + Error(s) in re-building vignettes: + --- re-building ‘ggseqplot.Rmd’ using rmarkdown ``` -# ggeasy +# ggside
-* Version: 0.1.4 -* GitHub: https://github.com/jonocarroll/ggeasy -* Source code: https://github.com/cran/ggeasy -* Date/Publication: 2023-03-12 10:00:23 UTC -* Number of recursive dependencies: 94 +* Version: 0.3.1 +* GitHub: https://github.com/jtlandis/ggside +* Source code: https://github.com/cran/ggside +* Date/Publication: 2024-03-01 09:12:37 UTC +* Number of recursive dependencies: 75 -Run `revdepcheck::cloud_details(, "ggeasy")` for more info +Run `revdepcheck::cloud_details(, "ggside")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘ggeasy-Ex.R’ failed - The error most likely occurred in: - - > ### Name: easy_labs - > ### Title: Easily add ggplot labels using label attribute of 'data.frame' - > ### column - > ### Aliases: easy_labs - > - > ### ** Examples - > - ... - + ggplot2::geom_line(ggplot2::aes(colour=Species)) - > - > p - > - > p + easy_labs() - > p + easy_labs(title = "Plot Title", subtitle = 'Plot Subtitle', x = 'x axis label') - Error in utils::modifyList(p_labs, as.list(unlist(man_labs))) : - is.list(x) is not TRUE - Calls: +.gg ... ggplot_add.easy_labs -> easy_update_labs -> -> stopifnot - Execution halted - ``` - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(ggeasy) + > library(ggplot2) + > library(ggside) + Registered S3 method overwritten by 'ggside': + method from + +.gg ggplot2 > - > test_check("ggeasy") - [ FAIL 6 | WARN 0 | SKIP 1 | PASS 505 ] - - ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ ... - 1. └─ggeasy (local) expect_eqNe(easy_res$labels[sort(names(easy_res$labels))], hard_res$labels[sort(names(hard_res$labels))]) at test-labs.R:76:3 - 2. └─testthat::expect_equal(..., check.environment = FALSE) at test-labs.R:6:16 - - [ FAIL 6 | WARN 0 | SKIP 1 | PASS 505 ] - Deleting unused snapshots: - • labs/labels-attrib.svg - • labs/labels-manual.svg - • labs/labels-mytitle.svg + • ops_meaningful/alpha-0-5-from-function.svg + • side_layers/boxplot2.svg + • vdiff_irisScatter/collapsed-histo.svg + • vdiff_irisScatter/facetgrid-collapsed-density.svg + • vdiff_irisScatter/facetgrid-histo.svg + • vdiff_irisScatter/facetgrid-side-density.svg + • vdiff_irisScatter/stacked-side-density.svg + • vdiff_irisScatter/yside-histo.svg Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘shortcuts.Rmd’ - ... - - > p1 <- p + labs(title = "default labels") - - > p2 <- p + easy_labs() + labs(title = "Replace titles with column labels") - - > p3 <- p + easy_labs(x = "My x axis") + labs(title = "Manually add x axis label") - - When sourcing ‘shortcuts.R’: - Error: is.list(x) is not TRUE - Execution halted - - ‘shortcuts.Rmd’ using ‘UTF-8’... failed - ‘tests_and_coverage.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE +* checking for code/documentation mismatches ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘shortcuts.Rmd’ using rmarkdown + Codoc mismatches from documentation object 'geom_xsideabline': + geom_xsidehline + Code: function(mapping = NULL, data = NULL, position = "identity", + ..., yintercept, na.rm = FALSE, show.legend = NA) + Docs: function(mapping = NULL, data = NULL, ..., yintercept, na.rm = + FALSE, show.legend = NA) + Argument names in code not in docs: + position + Mismatches in argument names (first 3): + Position: 3 Code: position Docs: ... + ... + Docs: function(mapping = NULL, data = NULL, stat = "identity", + position = "identity", ..., lineend = "butt", linejoin + = "round", linemitre = 10, arrow = NULL, na.rm = + FALSE, show.legend = NA, inherit.aes = TRUE) + Argument names in code not in docs: + arrow.fill + Mismatches in argument names: + Position: 10 Code: arrow.fill Docs: na.rm + Position: 11 Code: na.rm Docs: show.legend + Position: 12 Code: show.legend Docs: inherit.aes ``` -# ggedit +# ggsmc
-* Version: 0.4.1 -* GitHub: https://github.com/yonicd/ggedit -* Source code: https://github.com/cran/ggedit -* Date/Publication: 2024-03-04 14:40:02 UTC -* Number of recursive dependencies: 95 +* Version: 0.1.2.0 +* GitHub: https://github.com/richardgeveritt/ggsmc +* Source code: https://github.com/cran/ggsmc +* Date/Publication: 2024-07-27 17:00:02 UTC +* Number of recursive dependencies: 83 -Run `revdepcheck::cloud_details(, "ggedit")` for more info +Run `revdepcheck::cloud_details(, "ggsmc")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘ggedit-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘Visualising.Rmd’ + ... + 20 /tmp/Rtmp9H70El/b9497eff43/gganim_plot0020.png - > ### Name: dput.ggedit - > ### Title: Convert ggplot object to a string call - > ### Aliases: dput.ggedit - > - > ### ** Examples - > - > - > pList$pointSmooth #original compiled plot - `geom_smooth()` using formula = 'y ~ x' - Error in compute_geom_2(..., self = self) : - unused arguments (list(6), list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, - Calls: ... get_layer_key -> Map -> mapply -> -> + > data(lv_output) + + > animate_reveal_time_series(lv_output, parameters = c("X", + + "Y"), alpha = 0.5, ylimits = c(0, 600), duration = 10) + + When sourcing ‘Visualising.R’: + Error: attempt to apply non-function Execution halted + + ‘Visualising.Rmd’ using ‘UTF-8’... failed ``` -# ggESDA +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 175 marked UTF-8 strings + ``` + +# ggtern
-* Version: 0.2.0 -* GitHub: https://github.com/kiangkiangkiang/ggESDA -* Source code: https://github.com/cran/ggESDA -* Date/Publication: 2022-08-19 08:40:10 UTC -* Number of recursive dependencies: 214 +* Version: 3.5.0 +* GitHub: NA +* Source code: https://github.com/cran/ggtern +* Date/Publication: 2024-03-24 21:50:02 UTC +* Number of recursive dependencies: 42 -Run `revdepcheck::cloud_details(, "ggESDA")` for more info +Run `revdepcheck::cloud_details(, "ggtern")` for more info + +
+ +## Newly broken + +* checking whether package ‘ggtern’ can be installed ... ERROR + ``` + Installation failed. + See ‘/tmp/workdir/ggtern/new/ggtern.Rcheck/00install.out’ for details. + ``` + +## Newly fixed + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘chemometrics’ + ``` + +## In both + +* checking package dependencies ... NOTE + ``` + Package which this enhances but not available for checking: ‘sp’ + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘ggtern’ ... +** package ‘ggtern’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +** demo +** inst +** byte-compile and prepare package for lazy loading +Error in get(x, envir = ns, inherits = FALSE) : + object 'update_guides' not found +Error: unable to load R code in package ‘ggtern’ +Execution halted +ERROR: lazy loading failed for package ‘ggtern’ +* removing ‘/tmp/workdir/ggtern/new/ggtern.Rcheck/ggtern’ + + +``` +### CRAN + +``` +* installing *source* package ‘ggtern’ ... +** package ‘ggtern’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** data +** demo +** inst +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +** building package indices +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (ggtern) + + +``` +# ggTimeSeries + +
+ +* Version: 1.0.2 +* GitHub: https://github.com/thecomeonman/ggTimeSeries +* Source code: https://github.com/cran/ggTimeSeries +* Date/Publication: 2022-01-23 16:22:42 UTC +* Number of recursive dependencies: 55 + +Run `revdepcheck::cloud_details(, "ggTimeSeries")` for more info
@@ -9792,71 +8667,106 @@ Run `revdepcheck::cloud_details(, "ggESDA")` for more info * checking examples ... ERROR ``` - Running examples in ‘ggESDA-Ex.R’ failed + Running examples in ‘ggTimeSeries-Ex.R’ failed The error most likely occurred in: - > ### Name: BLOOD - > ### Title: BLOOD data example - > ### Aliases: BLOOD - > ### Keywords: datasets + > ### Name: ggplot_calendar_heatmap + > ### Title: Plots a calendar heatmap + > ### Aliases: ggplot_calendar_heatmap > > ### ** Examples > - > data(BLOOD) - > ggInterval_minmax(BLOOD, aes(x = Hematocrit)) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggInterval_minmax ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > { + ... + + p1 + + # add new geoms + + p1 + + + geom_text(label = '!!!') + + + scale_colour_continuous(low = 'red', high = 'green') + + } + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "red", high = "green") + Calls: scale_colour_continuous Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggESDA.Rmd’ + when running code in ‘ggTimeSeries.Rmd’ ... - [1] "knit_image_paths" "knit_asis" + + "%m")) - 6.5)) * runif(1) * 0.75), .I] - > CONCEPT <- rep(c("FRA", "HUS", "INC", "ISA", "JPL", - + "KHA", "LOT", "PHI", "ROM"), each = 3) + > p1 = ggplot_calendar_heatmap(dtData, "DateCol", "ValueCol") - > p <- ggInterval_PCA(facedata, poly = T, concepts_group = CONCEPT) + > p1 + xlab(NULL) + ylab(NULL) + scale_fill_continuous(low = "green", + + high = "red") + facet_wrap(~Year, ncol = 1) - When sourcing ‘ggESDA.R’: - Error: argument is of length zero + When sourcing ‘ggTimeSeries.R’: + Error: unused arguments (low = "green", high = "red") Execution halted - ‘ggESDA.Rmd’ using ‘UTF-8’... failed + ‘ggTimeSeries.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘ggESDA.Rmd’ using rmarkdown - - Quitting from lines 390-406 [ggInterval_PCA] (ggESDA.Rmd) - Error: processing vignette 'ggESDA.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘ggESDA.Rmd’ - - SUMMARY: processing the following file failed: - ‘ggESDA.Rmd’ + --- re-building ‘ggTimeSeries.Rmd’ using rmarkdown + ``` + +# ggupset + +
+ +* Version: 0.4.0 +* GitHub: https://github.com/const-ae/ggupset +* Source code: https://github.com/cran/ggupset +* Date/Publication: 2024-06-24 10:10:04 UTC +* Number of recursive dependencies: 45 + +Run `revdepcheck::cloud_details(, "ggupset")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘ggupset-Ex.R’ failed + The error most likely occurred in: - Error: Vignette re-building failed. + > ### Name: axis_combmatrix + > ### Title: Convert delimited text labels into a combination matrix axis + > ### Aliases: axis_combmatrix + > + > ### ** Examples + > + > library(ggplot2) + ... + Datsun 710 Cyl: 4_Gears: 4 + Hornet 4 Drive Cyl: 6_Gears: 3 + Hornet Sportabout Cyl: 8_Gears: 3 + Valiant Cyl: 6_Gears: 3 + > ggplot(mtcars, aes(x=combined)) + + + geom_bar() + + + axis_combmatrix(sep = "_") + Error in as.unit(e2) : object is not coercible to a unit + Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit Execution halted ``` -# ggExtra +# ggVennDiagram
-* Version: 0.10.1 -* GitHub: https://github.com/daattali/ggExtra -* Source code: https://github.com/cran/ggExtra -* Date/Publication: 2023-08-21 14:40:02 UTC -* Number of recursive dependencies: 117 +* Version: 1.5.2 +* GitHub: https://github.com/gaospecial/ggVennDiagram +* Source code: https://github.com/cran/ggVennDiagram +* Date/Publication: 2024-02-20 08:10:02 UTC +* Number of recursive dependencies: 97 -Run `revdepcheck::cloud_details(, "ggExtra")` for more info +Run `revdepcheck::cloud_details(, "ggVennDiagram")` for more info
@@ -9865,86 +8775,81 @@ Run `revdepcheck::cloud_details(, "ggExtra")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggExtra.Rmd’ + when running code in ‘fully-customed.Rmd’ ... + [1] "b" "c" "e" "h" "k" "q" "s" "y" - > p1 <- ggplot(df1, aes(x, y)) + geom_point() + theme_bw() - > p1 + > ggVennDiagram(y, show_intersect = TRUE, set_color = "black") + Warning in geom_text(aes(label = .data$count, text = .data$item), data = region_label) : + Ignoring unknown aesthetics: text - > ggMarginal(p1) + ... + Ignoring unknown aesthetics: text - When sourcing ‘ggExtra.R’: - Error: argument is of length zero + When sourcing ‘using-ggVennDiagram.R’: + Error: subscript out of bounds Execution halted - ‘ggExtra.Rmd’... failed + ‘VennCalculator.Rmd’ using ‘UTF-8’... OK + ‘fully-customed.Rmd’ using ‘UTF-8’... failed + ‘using-ggVennDiagram.Rmd’ using ‘UTF-8’... failed + ‘using-new-shapes.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘ggExtra.Rmd’ using rmarkdown + --- re-building ‘VennCalculator.Rmd’ using rmarkdown + --- finished re-building ‘VennCalculator.Rmd’ + + --- re-building ‘fully-customed.Rmd’ using rmarkdown ``` ## In both -* checking dependencies in R code ... NOTE +* checking installed package size ... NOTE ``` - Namespaces in Imports field not imported from: - ‘R6’ ‘scales’ ‘utils’ - All declared Imports should be used. + installed size is 11.1Mb + sub-directories of 1Mb or more: + doc 9.5Mb + help 1.1Mb ``` -# ggfacto +# GimmeMyPlot
-* Version: 0.3.1 -* GitHub: https://github.com/BriceNocenti/ggfacto -* Source code: https://github.com/cran/ggfacto -* Date/Publication: 2024-08-30 15:00:02 UTC -* Number of recursive dependencies: 164 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/GimmeMyPlot +* Date/Publication: 2023-10-18 16:10:02 UTC +* Number of recursive dependencies: 117 -Run `revdepcheck::cloud_details(, "ggfacto")` for more info +Run `revdepcheck::cloud_details(, "GimmeMyPlot")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘GimmeMyPlot’ can be installed ... WARNING ``` - Running examples in ‘ggfacto-Ex.R’ failed - The error most likely occurred in: - - > ### Name: MCA2 - > ### Title: Multiple Correspondence Analysis - > ### Aliases: MCA2 - > - > ### ** Examples - > - > data(tea, package = "FactoMineR") - > res.mca <- MCA2(tea, active_vars = 1:18) - > - > res.mca %>% - + ggmca(tea, sup_vars = c("SPC"), ylim = c(NA, 1.2), text_repel = TRUE) %>% - + ggi() #to make the graph interactive - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘GimmeMyPlot’ + See ‘/tmp/workdir/GimmeMyPlot/new/GimmeMyPlot.Rcheck/00install.out’ for details. ``` -# ggfixest +# greed
-* Version: 0.1.0 -* GitHub: https://github.com/grantmcdermott/ggfixest -* Source code: https://github.com/cran/ggfixest -* Date/Publication: 2023-12-14 08:00:06 UTC -* Number of recursive dependencies: 78 +* Version: 0.6.1 +* GitHub: https://github.com/comeetie/greed +* Source code: https://github.com/cran/greed +* Date/Publication: 2022-10-03 22:00:05 UTC +* Number of recursive dependencies: 96 -Run `revdepcheck::cloud_details(, "ggfixest")` for more info +Run `revdepcheck::cloud_details(, "greed")` for more info
@@ -9952,109 +8857,152 @@ Run `revdepcheck::cloud_details(, "ggfixest")` for more info * checking tests ... ERROR ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. + Running ‘spelling.R’ + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: - > ## Throttle CPU threads if R CMD check (for CRAN) + > library(testthat) + > library(greed) > - > if (any(grepl("_R_CHECK", names(Sys.getenv()), fixed = TRUE))) { - + # fixest - + if (requireNamespace("fixest", quietly = TRUE)) { - + library(fixest) - + setFixest_nthreads(1) + > test_check("greed") + [ FAIL 10 | WARN 3 | SKIP 0 | PASS 291 ] + ... - ----- FAILED[]: test_ggiplot.R<192--192> - call| expect_snapshot_plot(p19a, label = "ggiplot_multi_complex_kitchen_iid") - diff| 1774 - info| Diff plot saved to: _tinysnapshot_review/ggiplot_multi_complex_kitchen_iid.png - ----- FAILED[]: test_ggiplot.R<193--193> - call| expect_snapshot_plot(p19b, label = "ggiplot_multi_complex_kitchen_iid") - diff| 1774 - info| Diff plot saved to: _tinysnapshot_review/ggiplot_multi_complex_kitchen_iid.png - Error: 16 out of 101 tests failed + 15. └─ggplot2:::ggplot_gtable.ggplot_built(ggplot_build(x)) + 16. └─plot$guides$assemble(theme) + 17. └─ggplot2 (local) assemble(..., self = self) + 18. └─self$package_box(grobs[[i]], position, theme + adjust) + 19. └─ggplot2 (local) package_box(...) + 20. └─theme$legend.box.just %||% ... + + [ FAIL 10 | WARN 3 | SKIP 0 | PASS 291 ] + Error: Test failures Execution halted ``` ## In both -* checking running R code from vignettes ... ERROR +* checking C++ specification ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘ggiplot.Rmd’ - ... - > iplot(list(TWFE = est_twfe_grp, `Sun & Abraham (2020)` = est_sa20_grp), - + ref.line = -1, main = "Staggered treatment: Split mutli-sample") - The degrees of freedom for the t distribution could not be deduced. Using a Normal distribution instead. - Note that you can provide the argument `df.t` directly. - - When sourcing ‘ggiplot.R’: - Error: in iplot(list(TWFE = est_twfe_grp, `Sun & Abraham (2...: - The 1st element of 'object' raises and error: - Error in nb * sd : non-numeric argument to binary operator - Execution halted - - ‘ggiplot.Rmd’ using ‘UTF-8’... failed + Specified C++11: please drop specification unless essential + ``` + +* checking installed package size ... NOTE + ``` + installed size is 32.1Mb + sub-directories of 1Mb or more: + data 2.0Mb + libs 28.7Mb + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 989 marked UTF-8 strings ``` -# ggfocus +# Greymodels
-* Version: 1.0.0 -* GitHub: https://github.com/Freguglia/ggfocus -* Source code: https://github.com/cran/ggfocus -* Date/Publication: 2020-01-23 13:20:02 UTC -* Number of recursive dependencies: 55 +* Version: 2.0.1 +* GitHub: https://github.com/havishaJ/Greymodels +* Source code: https://github.com/cran/Greymodels +* Date/Publication: 2022-12-05 12:42:35 UTC +* Number of recursive dependencies: 89 -Run `revdepcheck::cloud_details(, "ggfocus")` for more info +Run `revdepcheck::cloud_details(, "Greymodels")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR + ``` + Running examples in ‘Greymodels-Ex.R’ failed + The error most likely occurred in: + + > ### Name: Plots + > ### Title: plots + > ### Aliases: plots plotrm plotsmv1 plotsmv2 plotsigndgm plots_mdbgm12 + > + > ### ** Examples + > + > # Plots - EPGM (1, 1) model + ... + + geom_point(data = set4, aes(x = CI, y = y), shape = 23, color = "black") + + + geom_line(data = xy1, aes(x = x, y = y,color = "Raw Data")) + + + geom_line(data = xy2, aes(x = x, y = y,color = "Fitted&Forecasts")) + + + geom_line(data = set3, aes(x = CI, y = y,color = "LowerBound"), linetype=2) + + + geom_line(data = set4, aes(x = CI, y = y,color = "UpperBound"), linetype=2) + + + scale_color_manual(name = "Label",values = colors) + > r <- ggplotly(p) + Error in pm[[2]] : subscript out of bounds + Calls: ggplotly -> ggplotly.ggplot -> gg2list + Execution halted + ``` + +# healthyR + +
+ +* Version: 0.2.2 +* GitHub: https://github.com/spsanderson/healthyR +* Source code: https://github.com/cran/healthyR +* Date/Publication: 2024-07-01 13:20:02 UTC +* Number of recursive dependencies: 146 + +Run `revdepcheck::cloud_details(, "healthyR")` for more info + +
+ +## Newly broken + +* checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘introduction_to_ggfocus.Rmd’ + when running code in ‘getting-started.Rmd’ ... - + geom_point() + scale_alpha_focus(c("A", "B"), alpha_other = 0.5) + - + scale_c .... [TRUNCATED] + + .by = "month", .interactive = FALSE) + Warning: Ignoring unknown labels: + • `colour = "Legend"` - > ggplot(datasets::airquality, aes(x = Day, y = Temp, - + linetype = factor(Month), group = factor(Month))) + geom_line() + - + scale_linetype_f .... [TRUNCATED] + > ts_alos_plt(.data = df_tbl, .date_col = Date, .value_col = Values, + + .by = "month", .interactive = TRUE) - When sourcing ‘introduction_to_ggfocus.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘getting-started.R’: + Error: subscript out of bounds Execution halted - ‘introduction_to_ggfocus.Rmd’ using ‘UTF-8’... failed + ‘getting-started.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘introduction_to_ggfocus.Rmd’ using rmarkdown + --- re-building ‘getting-started.Rmd’ using rmarkdown ``` ## In both -* checking LazyData ... NOTE +* checking installed package size ... NOTE ``` - 'LazyData' is specified without a 'data' directory + installed size is 6.6Mb + sub-directories of 1Mb or more: + data 2.5Mb + doc 3.7Mb ``` -# ggforce +# healthyR.ts
-* Version: 0.4.2 -* GitHub: https://github.com/thomasp85/ggforce -* Source code: https://github.com/cran/ggforce -* Date/Publication: 2024-02-19 11:00:02 UTC -* Number of recursive dependencies: 69 +* Version: 0.3.1 +* GitHub: https://github.com/spsanderson/healthyR.ts +* Source code: https://github.com/cran/healthyR.ts +* Date/Publication: 2024-10-11 23:00:03 UTC +* Number of recursive dependencies: 209 -Run `revdepcheck::cloud_details(, "ggforce")` for more info +Run `revdepcheck::cloud_details(, "healthyR.ts")` for more info
@@ -10062,90 +9010,101 @@ Run `revdepcheck::cloud_details(, "ggforce")` for more info * checking examples ... ERROR ``` - Running examples in ‘ggforce-Ex.R’ failed + Running examples in ‘healthyR.ts-Ex.R’ failed The error most likely occurred in: - > ### Name: facet_row - > ### Title: One-dimensional facets - > ### Aliases: facet_row facet_col + > ### Name: tidy_fft + > ### Title: Tidy Style FFT + > ### Aliases: tidy_fft > > ### ** Examples > - > # Standard use - > ggplot(mtcars) + - + geom_point(aes(disp, mpg)) + - + facet_col(~gear) - Error in space$x : $ operator is invalid for atomic vectors - Calls: ... -> draw_panels -> -> init_gtable + > suppressPackageStartupMessages(library(dplyr)) + ... + > a <- tidy_fft( + + .data = data_tbl, + + .value_col = value, + + .date_col = date_col, + + .harmonics = 3, + + .frequency = 12 + + ) + Error in pm[[2]] : subscript out of bounds + Calls: tidy_fft -> -> ggplotly.ggplot -> gg2list + Execution halted + ``` + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘using-tidy-fft.Rmd’ + ... + $ value 112, 118, 132, 129, 121, 135, 148, 148, 136, 119, 104, 118, 1… + + > suppressPackageStartupMessages(library(timetk)) + + > data_tbl %>% plot_time_series(.date_var = date_col, + + .value = value) + + When sourcing ‘using-tidy-fft.R’: + Error: subscript out of bounds Execution halted + + ‘getting-started.Rmd’ using ‘UTF-8’... OK + ‘using-tidy-fft.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘getting-started.Rmd’ using rmarkdown ``` ## In both * checking installed package size ... NOTE ``` - installed size is 27.8Mb + installed size is 6.3Mb sub-directories of 1Mb or more: - R 1.5Mb - help 1.2Mb - libs 25.0Mb + doc 5.3Mb ``` -# ggformula +# heatmaply
-* Version: 0.12.0 -* GitHub: https://github.com/ProjectMOSAIC/ggformula -* Source code: https://github.com/cran/ggformula -* Date/Publication: 2023-11-09 12:30:07 UTC -* Number of recursive dependencies: 123 +* Version: 1.5.0 +* GitHub: https://github.com/talgalili/heatmaply +* Source code: https://github.com/cran/heatmaply +* Date/Publication: 2023-10-06 20:50:02 UTC +* Number of recursive dependencies: 110 -Run `revdepcheck::cloud_details(, "ggformula")` for more info +Run `revdepcheck::cloud_details(, "heatmaply")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘ggformula-Ex.R’ failed - The error most likely occurred in: - - > ### Name: discrete_breaks - > ### Title: Discrete Breaks - > ### Aliases: discrete_breaks - > - > ### ** Examples - > - > x <- rbinom(100, 100, 0.4) - > p <- gf_bar( ~ x) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: gf_bar ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(ggformula) + > library(heatmaply) + Loading required package: plotly Loading required package: ggplot2 - Loading required package: scales - Loading required package: ggridges - New to ggformula? Try the tutorials: + Attaching package: 'plotly' + ... - • layer-factory/gf-text1.svg - • layer-factory/gf-text2.svg - • layer-factory/gf-tile1.svg - • layer-factory/proportions-within-all-dodge.svg - • layer-factory/proportions-within-fill-dodge.svg - • layer-factory/proportions-within-fill-facet-grid-and-group.svg - • layer-factory/proportions-within-fill-facet-grid.svg - • layer-factory/proportions-within-group-facet-grid.svg + 4. │ │ └─base::withCallingHandlers(...) + 5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) + 6. ├─heatmaply:::predict_colors(ggplotly(g), plot_method = "ggplot") + 7. ├─plotly::ggplotly(g) + 8. └─plotly:::ggplotly.ggplot(g) + 9. └─plotly::gg2list(...) + + [ FAIL 58 | WARN 0 | SKIP 0 | PASS 193 ] Error: Test failures Execution halted ``` @@ -10153,60 +9112,35 @@ Run `revdepcheck::cloud_details(, "ggformula")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggformula.Rmd’ + when running code in ‘heatmaply.Rmd’ ... - > theme_set(theme_light()) + > library("heatmaply") - > library(ggformula) + > library("heatmaply") - > gf_point(mpg ~ hp, data = mtcars) + > heatmaply(mtcars) - When sourcing ‘ggformula.R’: - Error: argument is of length zero + When sourcing ‘heatmaply.R’: + Error: subscript out of bounds Execution halted - ‘ggformula.Rmd’ using ‘UTF-8’... failed - ``` - -* checking for code/documentation mismatches ... WARNING - ``` - Codoc mismatches from documentation object 'gf_abline': - gf_hline - Code: function(object = NULL, gformula = NULL, data = NULL, ..., - yintercept, color, linetype, linewidth, alpha, xlab, - ylab, title, subtitle, caption, position = "identity", - show.legend = NA, show.help = NULL, inherit = FALSE, - environment = parent.frame()) - Docs: function(object = NULL, gformula = NULL, data = NULL, ..., - yintercept, color, linetype, linewidth, alpha, xlab, - ylab, title, subtitle, caption, show.legend = NA, - ... - xintercept, color, linetype, linewidth, alpha, xlab, - ylab, title, subtitle, caption, show.legend = NA, - show.help = NULL, inherit = FALSE, environment = - parent.frame()) - Argument names in code not in docs: - position - Mismatches in argument names (first 3): - Position: 15 Code: position Docs: show.legend - Position: 16 Code: show.legend Docs: show.help - Position: 17 Code: show.help Docs: inherit + ‘heatmaply.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘ggformula.Rmd’ using rmarkdown + --- re-building ‘heatmaply.Rmd’ using rmarkdown - Quitting from lines 106-109 [simple-example] (ggformula.Rmd) - Error: processing vignette 'ggformula.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘ggformula.Rmd’ + Quitting from lines 109-111 [unnamed-chunk-5] (heatmaply.Rmd) + Error: processing vignette 'heatmaply.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘heatmaply.Rmd’ SUMMARY: processing the following file failed: - ‘ggformula.Rmd’ + ‘heatmaply.Rmd’ Error: Vignette re-building failed. Execution halted @@ -10214,132 +9148,191 @@ Run `revdepcheck::cloud_details(, "ggformula")` for more info ## In both -* checking Rd cross-references ... NOTE +* checking installed package size ... NOTE ``` - Packages unavailable to check Rd xrefs: ‘akima’, ‘ggforce’ + installed size is 5.5Mb + sub-directories of 1Mb or more: + doc 5.1Mb ``` -# ggfortify +# hesim
-* Version: 0.4.17 -* GitHub: https://github.com/sinhrks/ggfortify -* Source code: https://github.com/cran/ggfortify -* Date/Publication: 2024-04-17 04:30:04 UTC -* Number of recursive dependencies: 125 +* Version: 0.5.5 +* GitHub: https://github.com/hesim-dev/hesim +* Source code: https://github.com/cran/hesim +* Date/Publication: 2024-09-18 23:10:02 UTC +* Number of recursive dependencies: 106 -Run `revdepcheck::cloud_details(, "ggfortify")` for more info +Run `revdepcheck::cloud_details(, "hesim")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘ggfortify-Ex.R’ failed - The error most likely occurred in: - - > ### Name: autoplot.cv.glmnet - > ### Title: Autoplot 'glmnet::cv.glmnet' - > ### Aliases: autoplot.cv.glmnet - > - > ### ** Examples - > - > if (requireNamespace("survival", quietly = TRUE)) { - + autoplot(glmnet::cv.glmnet(data.matrix(Orange[-3]), data.matrix(Orange[3]))) - + } - Error in if (new_name %in% existing) { : argument is of length zero - Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - * checking tests ... ERROR ``` - Running ‘test-all.R’ - Running the tests in ‘tests/test-all.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) + > library(hesim) > - > suppressWarnings(RNGversion("3.5.0")) - > set.seed(1, sample.kind = "Rejection") - > - > test_check('ggfortify') - Loading required package: ggfortify + > test_check("hesim") + sample = 1 + sample = 2 + [ FAIL 4 | WARN 0 | SKIP 0 | PASS 1121 ] ... - 3. └─ggfortify:::autoplot.ts(original.data, columns = "Data", ...) - 4. └─ggplot2:::`+.gg`(p, do.call(geom_factory, args)) - 5. └─ggplot2:::add_ggplot(e1, e2, e2name) - 6. ├─ggplot2::ggplot_add(object, p, objectname) - 7. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 8. └─ggplot2:::new_layer_names(object, names(plot$layers)) + ── Failure ('test-plot.R:95:3'): autoplot.stateprobs() allows confidence intervals ── + p$labels$fill not equal to "strategy_id". + target is NULL, current is character + ── Failure ('test-plot.R:99:3'): autoplot.stateprobs() allows confidence intervals ── + p$labels$fill not equal to "strategy_id". + target is NULL, current is character - [ FAIL 32 | WARN 10 | SKIP 47 | PASS 358 ] + [ FAIL 4 | WARN 0 | SKIP 0 | PASS 1121 ] Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR +## In both + +* checking installed package size ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘basics.Rmd’ - ... - + warning = FALSE) - - > library(ggfortify) - Loading required package: ggplot2 - - > autoplot(AirPassengers) - - ... - Error: argument is of length zero - Execution halted - - ‘basics.Rmd’ using ‘UTF-8’... failed - ‘plot_dist.Rmd’ using ‘UTF-8’... failed - ‘plot_lm.Rmd’ using ‘UTF-8’... OK - ‘plot_map.Rmd’ using ‘UTF-8’... failed - ‘plot_pca.Rmd’ using ‘UTF-8’... OK - ‘plot_surv.Rmd’ using ‘UTF-8’... failed - ‘plot_ts.Rmd’ using ‘UTF-8’... OK + installed size is 36.8Mb + sub-directories of 1Mb or more: + R 1.5Mb + data 1.5Mb + doc 2.2Mb + libs 30.8Mb ``` -* checking re-building of vignette outputs ... NOTE +# hilldiv + +
+ +* Version: 1.5.1 +* GitHub: https://github.com/anttonalberdi/hilldiv +* Source code: https://github.com/cran/hilldiv +* Date/Publication: 2019-10-01 14:40:02 UTC +* Number of recursive dependencies: 147 + +Run `revdepcheck::cloud_details(, "hilldiv")` for more info + +
+ +## Newly broken + +* checking whether package ‘hilldiv’ can be installed ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘basics.Rmd’ using knitr + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘hilldiv’ + See ‘/tmp/workdir/hilldiv/new/hilldiv.Rcheck/00install.out’ for details. + ``` + +# hJAM + +
+ +* Version: 1.0.0 +* GitHub: https://github.com/lailylajiang/hJAM +* Source code: https://github.com/cran/hJAM +* Date/Publication: 2020-02-20 14:50:05 UTC +* Number of recursive dependencies: 94 + +Run `revdepcheck::cloud_details(, "hJAM")` for more info + +
+ +## Newly broken + +* checking whether package ‘hJAM’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘hJAM’ + See ‘/tmp/workdir/hJAM/new/hJAM.Rcheck/00install.out’ for details. + ``` + +# hmsidwR + +
+ +* Version: 1.1.2 +* GitHub: https://github.com/Fgazzelloni/hmsidwR +* Source code: https://github.com/cran/hmsidwR +* Date/Publication: 2024-11-13 15:00:02 UTC +* Number of recursive dependencies: 177 + +Run `revdepcheck::cloud_details(, "hmsidwR")` for more info + +
+ +## Newly broken + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘hmsidwR.Rmd’ + ... + The following object is masked from ‘package:graphics’: - Attaching package: 'zoo' + layout - The following objects are masked from 'package:base': - as.Date, as.Date.numeric + > plotly::ggplotly(id) + When sourcing ‘hmsidwR.R’: + Error: subscript out of bounds + Execution halted - ... + ‘hmsidwR.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + ... + --- re-building ‘hmsidwR.Rmd’ using rmarkdown - Quitting from lines 20-22 [unnamed-chunk-1] (plot_dist.Rmd) - Error: processing vignette 'plot_dist.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘plot_dist.Rmd’ + Quitting from lines 52-84 [unnamed-chunk-6] (hmsidwR.Rmd) + Error: processing vignette 'hmsidwR.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘hmsidwR.Rmd’ - --- re-building ‘plot_lm.Rmd’ using knitr - --- finished re-building ‘plot_lm.Rmd’ + SUMMARY: processing the following file failed: + ‘hmsidwR.Rmd’ - --- re-building ‘plot_map.Rmd’ using knitr + Error: Vignette re-building failed. + Execution halted ``` -# gggenomes +## In both + +* checking installed package size ... NOTE + ``` + installed size is 7.2Mb + sub-directories of 1Mb or more: + data 3.0Mb + doc 4.0Mb + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 1686 marked UTF-8 strings + ``` + +# HVT
-* Version: 1.0.1 -* GitHub: https://github.com/thackl/gggenomes -* Source code: https://github.com/cran/gggenomes -* Date/Publication: 2024-08-30 11:40:02 UTC -* Number of recursive dependencies: 112 +* Version: 24.9.1 +* GitHub: https://github.com/Mu-Sigma/HVT +* Source code: https://github.com/cran/HVT +* Date/Publication: 2024-09-11 09:50:02 UTC +* Number of recursive dependencies: 209 -Run `revdepcheck::cloud_details(, "gggenomes")` for more info +Run `revdepcheck::cloud_details(, "HVT")` for more info
@@ -10347,291 +9340,300 @@ Run `revdepcheck::cloud_details(, "gggenomes")` for more info * checking examples ... ERROR ``` - Running examples in ‘gggenomes-Ex.R’ failed + Running examples in ‘HVT-Ex.R’ failed The error most likely occurred in: - > ### Name: flip - > ### Title: Flip bins and sequences - > ### Aliases: flip flip_seqs sync + > ### Name: clustHVT + > ### Title: Performing Hierarchical Clustering Analysis + > ### Aliases: clustHVT + > ### Keywords: Clustering_Analysis > > ### ** Examples > - > library(patchwork) ... - > p4 <- p %>% - + add_clusters(emale_cogs) %>% - + sync() + labs(caption = "shared orthologs") - Joining with `by = join_by(feat_id)` - Flipping: E4-10_086,E4-10_112,RCC970_016B + Ignoring unknown parameters: `check_overlap` + Scale for x is already present. + Adding another scale for x, which will replace the existing scale. + Scale for y is already present. + Adding another scale for y, which will replace the existing scale. + Warning in geom_polygon(data = boundaryCoords2, aes(x = bp.x, y = bp.y, : + Ignoring unknown aesthetics: text + Error in pm[[2]] : subscript out of bounds + Calls: scoreHVT -> -> ggplotly.ggplot -> gg2list + Execution halted + ``` + +# hypsoLoop + +
+ +* Version: 0.2.0 +* GitHub: NA +* Source code: https://github.com/cran/hypsoLoop +* Date/Publication: 2022-02-08 09:00:02 UTC +* Number of recursive dependencies: 96 + +Run `revdepcheck::cloud_details(, "hypsoLoop")` for more info + +
+ +## Newly broken + +* checking whether package ‘hypsoLoop’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::set_theme’ by ‘sjPlot::set_theme’ when loading ‘hypsoLoop’ + See ‘/tmp/workdir/hypsoLoop/new/hypsoLoop.Rcheck/00install.out’ for details. + ``` + +# IDMIR + +
+ +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/IDMIR +* Date/Publication: 2023-11-09 15:30:02 UTC +* Number of recursive dependencies: 116 + +Run `revdepcheck::cloud_details(, "IDMIR")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘IDMIR-Ex.R’ failed + The error most likely occurred in: + + > ### Name: PlotSurvival + > ### Title: PlotSurvival + > ### Aliases: PlotSurvival > - > p0 + p1 + p2 + p3 + p4 + plot_layout(nrow = 1, guides = "collect") - Error in as.unit(value) : object is not coercible to a unit - Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit + > ### ** Examples + > + > # Obtain the example data + ... + > # Run the function + > SingleMiRNA_CRData<-SingleMiRNA_CRModel(GEP, + + "hsa-miR-21-5p",survival,cutoff.point=NULL) + > PlotSurvival(SingleMiRNA_CRData) + Warning: Ignoring unknown labels: + • `fill = "Strata"` + • `linetype = "1"` + Error in theme + adjust : non-numeric argument to binary operator + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘flip.Rmd’ + when running code in ‘IDMIR.Rmd’ ... - > p4 <- p %>% add_clusters(emale_cogs) %>% sync() + - + labs(caption = "shared orthologs") - Joining with `by = join_by(feat_id)` - Flipping: E4-10_086,E4-10_112,RCC970_016B + + cutoff.point = NULL, survival) - > p0 + p1 + p2 + p3 + p4 + plot_layout(nrow = 1, guides = "collect") + > PlotSurvival(SingleMiRNA_CRData) + Warning: Ignoring unknown labels: + • `fill = "Strata"` + • `linetype = "1"` - When sourcing ‘flip.R’: - Error: object is not coercible to a unit + When sourcing ‘IDMIR.R’: + Error: non-numeric argument to binary operator Execution halted - ‘emales.Rmd’ using ‘UTF-8’... OK - ‘flip.Rmd’ using ‘UTF-8’... failed - ‘gggenomes.Rmd’ using ‘UTF-8’... OK + ‘IDMIR.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘emales.Rmd’ using rmarkdown - --- finished re-building ‘emales.Rmd’ - - --- re-building ‘flip.Rmd’ using rmarkdown - - Quitting from lines 17-44 [unnamed-chunk-2] (flip.Rmd) - Error: processing vignette 'flip.Rmd' failed with diagnostics: - object is not coercible to a unit - --- failed re-building ‘flip.Rmd’ - ... - virophages) - emale_tirs Terminal inverted repeats of 6 EMALE genomes + ... + --- re-building ‘IDMIR.Rmd’ using rmarkdown - --- finished re-building ‘gggenomes.Rmd’ + Quitting from lines 120-130 [unnamed-chunk-7] (IDMIR.Rmd) + Error: processing vignette 'IDMIR.Rmd' failed with diagnostics: + non-numeric argument to binary operator + --- failed re-building ‘IDMIR.Rmd’ SUMMARY: processing the following file failed: - ‘flip.Rmd’ + ‘IDMIR.Rmd’ Error: Vignette re-building failed. Execution halted ``` -# ggh4x +# ImFoR
-* Version: 0.2.8 -* GitHub: https://github.com/teunbrand/ggh4x -* Source code: https://github.com/cran/ggh4x -* Date/Publication: 2024-01-23 21:00:02 UTC -* Number of recursive dependencies: 77 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/ImFoR +* Date/Publication: 2023-09-21 18:50:02 UTC +* Number of recursive dependencies: 170 -Run `revdepcheck::cloud_details(, "ggh4x")` for more info +Run `revdepcheck::cloud_details(, "ImFoR")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘ImFoR’ can be installed ... WARNING ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggh4x) - Loading required package: ggplot2 - > - > test_check("ggh4x") - [ FAIL 1 | WARN 20 | SKIP 18 | PASS 757 ] - - ... - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-facet_wrap2.R:64:3'): facet_wrap2() can some repeat axes ───── - sum(ctrl) (`actual`) not equal to 4L (`expected`). - - `actual`: 3 - `expected`: 4 - - [ FAIL 1 | WARN 20 | SKIP 18 | PASS 757 ] - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘ImFoR’ + See ‘/tmp/workdir/ImFoR/new/ImFoR.Rcheck/00install.out’ for details. ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Facets.Rmd’ using rmarkdown - ``` +# incidental -## In both +
+ +* Version: 0.1 +* GitHub: NA +* Source code: https://github.com/cran/incidental +* Date/Publication: 2020-09-16 09:50:03 UTC +* Number of recursive dependencies: 66 + +Run `revdepcheck::cloud_details(, "incidental")` for more info + +
+ +## Newly broken * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Statistics.Rmd’ + when running code in ‘incidental-tutorial.Rmd’ ... - > incorrect$x[15] <- sqrt(2) - > ggplot(incorrect, aes(x, colour = group)) + stat_theodensity(distri = "nbinom") + > data_subset = do.call("rbind", model_df_list) - When sourcing ‘Statistics.R’: - Error: Problem while computing stat. - ℹ Error occurred in the 1st layer. - Caused by error in `setup_params()`: - ! A discrete 'nbinom' distribution cannot be fitted to continuous data. + > ggplot(data_subset, aes(x = Time, y = Reported)) + + + geom_point(color = "coral2", shape = 3) + geom_line(aes(x = Time, + + y = Ihat), color .... [TRUNCATED] + + When sourcing ‘incidental-tutorial.R’: + Error: `x` must be a vector, not a object. Execution halted - ‘Facets.Rmd’ using ‘UTF-8’... OK - ‘Miscellaneous.Rmd’ using ‘UTF-8’... OK - ‘PositionGuides.Rmd’ using ‘UTF-8’... OK - ‘Statistics.Rmd’ using ‘UTF-8’... failed - ‘ggh4x.Rmd’ using ‘UTF-8’... OK + ‘incidental-tutorial.Rmd’ using ‘UTF-8’... failed ``` -# gghighlight +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘incidental-tutorial.Rmd’ using rmarkdown + ``` + +# iNEXT.4steps
-* Version: 0.4.1 -* GitHub: https://github.com/yutannihilation/gghighlight -* Source code: https://github.com/cran/gghighlight -* Date/Publication: 2023-12-16 01:00:02 UTC -* Number of recursive dependencies: 85 +* Version: 1.0.1 +* GitHub: https://github.com/KaiHsiangHu/iNEXT.4steps +* Source code: https://github.com/cran/iNEXT.4steps +* Date/Publication: 2024-06-18 09:10:02 UTC +* Number of recursive dependencies: 113 -Run `revdepcheck::cloud_details(, "gghighlight")` for more info +Run `revdepcheck::cloud_details(, "iNEXT.4steps")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘iNEXT.4steps’ can be installed ... WARNING ``` - Running examples in ‘gghighlight-Ex.R’ failed - The error most likely occurred in: - - > ### Name: gghighlight - > ### Title: Highlight Data With Predicate - > ### Aliases: gghighlight - > - > ### ** Examples - > - > d <- data.frame( - ... - 8. │ ├─purrr:::with_indexed_errors(...) - 9. │ │ └─base::withCallingHandlers(...) - 10. │ ├─purrr:::call_with_cleanup(...) - 11. │ └─gghighlight (local) .f(.x[[i]], .y[[i]], ...) - 12. │ └─gghighlight:::get_default_aes_param(nm, layer$geom, layer$mapping) - 13. └─base::.handleSimpleError(...) - 14. └─purrr (local) h(simpleError(msg, call)) - 15. └─cli::cli_abort(...) - 16. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(gghighlight) - Loading required package: ggplot2 - > - > test_check("gghighlight") - label_key: type - label_key: type - ... - 15. └─cli::cli_abort(...) - 16. └─rlang::abort(...) - - [ FAIL 2 | WARN 2 | SKIP 1 | PASS 178 ] - Deleting unused snapshots: - • vdiffr/simple-bar-chart-with-facet.svg - • vdiffr/simple-line-chart.svg - • vdiffr/simple-point-chart.svg - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘gghighlight.Rmd’ - ... - Warning in is.na(non_null_default_aes[[aes_param_name]]) : - is.na() applied to non-(list or vector) of type 'language' - - When sourcing ‘gghighlight.R’: - Error: ℹ In index: 1. - ℹ With name: geom_point. - Caused by error in `aes_param_name %in% names(non_null_default_aes) && is.na(non_null_default_aes[[ - aes_param_name]])`: - ! 'length = 2' in coercion to 'logical(1)' - Execution halted - - ‘gghighlight.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘gghighlight.Rmd’ using rmarkdown + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘iNEXT.4steps’ + See ‘/tmp/workdir/iNEXT.4steps/new/iNEXT.4steps.Rcheck/00install.out’ for details. ``` -# ggHoriPlot +# infer
-* Version: 1.0.1 -* GitHub: https://github.com/rivasiker/ggHoriPlot -* Source code: https://github.com/cran/ggHoriPlot -* Date/Publication: 2022-10-11 16:22:33 UTC -* Number of recursive dependencies: 117 +* Version: 1.0.7 +* GitHub: https://github.com/tidymodels/infer +* Source code: https://github.com/cran/infer +* Date/Publication: 2024-03-25 21:50:02 UTC +* Number of recursive dependencies: 126 -Run `revdepcheck::cloud_details(, "ggHoriPlot")` for more info +Run `revdepcheck::cloud_details(, "infer")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘infer-Ex.R’ failed + The error most likely occurred in: + + > ### Name: shade_confidence_interval + > ### Title: Add information about confidence interval + > ### Aliases: shade_confidence_interval shade_ci + > + > ### ** Examples + > + > # find the point estimate---mean number of hours worked per week + ... + 10. │ └─ggplot2:::ggplot_add.list(object, p, objectname) + 11. │ ├─ggplot2::ggplot_add(o, plot, object_name) + 12. │ └─ggplot2:::ggplot_add.Layer(o, plot, object_name) + 13. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) + 14. │ └─vctrs::vec_as_names(names, repair = "check_unique") + 15. │ └─vctrs (local) ``() + 16. │ └─vctrs:::validate_unique(names = names, arg = arg, call = call) + 17. │ └─vctrs:::validate_minimal_names(names, n) + 18. └─rlang::abort(message = message, call = call) + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggHoriPlot.Rmd’ + when running code in ‘infer.Rmd’ ... - > mid <- sum(range(dat_tab$y, na.rm = T))/2 - - > b <- plotAllLayers(dat_tab, mid, cutpoints$cuts, cutpoints$color) + # A tibble: 1 × 2 + lower_ci upper_ci + + 1 40.1 42.7 - > b/a + plot_layout(guides = "collect", heights = c(6, - + 1)) + > visualize(t_dist) + shade_confidence_interval(theor_ci) - When sourcing ‘ggHoriPlot.R’: - Error: object is not a unit + ... + When sourcing ‘observed_stat_examples.R’: + Error: Names repair functions can't return `NA` values. Execution halted - ‘examples.Rmd’ using ‘UTF-8’... OK - ‘ggHoriPlot.Rmd’ using ‘UTF-8’... failed + ‘anova.Rmd’ using ‘UTF-8’... OK + ‘chi_squared.Rmd’ using ‘UTF-8’... OK + ‘infer.Rmd’ using ‘UTF-8’... failed + ‘observed_stat_examples.Rmd’ using ‘UTF-8’... failed + ‘paired.Rmd’ using ‘UTF-8’... OK + ‘t_test.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘examples.Rmd’ using rmarkdown + --- re-building ‘anova.Rmd’ using rmarkdown ``` -# ggiraph +# inferCSN
-* Version: 0.8.10 -* GitHub: https://github.com/davidgohel/ggiraph -* Source code: https://github.com/cran/ggiraph -* Date/Publication: 2024-05-17 12:10:02 UTC -* Number of recursive dependencies: 89 +* Version: 1.0.8 +* GitHub: https://github.com/mengxu98/inferCSN +* Source code: https://github.com/cran/inferCSN +* Date/Publication: 2024-08-24 05:30:02 UTC +* Number of recursive dependencies: 199 -Run `revdepcheck::cloud_details(, "ggiraph")` for more info +Run `revdepcheck::cloud_details(, "inferCSN")` for more info
@@ -10639,193 +9641,147 @@ Run `revdepcheck::cloud_details(, "ggiraph")` for more info * checking examples ... ERROR ``` - Running examples in ‘ggiraph-Ex.R’ failed + Running examples in ‘inferCSN-Ex.R’ failed The error most likely occurred in: - > ### Name: annotate_interactive - > ### Title: Create interactive annotations - > ### Aliases: annotate_interactive + > ### Name: plot_dynamic_networks + > ### Title: Plot dynamic networks + > ### Aliases: plot_dynamic_networks > > ### ** Examples > - > # add interactive annotation to a ggplot ------- + > data("example_matrix") ... + + ) > - > gg <- ggplot(mtcars, aes(x = disp, y = qsec )) + - + geom_point(size=2) + - + annotate_interactive( - + "rect", xmin = 100, xmax = 400, fill = "red", - + data_id = "an_id", tooltip = "a tooltip", - + ymin = 18, ymax = 20, alpha = .5) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > plot_dynamic_networks( + + network, + + celltypes_order = celltypes_order, + + plot_type = "ggplotly" + + ) + Error in pm[[2]] : subscript out of bounds + Calls: plot_dynamic_networks -> -> ggplotly.ggplot -> gg2list Execution halted ``` -* checking tests ... ERROR - ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. - Complete output: - > if (requireNamespace("tinytest", quietly = TRUE)) { - + tinytest::test_package("ggiraph") - + } - - test-annotate_interactive.R... 0 tests - test-annotate_interactive.R... 0 tests - test-annotate_interactive.R... 0 tests - ... - test-geom_density_interactive.R 8 tests OK 8ms - - test-geom_dotplot_interactive.R 0 tests - test-geom_dotplot_interactive.R 0 tests - test-geom_dotplot_interactive.R 0 tests - test-geom_dotplot_interactive.R 0 tests - test-geom_dotplot_interactive.R 0 tests - test-geom_dotplot_interactive.R 8 tests OK Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - ## In both * checking installed package size ... NOTE ``` - installed size is 9.9Mb + installed size is 22.6Mb sub-directories of 1Mb or more: - R 1.5Mb - libs 7.1Mb + data 2.0Mb + libs 20.0Mb ``` -# ggiraphExtra +# injurytools
-* Version: 0.3.0 -* GitHub: https://github.com/cardiomoon/ggiraphExtra -* Source code: https://github.com/cran/ggiraphExtra -* Date/Publication: 2020-10-06 07:00:02 UTC -* Number of recursive dependencies: 111 +* Version: 1.0.3 +* GitHub: https://github.com/lzumeta/injurytools +* Source code: https://github.com/cran/injurytools +* Date/Publication: 2023-11-14 17:20:05 UTC +* Number of recursive dependencies: 157 -Run `revdepcheck::cloud_details(, "ggiraphExtra")` for more info +Run `revdepcheck::cloud_details(, "injurytools")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘ggiraphExtra-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggAncova - > ### Title: Make an interactive plot for an ANCOVA model - > ### Aliases: ggAncova ggAncova.default ggAncova.formula ggAncova.lm - > - > ### ** Examples - > - > require(moonBook) - ... - addLabelDf, getMapping - - > require(ggplot2) - Loading required package: ggplot2 - > require(ggiraph) - Loading required package: ggiraph - > ggAncova(radial,aes(age,NTAV,color=sex),interactive=TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggAncova ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggPredict.Rmd’ + when running code in ‘model-injury-data-ii.Rmd’ ... + seasonb=2018/2019 19 17 106 84 165 + > ggsurvplot(fit, data = injd_sub, palette = c("#E7B800", + + "#2E9FDF")) + xlab("Time [calendar days]") + ylab(expression("Survival probability ( ..." ... [TRUNCATED] + Warning in eval(ei, envir) : + Incompatible methods ("+.ggsurv", "+.gg") for "+" - > require(plyr) - Loading required package: plyr - - > ggPredict(fit, se = TRUE, interactive = TRUE) - - ... - - > ggPoints(aes(x = wt, y = mpg, color = am), data = mtcars, - + method = "lm", interactive = TRUE) - - When sourcing ‘introduction.R’: - Error: argument is of length zero + When sourcing ‘model-injury-data-ii.R’: + Error: non-numeric argument to binary operator Execution halted - ‘ggPredict.Rmd’ using ‘UTF-8’... failed - ‘introduction.Rmd’ using ‘UTF-8’... failed + ‘estimate-epi-measures.Rmd’ using ‘UTF-8’... OK + ‘model-injury-data-i.Rmd’ using ‘UTF-8’... OK + ‘model-injury-data-ii.Rmd’ using ‘UTF-8’... failed + ‘prepare-injury-data.Rmd’ using ‘UTF-8’... OK + ‘visualize-injury-data.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘ggPredict.Rmd’ using rmarkdown + --- re-building ‘estimate-epi-measures.Rmd’ using rmarkdown + --- finished re-building ‘estimate-epi-measures.Rmd’ + + --- re-building ‘model-injury-data-i.Rmd’ using rmarkdown ``` -# ggmatplot +# insane
-* Version: 0.1.2 -* GitHub: https://github.com/xuan-liang/ggmatplot -* Source code: https://github.com/cran/ggmatplot -* Date/Publication: 2022-05-17 02:20:02 UTC -* Number of recursive dependencies: 81 +* Version: 1.0.3 +* GitHub: https://github.com/mcanouil/insane +* Source code: https://github.com/cran/insane +* Date/Publication: 2023-11-14 21:50:02 UTC +* Number of recursive dependencies: 133 -Run `revdepcheck::cloud_details(, "ggmatplot")` for more info +Run `revdepcheck::cloud_details(, "insane")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘insane’ can be installed ... WARNING ``` - Running examples in ‘ggmatplot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggmatplot - > ### Title: ggmatplot - > ### Aliases: ggmatplot - > - > ### ** Examples - > - > - > # Define a data set - > iris_sub <- subset(iris, Species == "setosa") - > ggmatplot(iris_sub[, c(1, 3)], iris_sub[, c(2, 4)]) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggmatplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘insane’ + See ‘/tmp/workdir/insane/new/insane.Rcheck/00install.out’ for details. ``` +# inTextSummaryTable + +
+ +* Version: 3.3.3 +* GitHub: https://github.com/openanalytics/inTextSummaryTable +* Source code: https://github.com/cran/inTextSummaryTable +* Date/Publication: 2024-06-12 18:30:02 UTC +* Number of recursive dependencies: 112 + +Run `revdepcheck::cloud_details(, "inTextSummaryTable")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(ggmatplot) - Loading required package: ggplot2 - > library(tibble) - > library(stats) + > library(inTextSummaryTable) > - > test_check("ggmatplot") - ... - • ggmatplot_parameters/single-color-scatterplot.svg - • ggmatplot_parameters/single-fill-density-plot.svg - • ggmatplot_parameters/single-linetype-line-plot.svg - • ggmatplot_parameters/single-shape-scatterplot.svg - • ggmatplot_parameters/three-color-violin-plot.svg - • ggmatplot_parameters/three-fill-color-violin-plot.svg - • ggmatplot_parameters/three-linetype-line-plot.svg - • ggmatplot_parameters/three-shape-scatterplot.svg + > test_check("inTextSummaryTable") + [ FAIL 59 | WARN 0 | SKIP 0 | PASS 881 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + Error in `geom_point(mapping = do.call(aes, c(aesBase, list(y = sym("meanVar")), + if (!is.null(colorVar) & useShape) list(shape = sym("colorVar")))), + position = pd, size = sizePoint, data = data)`: Problem while setting up geom aesthetics. + ℹ Error occurred in the 2nd layer. + Caused by error in `list_sizes()`: + ! `x$size` must be a vector, not a object. + + [ FAIL 59 | WARN 0 | SKIP 0 | PASS 881 ] Error: Test failures Execution halted ``` @@ -10833,6783 +9789,132 @@ Run `revdepcheck::cloud_details(, "ggmatplot")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ggmatplot.Rmd’ + when running code in ‘inTextSummaryTable-aesthetics.Rmd’ ... - 6 -0.5325916 -0.54457006 - - > library(ggmatplot) - Loading required package: ggplot2 - > ggmatplot(x, z) + > subjectProfileSummaryPlot(data = summaryTable, xVar = "visit", + + colorVar = "TRT") - When sourcing ‘ggmatplot.R’: - Error: argument is of length zero + When sourcing ‘inTextSummaryTable-aesthetics.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 2nd layer. + ... + ! `x$size` must be a vector, not a object. Execution halted - ‘ggmatplot.Rmd’ using ‘UTF-8’... failed + ‘inTextSummaryTable-advanced.Rmd’ using ‘UTF-8’... OK + ‘inTextSummaryTable-aesthetics.Rmd’ using ‘UTF-8’... failed + ‘inTextSummaryTable-createTables.Rmd’ using ‘UTF-8’... OK + ‘inTextSummaryTable-exportTables.Rmd’ using ‘UTF-8’... OK + ‘inTextSummaryTable-introduction.Rmd’ using ‘UTF-8’... OK + ‘inTextSummaryTable-standardTables.Rmd’ using ‘UTF-8’... OK + ‘inTextSummaryTable-visualization.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘ggmatplot.Rmd’ using rmarkdown + --- re-building ‘inTextSummaryTable-advanced.Rmd’ using rmarkdown + --- finished re-building ‘inTextSummaryTable-advanced.Rmd’ - Quitting from lines 47-50 [point-plot] (ggmatplot.Rmd) - Error: processing vignette 'ggmatplot.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘ggmatplot.Rmd’ + --- re-building ‘inTextSummaryTable-aesthetics.Rmd’ using rmarkdown - SUMMARY: processing the following file failed: - ‘ggmatplot.Rmd’ + Quitting from lines 211-224 [aesthetics-defaultsVisualization] (inTextSummaryTable-aesthetics.Rmd) + Error: processing vignette 'inTextSummaryTable-aesthetics.Rmd' failed with diagnostics: + Problem while setting up geom aesthetics. + ℹ Error occurred in the 2nd layer. + ... + Caused by error in `list_sizes()`: + ! `x$size` must be a vector, not a object. + --- failed re-building ‘inTextSummaryTable-visualization.Rmd’ + + SUMMARY: processing the following files failed: + ‘inTextSummaryTable-aesthetics.Rmd’ + ‘inTextSummaryTable-visualization.Rmd’ Error: Vignette re-building failed. Execution halted ``` -# ggmice - -
+## In both -* Version: 0.1.0 -* GitHub: https://github.com/amices/ggmice -* Source code: https://github.com/cran/ggmice -* Date/Publication: 2023-08-07 14:20:02 UTC -* Number of recursive dependencies: 120 - -Run `revdepcheck::cloud_details(, "ggmice")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘old_friends.Rmd’ - ... - layout - - - > p <- plot_flux(dat) - - > ggplotly(p) - - When sourcing ‘old_friends.R’: - Error: subscript out of bounds - Execution halted - - ‘ggmice.Rmd’ using ‘UTF-8’... OK - ‘old_friends.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘ggmice.Rmd’ using rmarkdown - ``` - -# ggmulti - -
- -* Version: 1.0.7 -* GitHub: NA -* Source code: https://github.com/cran/ggmulti -* Date/Publication: 2024-04-09 09:40:05 UTC -* Number of recursive dependencies: 125 - -Run `revdepcheck::cloud_details(, "ggmulti")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggmulti-Ex.R’ failed - The error most likely occurred in: - - > ### Name: coord_radial - > ### Title: Radial axes - > ### Aliases: coord_radial - > - > ### ** Examples - > - > if(require("dplyr")) { - ... - - The following objects are masked from ‘package:base’: - - intersect, setdiff, setequal, union - - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU - Calls: ... -> -> compute_geom_2 -> - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > - > - > library(testthat) - > library(ggmulti) - Loading required package: ggplot2 - - Attaching package: 'ggmulti' - ... - 16. └─base::Map(...) - 17. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) - 18. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) - 19. └─layer$compute_geom_2(key, single_params, theme) - 20. └─ggplot2 (local) compute_geom_2(..., self = self) - 21. └─self$geom$use_defaults(...) - - [ FAIL 4 | WARN 5 | SKIP 0 | PASS 30 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘glyph.Rmd’ - ... - + Sepal.Width, colour = Species), serialaxes.data = iris, axes.layout = "radia ..." ... [TRUNCATED] - - When sourcing ‘glyph.R’: - Error: Base operators are not defined for quosures. Do you need to unquote the - quosure? - - # Bad: myquosure / rhs - ... - - > p - - When sourcing ‘highDim.R’: - Error: argument is of length zero - Execution halted - - ‘glyph.Rmd’ using ‘UTF-8’... failed - ‘highDim.Rmd’ using ‘UTF-8’... failed - ‘histogram-density-.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘glyph.Rmd’ using rmarkdown - ``` - -# ggpackets - -
- -* Version: 0.2.1 -* GitHub: https://github.com/dgkf/ggpackets -* Source code: https://github.com/cran/ggpackets -* Date/Publication: 2022-10-10 23:30:02 UTC -* Number of recursive dependencies: 76 - -Run `revdepcheck::cloud_details(, "ggpackets")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggpackets-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggpacket - > ### Title: A container for lazy ggplot layers - > ### Aliases: ggpacket - > - > ### ** Examples - > - > library(ggplot2) - > - > # create a ggpacket directly, setting some fixed argument settings - > ggpk_simple <- ggpacket() %+% geom_line(color = "red") %+% geom_point() - > ggplot(mtcars, aes(x = wt, y = mpg)) + ggpk_simple() - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > - > library(ggplot2) - > library(ggpackets) - - Attaching package: 'ggpackets' - - ... - 10. └─ggpackets (local) f(init, x[[i]]) - 11. └─ggplot2:::`+.gg`(gg, ggpk_i) - 12. └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. ├─ggplot2::ggplot_add(object, p, objectname) - 14. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 4 | WARN 1 | SKIP 0 | PASS 27 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘composing-functions.Rmd’ - ... - + geom_point(size = 3) - Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. - ℹ Please use `linewidth` instead. - - > ggplot(Loblolly) + aes(x = age, y = height, color = Seed) + - + ggpk_my_template() + ggtitle("Growth of Loblolly Pines") - - ... - > diamonds %>% sample_frac(0.01) %>% arrange(cut) %>% - + ggplot() + aes(color = cut) + ggpk_dot_matrix(size = 3, width = 30) - - When sourcing ‘miscellaneous-examples.R’: - Error: argument is of length zero - Execution halted - - ‘composing-functions.Rmd’ using ‘UTF-8’... failed - ‘ggpackets.Rmd’ using ‘UTF-8’... failed - ‘miscellaneous-examples.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘composing-functions.Rmd’ using rmarkdown - - Quitting from lines 58-62 [simple_ggpacket_output] (composing-functions.Rmd) - Error: processing vignette 'composing-functions.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘composing-functions.Rmd’ - - --- re-building ‘ggpackets.Rmd’ using rmarkdown - ``` - -# ggparallel - -
- -* Version: 0.4.0 -* GitHub: https://github.com/heike/ggparallel -* Source code: https://github.com/cran/ggparallel -* Date/Publication: 2024-03-09 22:00:02 UTC -* Number of recursive dependencies: 51 - -Run `revdepcheck::cloud_details(, "ggparallel")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html - ... - 12. └─self$get_layer_key(params, layers[include], data[include], theme) - 13. └─ggplot2 (local) get_layer_key(...) - 14. └─base::Map(...) - 15. └─base::mapply(FUN = f, ..., SIMPLIFY = FALSE) - 16. └─ggplot2 (local) ``(layer = dots[[1L]][[1L]], df = dots[[2L]][[1L]]) - 17. └─layer$compute_geom_2(key, single_params, theme) - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ] - Error: Test failures - Execution halted - ``` - -# ggparty - -
- -* Version: 1.0.0 -* GitHub: https://github.com/martin-borkovec/ggparty -* Source code: https://github.com/cran/ggparty -* Date/Publication: 2019-07-18 10:54:06 UTC -* Number of recursive dependencies: 115 - -Run `revdepcheck::cloud_details(, "ggparty")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggparty-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_node_label - > ### Title: Draw (multi-line) labels at nodes - > ### Aliases: geom_node_label geom_node_info geom_node_splitvar - > - > ### ** Examples - > - > library(ggparty) - ... - 30. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 31. │ ├─ggplot2::ggplot_add(object, p, objectname) - 32. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 33. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 34. └─base::.handleSimpleError(...) - 35. └─rlang (local) h(simpleError(msg, call)) - 36. └─handlers[[1L]](cnd) - 37. └─cli::cli_abort(...) - 38. └─rlang::abort(...) - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ggparty-graphic-partying.Rmd’ - ... - + 0.55 .... [TRUNCATED] - Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. - ℹ Please use `linewidth` instead. - - When sourcing ‘ggparty-graphic-partying.R’: - Error: Problem while converting geom to grob. - ℹ Error occurred in the 5th layer. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - Execution halted - - ‘ggparty-graphic-partying.Rmd’ using ‘UTF-8’... failed - ‘on-the-edge.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘ggparty-graphic-partying.Rmd’ using rmarkdown - - Quitting from lines 42-122 [unnamed-chunk-2] (ggparty-graphic-partying.Rmd) - Error: processing vignette 'ggparty-graphic-partying.Rmd' failed with diagnostics: - Problem while converting geom to grob. - ℹ Error occurred in the 5th layer. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - --- failed re-building ‘ggparty-graphic-partying.Rmd’ - - --- re-building ‘on-the-edge.Rmd’ using rmarkdown - ``` - -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘survival’ - All declared Imports should be used. - ``` - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - -# ggpicrust2 - -
- -* Version: 1.7.3 -* GitHub: https://github.com/cafferychen777/ggpicrust2 -* Source code: https://github.com/cran/ggpicrust2 -* Date/Publication: 2023-11-08 16:10:02 UTC -* Number of recursive dependencies: 231 - -Run `revdepcheck::cloud_details(, "ggpicrust2")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggpicrust2-Ex.R’ failed - The error most likely occurred in: - - > ### Name: pathway_pca - > ### Title: Perform Principal Component Analysis (PCA) on functional pathway - > ### abundance data and create visualizations of the PCA results. - > ### Aliases: pathway_pca - > - > ### ** Examples - > - ... - > - > # Create example metadata - > # Please ensure the sample IDs in the metadata have the column name "sample_name" - > metadata_example <- data.frame(sample_name = colnames(kegg_abundance_example), - + group = factor(rep(c("Control", "Treatment"), each = 5))) - > - > pca_plot <- pathway_pca(kegg_abundance_example, metadata_example, "group") - Error in identicalUnits(x) : object is not a unit - Calls: pathway_pca ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - -## In both - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘ComplexHeatmap’ - ``` - -* checking installed package size ... NOTE - ``` - installed size is 5.5Mb - sub-directories of 1Mb or more: - R 2.1Mb - data 2.0Mb - ``` - -# ggplotlyExtra - -
- -* Version: 0.0.1 -* GitHub: NA -* Source code: https://github.com/cran/ggplotlyExtra -* Date/Publication: 2019-12-02 16:20:06 UTC -* Number of recursive dependencies: 70 - -Run `revdepcheck::cloud_details(, "ggplotlyExtra")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggplotlyExtra-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggplotly_histogram - > ### Title: Clean 'ggplot2' Histogram to be Converted to 'Plotly' - > ### Aliases: ggplotly_histogram - > - > ### ** Examples - > - > - ... - + xlab("len") - `stat_bin()` using `bins = 30`. Pick better value with `binwidth`. - Warning in geom_bar(data = layerdata, mapping = aes(x = .data$x, y = .data$count, : - Ignoring unknown aesthetics: label1, label2, and label3 - > - > # convert `ggplot` object to `plotly` object - > ggplotly(p, tooltip = c("Range", "count", "density")) - Error in pm[[2]] : subscript out of bounds - Calls: ggplotly -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -## In both - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - -# ggPMX - -
- -* Version: 1.2.11 -* GitHub: https://github.com/ggPMXdevelopment/ggPMX -* Source code: https://github.com/cran/ggPMX -* Date/Publication: 2023-11-30 16:10:06 UTC -* Number of recursive dependencies: 181 - -Run `revdepcheck::cloud_details(, "ggPMX")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggPMX-Ex.R’ failed - The error most likely occurred in: - - > ### Name: pmx_config - > ### Title: This function can be used to define the pmx configuration used - > ### in plots. e.g. Monolix/Nonmem - > ### Aliases: pmx_config - > - > ### ** Examples - > - ... - + cats = c("SEX"), - + conts = c("WT0", "AGE0"), - + strats = "STUD" - + ) - NO FINEGRID FILE: - we will use instead predictions.txt for individual plots - Warning: Duplicated aesthetics after name standardisation: colour - Error in if (new_name %in% existing) { : argument is of length zero - Calls: pmx_mlx ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ggPMX-guide.Rmd’ - ... - - > work_dir <- file.path(theophylline, "Monolix") - - > input_data <- file.path(theophylline, "data_pk.csv") - - > ctr <- theophylline() - - When sourcing ‘ggPMX-guide.R’: - Error: argument is of length zero - Execution halted - - ‘ggPMX-guide.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘ggPMX-guide.Rmd’ using rmarkdown - - Quitting from lines 25-37 [load_package] (ggPMX-guide.Rmd) - Error: processing vignette 'ggPMX-guide.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘ggPMX-guide.Rmd’ - - SUMMARY: processing the following file failed: - ‘ggPMX-guide.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘lixoftConnectors’ - ``` - -* checking installed package size ... NOTE - ``` - installed size is 8.9Mb - sub-directories of 1Mb or more: - doc 1.1Mb - help 2.4Mb - testdata 4.8Mb - ``` - -# ggpol - -
- -* Version: 0.0.7 -* GitHub: https://github.com/erocoar/ggpol -* Source code: https://github.com/cran/ggpol -* Date/Publication: 2020-11-08 13:40:02 UTC -* Number of recursive dependencies: 54 - -Run `revdepcheck::cloud_details(, "ggpol")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggpol-Ex.R’ failed - The error most likely occurred in: - - > ### Name: GeomConfmat - > ### Title: Confusion Matrix - > ### Aliases: GeomConfmat geom_confmat stat_confmat - > - > ### ** Examples - > - > x <- sample(LETTERS[seq(4)], 50, replace = TRUE) - ... - 21. │ └─ggpol (local) draw_panel(...) - 22. │ └─base::lapply(GeomText$default_aes[missing_aes], rlang::eval_tidy) - 23. │ └─rlang (local) FUN(X[[i]], ...) - 24. ├─ggplot2::from_theme(fontsize) - 25. └─base::.handleSimpleError(...) - 26. └─rlang (local) h(simpleError(msg, call)) - 27. └─handlers[[1L]](cnd) - 28. └─cli::cli_abort(...) - 29. └─rlang::abort(...) - Execution halted - ``` - -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘dplyr’ ‘grDevices’ - All declared Imports should be used. - ``` - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - -# ggprism - -
- -* Version: 1.0.5 -* GitHub: https://github.com/csdaw/ggprism -* Source code: https://github.com/cran/ggprism -* Date/Publication: 2024-03-21 10:50:02 UTC -* Number of recursive dependencies: 97 - -Run `revdepcheck::cloud_details(, "ggprism")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggprism-Ex.R’ failed - The error most likely occurred in: - - > ### Name: add_pvalue - > ### Title: Add p-values to a ggplot - > ### Aliases: add_pvalue - > - > ### ** Examples - > - > library(ggplot2) - ... - + "OJ", "VC", 0.0606, 36 - + ) - > - > # boxplot (or another geom...) - > ggplot(tg, aes(x = supp, y = len)) + - + geom_boxplot() + - + add_pvalue(two.means) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. - Complete output: - > - > if ( requireNamespace("tinytest", quietly=TRUE) ){ - + tinytest::test_package("ggprism") - + } - - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - ... - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests - test-add_pvalue.R............. 0 tests Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ggprism.Rmd’ - ... - + p.adj = 0.0606, y.position = 36) - - > p1 <- ggplot(ToothGrowth, aes(x = factor(supp), y = len)) + - + geom_boxplot(aes(fill = factor(supp))) + scale_fill_prism(palette = "candy_bright ..." ... [TRUNCATED] - - > p2 <- p1 + add_pvalue(df_p_val) - - ... - - When sourcing ‘pvalues.R’: - Error: argument is of length zero - Execution halted - - ‘axes.Rmd’ using ‘UTF-8’... OK - ‘colours.Rmd’ using ‘UTF-8’... OK - ‘ggprism.Rmd’ using ‘UTF-8’... failed - ‘pvalues.Rmd’ using ‘UTF-8’... failed - ‘themes.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘axes.Rmd’ using rmarkdown - ``` - -# ggpubr - -
- -* Version: 0.6.0 -* GitHub: https://github.com/kassambara/ggpubr -* Source code: https://github.com/cran/ggpubr -* Date/Publication: 2023-02-10 16:20:02 UTC -* Number of recursive dependencies: 88 - -Run `revdepcheck::cloud_details(, "ggpubr")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggpubr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: add_summary - > ### Title: Add Summary Statistics onto a ggplot. - > ### Aliases: add_summary mean_se_ mean_sd mean_ci mean_range median_iqr - > ### median_hilow_ median_q1q3 median_mad median_range - > - > ### ** Examples - > - ... - 10. │ └─ggplot2:::`+.gg`(...) - 11. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 12. │ ├─ggplot2::ggplot_add(object, p, objectname) - 13. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 14. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 15. └─base::.handleSimpleError(...) - 16. └─purrr (local) h(simpleError(msg, call)) - 17. └─cli::cli_abort(...) - 18. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggpubr) - Loading required package: ggplot2 - > - > test_check("ggpubr") - [ FAIL 46 | WARN 3 | SKIP 0 | PASS 51 ] - - ... - 13. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 14. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 15. └─base::.handleSimpleError(...) - 16. └─purrr (local) h(simpleError(msg, call)) - 17. └─cli::cli_abort(...) - 18. └─rlang::abort(...) - - [ FAIL 46 | WARN 3 | SKIP 0 | PASS 51 ] - Error: Test failures - Execution halted - ``` - -# ggrain - -
- -* Version: 0.0.4 -* GitHub: https://github.com/njudd/ggrain -* Source code: https://github.com/cran/ggrain -* Date/Publication: 2024-01-23 11:50:02 UTC -* Number of recursive dependencies: 63 - -Run `revdepcheck::cloud_details(, "ggrain")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggrain-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_rain - > ### Title: Raincloud Plots - > ### Aliases: geom_rain - > - > ### ** Examples - > - > e1 <- ggplot(iris, aes(Species, Sepal.Width, fill = Species)) - > e1 + geom_rain() - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ggrain.Rmd’ - ... - > library(ggrain) - Loading required package: ggplot2 - - > ggplot(iris, aes(1, Sepal.Width)) + geom_rain() + - + theme_classic() + theme(axis.title.x = element_blank(), axis.text.x = element_blank(), - + .... [TRUNCATED] - - When sourcing ‘ggrain.R’: - Error: argument is of length zero - Execution halted - - ‘ggrain.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘ggrain.Rmd’ using rmarkdown - - Quitting from lines 36-41 [most basic raincloud possible] (ggrain.Rmd) - Error: processing vignette 'ggrain.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘ggrain.Rmd’ - - SUMMARY: processing the following file failed: - ‘ggrain.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# ggraph - -
- -* Version: 2.2.1 -* GitHub: https://github.com/thomasp85/ggraph -* Source code: https://github.com/cran/ggraph -* Date/Publication: 2024-03-07 12:40:02 UTC -* Number of recursive dependencies: 115 - -Run `revdepcheck::cloud_details(, "ggraph")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggraph-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_conn_bundle - > ### Title: Create hierarchical edge bundles between node connections - > ### Aliases: geom_conn_bundle geom_conn_bundle2 geom_conn_bundle0 - > - > ### ** Examples - > - > # Create a graph of the flare class system - ... - + ) + - + geom_node_point(aes(filter = leaf, colour = class)) + - + scale_edge_colour_distiller('', direction = 1, guide = 'edge_direction') + - + coord_fixed() + - + ggforce::theme_no_axes() - Error in get_layer_key(...) : - unused argument (list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, list(), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, - 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, - Calls: ... -> -> process_layers -> - Execution halted - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Edges.Rmd’ using rmarkdown - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Edges.Rmd’ - ... - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - - ... - font family 'Arial' not found in PostScript font database - - When sourcing ‘tidygraph.R’: - Error: invalid font type - Execution halted - - ‘Edges.Rmd’ using ‘UTF-8’... failed - ‘Layouts.Rmd’ using ‘UTF-8’... failed - ‘Nodes.Rmd’ using ‘UTF-8’... failed - ‘tidygraph.Rmd’ using ‘UTF-8’... failed - ``` - -* checking installed package size ... NOTE - ``` - installed size is 8.9Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 3.9Mb - libs 2.8Mb - ``` - -# ggredist - -
- -* Version: 0.0.2 -* GitHub: https://github.com/alarm-redist/ggredist -* Source code: https://github.com/cran/ggredist -* Date/Publication: 2022-11-23 11:20:02 UTC -* Number of recursive dependencies: 67 - -Run `revdepcheck::cloud_details(, "ggredist")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggredist-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_district_text - > ### Title: Label Map Regions - > ### Aliases: geom_district_text geom_district_label - > ### stat_district_coordinates StatDistrictCoordinates GeomDistrictText - > ### Keywords: datasets - > - > ### ** Examples - ... - 22. │ └─coord$transform(data, panel_params) - 23. │ └─ggplot2 (local) transform(..., self = self) - 24. │ └─ggplot2:::sf_rescale01(...) - 25. │ └─sf::st_normalize(x, c(x_range[1], y_range[1], x_range[2], y_range[2])) - 26. └─base::.handleSimpleError(...) - 27. └─rlang (local) h(simpleError(msg, call)) - 28. └─handlers[[1L]](cnd) - 29. └─cli::cli_abort(...) - 30. └─rlang::abort(...) - Execution halted - ``` - -# ggRtsy - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/ggRtsy -* Date/Publication: 2023-09-15 19:12:05 UTC -* Number of recursive dependencies: 69 - -Run `revdepcheck::cloud_details(, "ggRtsy")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggplot2) - > library(dplyr) - - Attaching package: 'dplyr' - - The following object is masked from 'package:testthat': - ... - 13. │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler) - 14. │ └─vctrs::vec_as_location(i, n, names = names, arg = arg, call = call) - 15. └─vctrs (local) ``() - 16. └─vctrs:::stop_subscript_oob(...) - 17. └─vctrs:::stop_subscript(...) - 18. └─rlang::abort(...) - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 3 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Vignette.Rmd’ - ... - |Antique White |(238, 223, 204) |#eedfcc | - - > RectangleFiller(plotExample, c("#e32636", "#9966cc", - + "#f4c2c2", "#e16827")) - - When sourcing ‘Vignette.R’: - Error: Can't extract rows past the end. - ℹ Location 1 doesn't exist. - ℹ There are only 0 rows. - Execution halted - - ‘Vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Vignette.Rmd’ using rmarkdown - - Quitting from lines 48-49 [unnamed-chunk-2] (Vignette.Rmd) - Error: processing vignette 'Vignette.Rmd' failed with diagnostics: - Can't extract rows past the end. - ℹ Location 1 doesn't exist. - ℹ There are only 0 rows. - --- failed re-building ‘Vignette.Rmd’ - - SUMMARY: processing the following file failed: - ‘Vignette.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 19 marked UTF-8 strings - ``` - -# ggseqplot - -
- -* Version: 0.8.4 -* GitHub: https://github.com/maraab23/ggseqplot -* Source code: https://github.com/cran/ggseqplot -* Date/Publication: 2024-05-17 21:40:03 UTC -* Number of recursive dependencies: 128 - -Run `revdepcheck::cloud_details(, "ggseqplot")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggseqplot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggseqrfplot - > ### Title: Relative Frequency Sequence Plot - > ### Aliases: ggseqrfplot - > - > ### ** Examples - > - > # Load additional library for fine-tuning the plots - ... - [>] Pseudo/medoid-based-F statistic: 6.870317, p-value: 3.09994e-08 - > - > # ... with ggseqrfplot - > ggseqrfplot(biofam.seq, weighted = FALSE, diss = diss, k = 12, grp.meth="first") - [>] Using k=12 frequency groups with grp.meth='first' - [>] Pseudo/medoid-based-R2: 0.4620155 - [>] Pseudo/medoid-based-F statistic: 6.870317, p-value: 3.09994e-08 - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggseqplot) - Loading required package: TraMineR - - TraMineR stable version 2.2-10 (Built: 2024-05-22) - Website: http://traminer.unige.ch - Please type 'citation("TraMineR")' for citation information. - ... - Backtrace: - ▆ - 1. ├─testthat::expect_s3_class(ggseqtrplot(biofam.seq), "ggplot") at test-ggseqtrplot.R:35:3 - 2. │ └─testthat::quasi_label(enquo(object), arg = "object") - 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) - 4. └─ggseqplot::ggseqtrplot(biofam.seq) - - [ FAIL 1 | WARN 1045 | SKIP 0 | PASS 131 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ggseqplot.Rmd’ - ... - > p1 + p2 + plot_layout(guides = "collect") & scale_fill_manual(values = canva_palettes$`Fun and tropical`[1:4]) & - + theme_ipsum(base_family = "" .... [TRUNCATED] - Scale for fill is already present. - Adding another scale for fill, which will replace the existing scale. - Scale for fill is already present. - Adding another scale for fill, which will replace the existing scale. - - When sourcing ‘ggseqplot.R’: - Error: object is not coercible to a unit - Execution halted - - ‘ggseqplot.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘ggseqplot.Rmd’ using rmarkdown - ``` - -# ggside - -
- -* Version: 0.3.1 -* GitHub: https://github.com/jtlandis/ggside -* Source code: https://github.com/cran/ggside -* Date/Publication: 2024-03-01 09:12:37 UTC -* Number of recursive dependencies: 76 - -Run `revdepcheck::cloud_details(, "ggside")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggplot2) - > library(ggside) - Registered S3 method overwritten by 'ggside': - method from - +.gg ggplot2 - > - ... - • ops_meaningful/alpha-0-5-from-function.svg - • side_layers/boxplot2.svg - • vdiff_irisScatter/collapsed-histo.svg - • vdiff_irisScatter/facetgrid-collapsed-density.svg - • vdiff_irisScatter/facetgrid-histo.svg - • vdiff_irisScatter/facetgrid-side-density.svg - • vdiff_irisScatter/stacked-side-density.svg - • vdiff_irisScatter/yside-histo.svg - Error: Test failures - Execution halted - ``` - -* checking for code/documentation mismatches ... WARNING - ``` - Codoc mismatches from documentation object 'geom_xsideabline': - geom_xsidehline - Code: function(mapping = NULL, data = NULL, position = "identity", - ..., yintercept, na.rm = FALSE, show.legend = NA) - Docs: function(mapping = NULL, data = NULL, ..., yintercept, na.rm = - FALSE, show.legend = NA) - Argument names in code not in docs: - position - Mismatches in argument names (first 3): - Position: 3 Code: position Docs: ... - ... - Docs: function(mapping = NULL, data = NULL, stat = "identity", - position = "identity", ..., lineend = "butt", linejoin - = "round", linemitre = 10, arrow = NULL, na.rm = - FALSE, show.legend = NA, inherit.aes = TRUE) - Argument names in code not in docs: - arrow.fill - Mismatches in argument names: - Position: 10 Code: arrow.fill Docs: na.rm - Position: 11 Code: na.rm Docs: show.legend - Position: 12 Code: show.legend Docs: inherit.aes - ``` - -# ggsmc - -
- -* Version: 0.1.2.0 -* GitHub: https://github.com/richardgeveritt/ggsmc -* Source code: https://github.com/cran/ggsmc -* Date/Publication: 2024-07-27 17:00:02 UTC -* Number of recursive dependencies: 84 - -Run `revdepcheck::cloud_details(, "ggsmc")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Visualising.Rmd’ - ... - 20 /tmp/RtmpuaCJEi/100d113de41a/gganim_plot0020.png - - > data(lv_output) - - > animate_reveal_time_series(lv_output, parameters = c("X", - + "Y"), alpha = 0.5, ylimits = c(0, 600), duration = 10) - - When sourcing ‘Visualising.R’: - Error: argument "theme" is missing, with no default - Execution halted - - ‘Visualising.Rmd’ using ‘UTF-8’... failed - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 175 marked UTF-8 strings - ``` - -# ggspatial - -
- -* Version: 1.1.9 -* GitHub: https://github.com/paleolimbot/ggspatial -* Source code: https://github.com/cran/ggspatial -* Date/Publication: 2023-08-17 15:32:38 UTC -* Number of recursive dependencies: 108 - -Run `revdepcheck::cloud_details(, "ggspatial")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggspatial-Ex.R’ failed - The error most likely occurred in: - - > ### Name: annotation_spatial_hline - > ### Title: Projected horizontal and vertical lines - > ### Aliases: annotation_spatial_hline annotation_spatial_vline - > ### GeomSpatialXline - > ### Keywords: datasets - > - > ### ** Examples - ... - 25. │ └─grid:::validGP(list(...)) - 26. │ └─grid (local) numnotnull("fontsize") - 27. │ └─grid (local) check.length(gparname) - 28. │ └─base::stop(...) - 29. └─base::.handleSimpleError(...) - 30. └─rlang (local) h(simpleError(msg, call)) - 31. └─handlers[[1L]](cnd) - 32. └─cli::cli_abort(...) - 33. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(ggspatial) - > - > test_check("ggspatial") - Linking to GEOS 3.10.2, GDAL 3.4.1, PROJ 8.2.1; sf_use_s2() is TRUE - [ FAIL 1 | WARN 1 | SKIP 22 | PASS 195 ] - - ... - 33. │ └─base::stop(...) - 34. └─base::.handleSimpleError(...) - 35. └─rlang (local) h(simpleError(msg, call)) - 36. └─handlers[[1L]](cnd) - 37. └─cli::cli_abort(...) - 38. └─rlang::abort(...) - - [ FAIL 1 | WARN 1 | SKIP 22 | PASS 195 ] - Error: Test failures - Execution halted - ``` - -# ggstatsplot - -
- -* Version: 0.12.4 -* GitHub: https://github.com/IndrajeetPatil/ggstatsplot -* Source code: https://github.com/cran/ggstatsplot -* Date/Publication: 2024-07-06 16:22:07 UTC -* Number of recursive dependencies: 174 - -Run `revdepcheck::cloud_details(, "ggstatsplot")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggstatsplot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggscatterstats - > ### Title: Scatterplot with marginal distributions and statistical results - > ### Aliases: ggscatterstats - > - > ### ** Examples - > - > set.seed(123) - ... - + iris, - + x = Sepal.Width, - + y = Petal.Length, - + label.var = Species, - + label.expression = Sepal.Length > 7.6 - + ) + - + ggplot2::geom_rug(sides = "b") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggscatterstats ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ggstatsplot.Rmd’ - ... - author = {Indrajeet Patil}, - title = {{Visualizations with statistical details: The {'ggstatsplot'} approach}}, - journal = {{Journal of Open Source Software}}, - } - - > ggbetweenstats(iris, Species, Sepal.Length) - - When sourcing ‘ggstatsplot.R’: - Error: argument is of length zero - Execution halted - - ‘additional.Rmd’ using ‘UTF-8’... OK - ‘ggstatsplot.Rmd’ using ‘UTF-8’... failed - ``` - -# ggtern - -
- -* Version: 3.5.0 -* GitHub: NA -* Source code: https://github.com/cran/ggtern -* Date/Publication: 2024-03-24 21:50:02 UTC -* Number of recursive dependencies: 42 - -Run `revdepcheck::cloud_details(, "ggtern")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggtern-Ex.R’ failed - The error most likely occurred in: - - > ### Name: annotate - > ### Title: Create an annotation layer (ggtern version). - > ### Aliases: annotate - > - > ### ** Examples - > - > ggtern() + - ... - 3. ├─ggtern::ggplot_build(x) - 4. └─ggtern:::ggplot_build.ggplot(x) - 5. └─ggtern:::layers_add_or_remove_mask(plot) - 6. └─ggint$plot_theme(plot) - 7. └─ggplot2:::validate_theme(theme) - 8. └─base::mapply(...) - 9. └─ggplot2 (local) ``(...) - 10. └─cli::cli_abort(...) - 11. └─rlang::abort(...) - Execution halted - ``` - -## In both - -* checking package dependencies ... NOTE - ``` - Package which this enhances but not available for checking: ‘sp’ - ``` - -* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘chemometrics’ - ``` - -# ggupset - -
- -* Version: 0.4.0 -* GitHub: https://github.com/const-ae/ggupset -* Source code: https://github.com/cran/ggupset -* Date/Publication: 2024-06-24 10:10:04 UTC -* Number of recursive dependencies: 46 - -Run `revdepcheck::cloud_details(, "ggupset")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ggupset-Ex.R’ failed - The error most likely occurred in: - - > ### Name: axis_combmatrix - > ### Title: Convert delimited text labels into a combination matrix axis - > ### Aliases: axis_combmatrix - > - > ### ** Examples - > - > library(ggplot2) - ... - Datsun 710 Cyl: 4_Gears: 4 - Hornet 4 Drive Cyl: 6_Gears: 3 - Hornet Sportabout Cyl: 8_Gears: 3 - Valiant Cyl: 6_Gears: 3 - > ggplot(mtcars, aes(x=combined)) + - + geom_bar() + - + axis_combmatrix(sep = "_") - Error in as.unit(e2) : object is not coercible to a unit - Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit - Execution halted - ``` - -# ggVennDiagram - -
- -* Version: 1.5.2 -* GitHub: https://github.com/gaospecial/ggVennDiagram -* Source code: https://github.com/cran/ggVennDiagram -* Date/Publication: 2024-02-20 08:10:02 UTC -* Number of recursive dependencies: 98 - -Run `revdepcheck::cloud_details(, "ggVennDiagram")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘fully-customed.Rmd’ - ... - [1] "b" "c" "e" "h" "k" "q" "s" "y" - - - > ggVennDiagram(y, show_intersect = TRUE, set_color = "black") - Warning in geom_text(aes(label = .data$count, text = .data$item), data = region_label) : - Ignoring unknown aesthetics: text - - ... - Ignoring unknown aesthetics: text - - When sourcing ‘using-ggVennDiagram.R’: - Error: subscript out of bounds - Execution halted - - ‘VennCalculator.Rmd’ using ‘UTF-8’... OK - ‘fully-customed.Rmd’ using ‘UTF-8’... failed - ‘using-ggVennDiagram.Rmd’ using ‘UTF-8’... failed - ‘using-new-shapes.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘VennCalculator.Rmd’ using rmarkdown - --- finished re-building ‘VennCalculator.Rmd’ - - --- re-building ‘fully-customed.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 11.1Mb - sub-directories of 1Mb or more: - doc 9.5Mb - help 1.1Mb - ``` - -# GimmeMyPlot - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/GimmeMyPlot -* Date/Publication: 2023-10-18 16:10:02 UTC -* Number of recursive dependencies: 114 - -Run `revdepcheck::cloud_details(, "GimmeMyPlot")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘GimmeMyPlot-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_violin - > ### Title: Violin plot - > ### Aliases: plot_violin - > - > ### ** Examples - > - > library(RColorBrewer) - ... - + width_text = 5, - + pch_colour = "gray30", - + pch_alpha = 0.5, - + width_title = 30, - + lwd = 1.25, - + digits = 2 - + ) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_violin ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html - ... - 4. └─GimmeMyPlot::plot_violin(df) - 5. └─ggplot2:::`+.gg`(...) - 6. └─ggplot2:::add_ggplot(e1, e2, e2name) - 7. ├─ggplot2::ggplot_add(object, p, objectname) - 8. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 9. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 1 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Tutorial.Rmd’ - ... - > df[, 3] <- runif(10, 1, 2) - - > colnames(df) <- paste0("X", seq(3)) - - > plot_violin(df, title = "Some random variables", colour = brewer.pal(9, - + "Set1")[seq(3)]) - - When sourcing ‘Tutorial.R’: - Error: argument is of length zero - Execution halted - - ‘Tutorial.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Tutorial.Rmd’ using rmarkdown - - Quitting from lines 24-57 [violin] (Tutorial.Rmd) - Error: processing vignette 'Tutorial.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Tutorial.Rmd’ - - SUMMARY: processing the following file failed: - ‘Tutorial.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# giniVarCI - -
- -* Version: 0.0.1-3 -* GitHub: NA -* Source code: https://github.com/cran/giniVarCI -* Date/Publication: 2024-01-08 10:30:02 UTC -* Number of recursive dependencies: 81 - -Run `revdepcheck::cloud_details(, "giniVarCI")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘giniVarCI-Ex.R’ failed - The error most likely occurred in: - - > ### Name: fcompareCI - > ### Title: Comparisons of variance estimates and confidence intervals for - > ### the Gini index in finite populations - > ### Aliases: fcompareCI - > - > ### ** Examples - > - ... - > data(eusilc, package="laeken") - > y <- eusilc$eqIncome[eusilc$db040 == "Burgenland"] - > w <- eusilc$rb050[eusilc$db040 == "Burgenland"] - > - > # Estimation of the Gini index and confidence intervals using different methods. - > fcompareCI(y, w) - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: fcompareCI - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 12.5Mb - sub-directories of 1Mb or more: - libs 12.0Mb - ``` - -# gMCPLite - -
- -* Version: 0.1.5 -* GitHub: https://github.com/Merck/gMCPLite -* Source code: https://github.com/cran/gMCPLite -* Date/Publication: 2024-01-11 19:30:02 UTC -* Number of recursive dependencies: 108 - -Run `revdepcheck::cloud_details(, "gMCPLite")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘GraphicalMultiplicity.Rmd’ - ... - 0.8600 - 0.1400 - - - - > plot(os, plottype = "HR", xlab = "Events") - - When sourcing ‘GraphicalMultiplicity.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘GraphicalMultiplicity.Rmd’ using ‘UTF-8’... failed - ‘hGraph.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘GraphicalMultiplicity.Rmd’ using rmarkdown - ``` - -# gMOIP - -
- -* Version: 1.5.2 -* GitHub: https://github.com/relund/gMOIP -* Source code: https://github.com/cran/gMOIP -* Date/Publication: 2024-02-21 21:30:05 UTC -* Number of recursive dependencies: 113 - -Run `revdepcheck::cloud_details(, "gMOIP")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘gMOIP-Ex.R’ failed - The error most likely occurred in: - - > ### Name: convexHull - > ### Title: Find the convex hull of a set of points. - > ### Aliases: convexHull - > - > ### ** Examples - > - > ## 1D - ... - - $pts - p1 p2 pt vtx - 1 1 1 1 TRUE - 2 2 2 1 TRUE - - > plotHull2D(pts, drawPoints = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plotHull2D ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘bi-objective_2x.Rmd’ - ... - - > b <- c(3, 27, 90) - - > obj <- matrix(c(7, -10, -10, -10), nrow = 2) - - > plotBiObj2D(A, b, obj, addTriangles = FALSE) - - ... - When sourcing ‘polytope_2d.R’: - Error: argument is of length zero - Execution halted - - ‘bi-objective_2x.Rmd’ using ‘UTF-8’... failed - ‘bi-objective_3x_ex1.Rmd’ using ‘UTF-8’... OK - ‘intro.Rmd’ using ‘UTF-8’... failed - ‘polytope_2d.Rmd’ using ‘UTF-8’... failed - ‘polytope_3d_ex1.Rmd’ using ‘UTF-8’... OK - ‘tri-objective.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘bi-objective_2x.Rmd’ using rmarkdown - - Quitting from lines 73-78 [2DLP] (bi-objective_2x.Rmd) - Error: processing vignette 'bi-objective_2x.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘bi-objective_2x.Rmd’ - - --- re-building ‘bi-objective_3x_ex1.Rmd’ using rmarkdown - ``` - -# GofCens - -
- -* Version: 1.1 -* GitHub: NA -* Source code: https://github.com/cran/GofCens -* Date/Publication: 2024-07-29 08:40:02 UTC -* Number of recursive dependencies: 93 - -Run `revdepcheck::cloud_details(, "GofCens")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘GofCens-Ex.R’ failed - The error most likely occurred in: - - > ### Name: kmPlot - > ### Title: Plot of the Kaplen-Meier and parametric estimations - > ### Aliases: kmPlot kmPlot.default kmPlot.formula kmPlot.probPlot - > ### kmPlot.probPlot - > - > ### ** Examples - > - ... - Scale: 10.039 - - > - > # Plots for censored data using ggplot2 - > data(colon) - Warning in data(colon) : data set ‘colon’ not found - > kmPlot(Surv(time, status) ~ 1, colon, distr= "lognormal", ggp = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: kmPlot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# greatR - -
- -* Version: 2.0.0 -* GitHub: https://github.com/ruthkr/greatR -* Source code: https://github.com/cran/greatR -* Date/Publication: 2024-04-09 22:40:07 UTC -* Number of recursive dependencies: 77 - -Run `revdepcheck::cloud_details(, "greatR")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘process-results.Rmd’ - ... - - > reg_summary$non_registered_genes - [1] "BRAA02G018970.3C" - - > plot(reg_summary, type = "registered", scatterplot_size = c(4, - + 3.5)) - - When sourcing ‘process-results.R’: - Error: object is not a unit - Execution halted - - ‘data-requirement.Rmd’ using ‘UTF-8’... OK - ‘process-results.Rmd’ using ‘UTF-8’... failed - ‘register-data-manually.Rmd’ using ‘UTF-8’... OK - ‘register-data.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘data-requirement.Rmd’ using rmarkdown - --- finished re-building ‘data-requirement.Rmd’ - - --- re-building ‘process-results.Rmd’ using rmarkdown - - Quitting from lines 76-81 [plot-summary-results] (process-results.Rmd) - Error: processing vignette 'process-results.Rmd' failed with diagnostics: - object is not a unit - ... - --- finished re-building ‘register-data-manually.Rmd’ - - --- re-building ‘register-data.Rmd’ using rmarkdown - --- finished re-building ‘register-data.Rmd’ - - SUMMARY: processing the following file failed: - ‘process-results.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# Greymodels - -
- -* Version: 2.0.1 -* GitHub: https://github.com/havishaJ/Greymodels -* Source code: https://github.com/cran/Greymodels -* Date/Publication: 2022-12-05 12:42:35 UTC -* Number of recursive dependencies: 91 - -Run `revdepcheck::cloud_details(, "Greymodels")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘Greymodels-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Plots - > ### Title: plots - > ### Aliases: plots plotrm plotsmv1 plotsmv2 plotsigndgm plots_mdbgm12 - > - > ### ** Examples - > - > # Plots - EPGM (1, 1) model - ... - + geom_point(data = set4, aes(x = CI, y = y), shape = 23, color = "black") + - + geom_line(data = xy1, aes(x = x, y = y,color = "Raw Data")) + - + geom_line(data = xy2, aes(x = x, y = y,color = "Fitted&Forecasts")) + - + geom_line(data = set3, aes(x = CI, y = y,color = "LowerBound"), linetype=2) + - + geom_line(data = set4, aes(x = CI, y = y,color = "UpperBound"), linetype=2) + - + scale_color_manual(name = "Label",values = colors) - > r <- ggplotly(p) - Error in pm[[2]] : subscript out of bounds - Calls: ggplotly -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -# gsDesign - -
- -* Version: 3.6.4 -* GitHub: https://github.com/keaven/gsDesign -* Source code: https://github.com/cran/gsDesign -* Date/Publication: 2024-07-26 23:20:10 UTC -* Number of recursive dependencies: 102 - -Run `revdepcheck::cloud_details(, "gsDesign")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘gsDesign-Ex.R’ failed - The error most likely occurred in: - - > ### Name: summary.gsDesign - > ### Title: Bound Summary and Z-transformations - > ### Aliases: summary.gsDesign print.gsDesign gsBoundSummary xprint - > ### print.gsBoundSummary gsBValue gsDelta gsRR gsHR gsCPz - > ### Keywords: design - > - > ### ** Examples - ... - ~RR at bound 0.6605 0.6605 - P(Cross) if RR=1 0.0239 0.9761 - P(Cross) if RR=0.5 0.9000 0.1000 - > gsRR(z = xp$lower$bound, i = 1:3, xrr) - [1] 1.0732500 0.8211496 NA - > plot(xrr, plottype = "RR") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(gsDesign) - > - > test_check("gsDesign") - Linear spending function with none = [ FAIL 15 | WARN 9 | SKIP 98 | PASS 1799 ] - - ══ Skipped tests (98) ══════════════════════════════════════════════════════════ - ... - 20. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE) - 21. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) - 22. └─grid:::drawGrob(x) - 23. ├─grid::drawDetails(x, recording = FALSE) - 24. └─grid:::drawDetails.polyline(x, recording = FALSE) - 25. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) - - [ FAIL 15 | WARN 9 | SKIP 98 | PASS 1799 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ConditionalPowerPlot.Rmd’ - ... - - > cp <- gsCP(x = update, i = 1, zi = -qnorm(p), theta = theta) - - > plot(cp, xval = hr, xlab = "Future HR", ylab = "Conditional Power/Error", - + main = "Conditional probability of crossing future bound", - + o .... [TRUNCATED] - - ... - ‘PoissonMixtureModel.Rmd’ using ‘UTF-8’... OK - ‘SpendingFunctionOverview.Rmd’ using ‘UTF-8’... OK - ‘SurvivalOverview.Rmd’ using ‘UTF-8’... OK - ‘VaccineEfficacy.Rmd’ using ‘UTF-8’... OK - ‘binomialSPRTExample.Rmd’ using ‘UTF-8’... OK - ‘gsDesignPackageOverview.Rmd’ using ‘UTF-8’... failed - ‘gsSurvBasicExamples.Rmd’ using ‘UTF-8’... failed - ‘hGraph.Rmd’ using ‘UTF-8’... OK - ‘nNormal.Rmd’ using ‘UTF-8’... OK - ‘toInteger.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘ConditionalErrorSpending.Rmd’ using rmarkdown - ``` - -# gtExtras - -
- -* Version: 0.5.0 -* GitHub: https://github.com/jthomasmock/gtExtras -* Source code: https://github.com/cran/gtExtras -* Date/Publication: 2023-09-15 22:32:06 UTC -* Number of recursive dependencies: 105 - -Run `revdepcheck::cloud_details(, "gtExtras")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(gtExtras) - Loading required package: gt - - Attaching package: 'gt' - - The following object is masked from 'package:testthat': - ... - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-gt_plt_bar.R:44:3'): gt_plt_bar svg is created and has specific values ── - `bar_neg_vals` (`actual`) not equal to c("49.19", "32.79", "16.40", "16.40", "32.79", "49.19") (`expected`). - - `actual`: "49.19" "32.79" "16.40" "0.00" "0.00" "0.00" - `expected`: "49.19" "32.79" "16.40" "16.40" "32.79" "49.19" - - [ FAIL 1 | WARN 14 | SKIP 23 | PASS 115 ] - Error: Test failures - Execution halted - ``` - -# HaploCatcher - -
- -* Version: 1.0.4 -* GitHub: NA -* Source code: https://github.com/cran/HaploCatcher -* Date/Publication: 2023-04-21 23:32:39 UTC -* Number of recursive dependencies: 112 - -Run `revdepcheck::cloud_details(, "HaploCatcher")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘An_Intro_to_HaploCatcher.Rmd’ - ... - > set.seed(NULL) - - > results1 <- auto_locus(geno_mat = geno_mat, gene_file = gene_comp, - + gene_name = "sst1_solid_stem", marker_info = marker_info, - + chromosom .... [TRUNCATED] - Loading required package: lattice - - When sourcing ‘An_Intro_to_HaploCatcher.R’: - Error: object is not a unit - Execution halted - - ‘An_Intro_to_HaploCatcher.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘An_Intro_to_HaploCatcher.Rmd’ using rmarkdown - - Quitting from lines 242-253 [example_models_1] (An_Intro_to_HaploCatcher.Rmd) - Error: processing vignette 'An_Intro_to_HaploCatcher.Rmd' failed with diagnostics: - object is not a unit - --- failed re-building ‘An_Intro_to_HaploCatcher.Rmd’ - - SUMMARY: processing the following file failed: - ‘An_Intro_to_HaploCatcher.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# healthyR - -
- -* Version: 0.2.2 -* GitHub: https://github.com/spsanderson/healthyR -* Source code: https://github.com/cran/healthyR -* Date/Publication: 2024-07-01 13:20:02 UTC -* Number of recursive dependencies: 146 - -Run `revdepcheck::cloud_details(, "healthyR")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘getting-started.Rmd’ - ... - + .by = "month", .interactive = FALSE) - Warning: Ignoring unknown labels: - • `colour = "Legend"` - - > ts_alos_plt(.data = df_tbl, .date_col = Date, .value_col = Values, - + .by = "month", .interactive = TRUE) - - When sourcing ‘getting-started.R’: - Error: subscript out of bounds - Execution halted - - ‘getting-started.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘getting-started.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.6Mb - sub-directories of 1Mb or more: - data 2.5Mb - doc 3.7Mb - ``` - -# healthyR.ts - -
- -* Version: 0.3.0 -* GitHub: https://github.com/spsanderson/healthyR.ts -* Source code: https://github.com/cran/healthyR.ts -* Date/Publication: 2023-11-15 06:00:05 UTC -* Number of recursive dependencies: 200 - -Run `revdepcheck::cloud_details(, "healthyR.ts")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘healthyR.ts-Ex.R’ failed - The error most likely occurred in: - - > ### Name: tidy_fft - > ### Title: Tidy Style FFT - > ### Aliases: tidy_fft - > - > ### ** Examples - > - > suppressPackageStartupMessages(library(dplyr)) - ... - > a <- tidy_fft( - + .data = data_tbl, - + .value_col = value, - + .date_col = date_col, - + .harmonics = 3, - + .frequency = 12 - + ) - Error in pm[[2]] : subscript out of bounds - Calls: tidy_fft -> -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘using-tidy-fft.Rmd’ - ... - $ value 112, 118, 132, 129, 121, 135, 148, 148, 136, 119, 104, 118, 1… - - > suppressPackageStartupMessages(library(timetk)) - - > data_tbl %>% plot_time_series(.date_var = date_col, - + .value = value) - - When sourcing ‘using-tidy-fft.R’: - Error: subscript out of bounds - Execution halted - - ‘getting-started.Rmd’ using ‘UTF-8’... OK - ‘using-tidy-fft.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘getting-started.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.3Mb - sub-directories of 1Mb or more: - doc 5.2Mb - ``` - -# heatmaply - -
- -* Version: 1.5.0 -* GitHub: https://github.com/talgalili/heatmaply -* Source code: https://github.com/cran/heatmaply -* Date/Publication: 2023-10-06 20:50:02 UTC -* Number of recursive dependencies: 111 - -Run `revdepcheck::cloud_details(, "heatmaply")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(heatmaply) - Loading required package: plotly - Loading required package: ggplot2 - - Attaching package: 'plotly' - - ... - 4. │ │ └─base::withCallingHandlers(...) - 5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) - 6. ├─heatmaply:::predict_colors(ggplotly(g), plot_method = "ggplot") - 7. ├─plotly::ggplotly(g) - 8. └─plotly:::ggplotly.ggplot(g) - 9. └─plotly::gg2list(...) - - [ FAIL 58 | WARN 0 | SKIP 0 | PASS 193 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘heatmaply.Rmd’ - ... - - > library("heatmaply") - - > library("heatmaply") - - > heatmaply(mtcars) - - When sourcing ‘heatmaply.R’: - Error: subscript out of bounds - Execution halted - - ‘heatmaply.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘heatmaply.Rmd’ using rmarkdown - - Quitting from lines 109-111 [unnamed-chunk-5] (heatmaply.Rmd) - Error: processing vignette 'heatmaply.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘heatmaply.Rmd’ - - SUMMARY: processing the following file failed: - ‘heatmaply.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.5Mb - sub-directories of 1Mb or more: - doc 5.1Mb - ``` - -# hermiter - -
- -* Version: 2.3.1 -* GitHub: https://github.com/MikeJaredS/hermiter -* Source code: https://github.com/cran/hermiter -* Date/Publication: 2024-03-06 23:50:02 UTC -* Number of recursive dependencies: 79 - -Run `revdepcheck::cloud_details(, "hermiter")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘hermiter.Rmd’ - ... - > p2 <- ggplot(df_pdf_cdf) + geom_tile(aes(X, Y, fill = pdf_est)) + - + scale_fill_continuous_sequential(palette = "Oslo", breaks = seq(0, - + .... [TRUNCATED] - - > p1 + ggtitle("Actual PDF") + theme(legend.title = element_blank()) + - + p2 + ggtitle("Estimated PDF") + theme(legend.title = element_blank()) + .... [TRUNCATED] - - When sourcing ‘hermiter.R’: - Error: object is not a unit - Execution halted - - ‘hermiter.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘hermiter.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.8Mb - sub-directories of 1Mb or more: - R 2.6Mb - doc 1.9Mb - libs 2.0Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# heumilkr - -
- -* Version: 0.2.0 -* GitHub: https://github.com/lschneiderbauer/heumilkr -* Source code: https://github.com/cran/heumilkr -* Date/Publication: 2024-04-01 13:50:06 UTC -* Number of recursive dependencies: 80 - -Run `revdepcheck::cloud_details(, "heumilkr")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘clarke_wright_performance.Rmd’ - ... - + "F", "tai"), group_desc = c("Augerat A, 1995", "Augerat B, 1995", - + "Christofides and ..." ... [TRUNCATED] - - > ggMarginal(ggplot(merge(result, description, by = "group"), - + aes(x = n_site, y = clarke_wright_perf_xi, color = group_desc)) + - + geom_poi .... [TRUNCATED] - - When sourcing ‘clarke_wright_performance.R’: - Error: argument is of length zero - Execution halted - - ‘clarke_wright_performance.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘clarke_wright_performance.Rmd’ using rmarkdown - - Quitting from lines 69-97 [perf_scale_based_graph] (clarke_wright_performance.Rmd) - Error: processing vignette 'clarke_wright_performance.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘clarke_wright_performance.Rmd’ - - SUMMARY: processing the following file failed: - ‘clarke_wright_performance.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# hilldiv - -
- -* Version: 1.5.1 -* GitHub: https://github.com/anttonalberdi/hilldiv -* Source code: https://github.com/cran/hilldiv -* Date/Publication: 2019-10-01 14:40:02 UTC -* Number of recursive dependencies: 144 - -Run `revdepcheck::cloud_details(, "hilldiv")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘hilldiv-Ex.R’ failed - The error most likely occurred in: - - > ### Name: div_test_plot - > ### Title: Diversity test plotting - > ### Aliases: div_test_plot - > ### Keywords: chart comparison hill numbers - > - > ### ** Examples - > - ... - 11. │ └─ggplot2:::`+.gg`(...) - 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. │ ├─ggplot2::ggplot_add(object, p, objectname) - 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 16. └─base::.handleSimpleError(...) - 17. └─purrr (local) h(simpleError(msg, call)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) - Execution halted - ``` - -# hmclearn - -
- -* Version: 0.0.5 -* GitHub: NA -* Source code: https://github.com/cran/hmclearn -* Date/Publication: 2020-10-05 06:40:02 UTC -* Number of recursive dependencies: 97 - -Run `revdepcheck::cloud_details(, "hmclearn")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘hmclearn-Ex.R’ failed - The error most likely occurred in: - - > ### Name: hmclearn-plots - > ### Title: Plotting for MCMC visualization and diagnostics provided by - > ### 'bayesplot' package - > ### Aliases: hmclearn-plots mcmc_intervals mcmc_intervals.hmclearn - > ### mcmc_areas mcmc_areas.hmclearn mcmc_hist mcmc_hist.hmclearn - > ### mcmc_hist_by_chain mcmc_hist_by_chain.hmclearn mcmc_dens - > ### mcmc_dens.hmclearn mcmc_scatter mcmc_scatter.hmclearn mcmc_hex - ... - + param = list(y=y, X=X), - + parallel=FALSE, chains=2) - > - > mcmc_trace(f, burnin=100) - > mcmc_hist(f, burnin=100) - `stat_bin()` using `bins = 30`. Pick better value with `binwidth`. - > mcmc_intervals(f, burnin=100) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: mcmc_intervals ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# HTLR - -
- -* Version: 0.4-4 -* GitHub: https://github.com/longhaiSK/HTLR -* Source code: https://github.com/cran/HTLR -* Date/Publication: 2022-10-22 12:47:53 UTC -* Number of recursive dependencies: 91 - -Run `revdepcheck::cloud_details(, "HTLR")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘simu.Rmd’ - ... - [1] "median" - - > post.t <- as.matrix(fit.t2, k = 2) - - > mcmc_intervals(post.t, pars = c("Intercept", "V1", - + "V2", "V3", "V1000")) - - When sourcing ‘simu.R’: - Error: argument is of length zero - Execution halted - - ‘simu.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘simu.Rmd’ using rmarkdown - ``` - -## In both - -* checking C++ specification ... NOTE - ``` - Specified C++11: please drop specification unless essential - ``` - -* checking installed package size ... NOTE - ``` - installed size is 8.8Mb - sub-directories of 1Mb or more: - data 2.0Mb - doc 1.1Mb - libs 5.4Mb - ``` - -# HVT - -
- -* Version: 24.5.2 -* GitHub: https://github.com/Mu-Sigma/HVT -* Source code: https://github.com/cran/HVT -* Date/Publication: 2024-05-15 08:50:21 UTC -* Number of recursive dependencies: 200 - -Run `revdepcheck::cloud_details(, "HVT")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘HVT-Ex.R’ failed - The error most likely occurred in: - - > ### Name: getTransitionProbability - > ### Title: Creating Transition Probabilities list - > ### Aliases: getTransitionProbability - > ### Keywords: Transition_or_Prediction - > - > ### ** Examples - > - ... - Ignoring unknown parameters: `check_overlap` - Scale for x is already present. - Adding another scale for x, which will replace the existing scale. - Scale for y is already present. - Adding another scale for y, which will replace the existing scale. - Warning in geom_polygon(data = boundaryCoords2, aes(x = bp.x, y = bp.y, : - Ignoring unknown aesthetics: text - Error in pm[[2]] : subscript out of bounds - Calls: scoreHVT -> -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -# hypsoLoop - -
- -* Version: 0.2.0 -* GitHub: NA -* Source code: https://github.com/cran/hypsoLoop -* Date/Publication: 2022-02-08 09:00:02 UTC -* Number of recursive dependencies: 97 - -Run `revdepcheck::cloud_details(, "hypsoLoop")` for more info - -
- -## Newly broken - -* checking whether package ‘hypsoLoop’ can be installed ... WARNING - ``` - Found the following significant warnings: - Warning: replacing previous import ‘ggplot2::set_theme’ by ‘sjPlot::set_theme’ when loading ‘hypsoLoop’ - See ‘/tmp/workdir/hypsoLoop/new/hypsoLoop.Rcheck/00install.out’ for details. - ``` - -# ibdsim2 - -
- -* Version: 2.1.1 -* GitHub: https://github.com/magnusdv/ibdsim2 -* Source code: https://github.com/cran/ibdsim2 -* Date/Publication: 2024-09-08 07:40:02 UTC -* Number of recursive dependencies: 80 - -Run `revdepcheck::cloud_details(, "ibdsim2")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ibdsim2-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotSegmentDistribution - > ### Title: Scatter plots of IBD segment distributions - > ### Aliases: plotSegmentDistribution - > - > ### ** Examples - > - > - ... - Skip recomb : - - Total time used: 0.00288 secs - > - > # By default, the IBD segments of the "leaves" are computed and plotted - > plotSegmentDistribution(simPat, simMat, type = "ibd1", ids = 4:5, - + labels = c("HSpat", "HSmat")) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -# ICtest - -
- -* Version: 0.3-5 -* GitHub: NA -* Source code: https://github.com/cran/ICtest -* Date/Publication: 2022-05-18 07:30:29 UTC -* Number of recursive dependencies: 97 - -Run `revdepcheck::cloud_details(, "ICtest")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ICtest-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggplot.ictest - > ### Title: Scatterplot Matrix for a ictest Object using ggplot2 - > ### Aliases: ggplot.ictest - > ### Keywords: hplot - > - > ### ** Examples - > - ... - > # The aesthetics variables - > mapvar <- data.frame(iris[, 5]) - > colnames(mapvar) <- "species" - > - > TestCov <- PCAasymp(X, k = 2) - > ggplot(TestCov) - > ggplot(TestCov, aes(color = species), mapvar = mapvar, which = "k") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.7Mb - sub-directories of 1Mb or more: - doc 2.5Mb - libs 2.9Mb - ``` - -# idiogramFISH - -
- -* Version: 2.0.13 -* GitHub: NA -* Source code: https://github.com/cran/idiogramFISH -* Date/Publication: 2023-08-22 16:50:02 UTC -* Number of recursive dependencies: 164 - -Run `revdepcheck::cloud_details(, "idiogramFISH")` for more info - -
- -## Newly broken - -* checking installed package size ... NOTE - ``` - installed size is 5.1Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 2.0Mb - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘index.Rmd’ - ... - > if (requireNamespace("RCurl", quietly = TRUE)) { - + v <- sub("Version: ", "", readLines("../DESCRIPTION")[3]) - + pkg <- "idiogramFISH" - + l .... [TRUNCATED] - Warning in file(con, "r") : - cannot open file '../DESCRIPTION': No such file or directory - - When sourcing ‘index.R’: - Error: cannot open the connection - Execution halted - - ‘AVignette.Rmd’ using ‘UTF-8’... OK - ‘index.Rmd’ using ‘UTF-8’... failed - ``` - -# IDMIR - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/IDMIR -* Date/Publication: 2023-11-09 15:30:02 UTC -* Number of recursive dependencies: 112 - -Run `revdepcheck::cloud_details(, "IDMIR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘IDMIR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: PlotSurvival - > ### Title: PlotSurvival - > ### Aliases: PlotSurvival - > - > ### ** Examples - > - > # Obtain the example data - ... - > GEP<-GetData_Mirna("GEP") - > survival<-GetData_Mirna("survival") - > MiRNAs<-c("hsa-miR-21-5p","hsa-miR-26a-5p","hsa-miR-369-5p","hsa-miR-1238-3p","hsa-miR-10b-5p") - > # Run the function - > SingleMiRNA_CRData<-SingleMiRNA_CRModel(GEP, - + "hsa-miR-21-5p",survival,cutoff.point=NULL) - > PlotSurvival(SingleMiRNA_CRData) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: PlotSurvival ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘IDMIR.Rmd’ - ... - > survival <- GetData_Mirna("survival") - - > SingleMiRNA_CRData <- SingleMiRNA_CRModel(GEP, "hsa-miR-21-5p", - + cutoff.point = NULL, survival) - - > PlotSurvival(SingleMiRNA_CRData) - - When sourcing ‘IDMIR.R’: - Error: argument is of length zero - Execution halted - - ‘IDMIR.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘IDMIR.Rmd’ using rmarkdown - - Quitting from lines 120-130 [unnamed-chunk-7] (IDMIR.Rmd) - Error: processing vignette 'IDMIR.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘IDMIR.Rmd’ - - SUMMARY: processing the following file failed: - ‘IDMIR.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# idopNetwork - -
- -* Version: 0.1.2 -* GitHub: https://github.com/cxzdsa2332/idopNetwork -* Source code: https://github.com/cran/idopNetwork -* Date/Publication: 2023-04-18 06:50:02 UTC -* Number of recursive dependencies: 77 - -Run `revdepcheck::cloud_details(, "idopNetwork")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘idopNetwork_vignette.Rmd’ - ... - - > qdODE_plot_base(ode.test) - - > ode.module = test_result$d1_module - - > qdODE_plot_all(ode.module) - - When sourcing ‘idopNetwork_vignette.R’: - Error: object is not a unit - Execution halted - - ‘idopNetwork_vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘idopNetwork_vignette.Rmd’ using rmarkdown - ``` - -# ihclust - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/ihclust -* Date/Publication: 2022-04-27 07:20:02 UTC -* Number of recursive dependencies: 114 - -Run `revdepcheck::cloud_details(, "ihclust")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ihclust-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ihclust - > ### Title: Iterative Hierarchical Clustering (IHC) - > ### Aliases: ihclust - > - > ### ** Examples - > - > # This is an example not using the permutation approach - ... - 12. │ └─ggplot2:::`+.gg`(p, do.call(geom_line, option)) - 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. │ ├─ggplot2::ggplot_add(object, p, objectname) - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - Execution halted - ``` - -# immunarch - -
- -* Version: 0.9.1 -* GitHub: https://github.com/immunomind/immunarch -* Source code: https://github.com/cran/immunarch -* Date/Publication: 2024-03-18 19:10:06 UTC -* Number of recursive dependencies: 198 - -Run `revdepcheck::cloud_details(, "immunarch")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘immunarch-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geneUsageAnalysis - > ### Title: Post-analysis of V-gene and J-gene statistics: PCA, clustering, - > ### etc. - > ### Aliases: geneUsageAnalysis - > - > ### ** Examples - > - ... - 17. │ └─ggplot2:::`+.gg`(p, do.call(geom_line, option)) - 18. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 19. │ ├─ggplot2::ggplot_add(object, p, objectname) - 20. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 21. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 22. └─base::.handleSimpleError(...) - 23. └─purrr (local) h(simpleError(msg, call)) - 24. └─cli::cli_abort(...) - 25. └─rlang::abort(...) - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 10.6Mb - sub-directories of 1Mb or more: - R 1.5Mb - data 5.5Mb - doc 1.6Mb - ``` - -# incidental - -
- -* Version: 0.1 -* GitHub: NA -* Source code: https://github.com/cran/incidental -* Date/Publication: 2020-09-16 09:50:03 UTC -* Number of recursive dependencies: 67 - -Run `revdepcheck::cloud_details(, "incidental")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘incidental-tutorial.Rmd’ - ... - - > data_subset = do.call("rbind", model_df_list) - - > ggplot(data_subset, aes(x = Time, y = Reported)) + - + geom_point(color = "coral2", shape = 3) + geom_line(aes(x = Time, - + y = Ihat), color .... [TRUNCATED] - - When sourcing ‘incidental-tutorial.R’: - Error: `x` must be a vector, not a object. - Execution halted - - ‘incidental-tutorial.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘incidental-tutorial.Rmd’ using rmarkdown - ``` - -# infer - -
- -* Version: 1.0.7 -* GitHub: https://github.com/tidymodels/infer -* Source code: https://github.com/cran/infer -* Date/Publication: 2024-03-25 21:50:02 UTC -* Number of recursive dependencies: 127 - -Run `revdepcheck::cloud_details(, "infer")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘infer-Ex.R’ failed - The error most likely occurred in: - - > ### Name: shade_confidence_interval - > ### Title: Add information about confidence interval - > ### Aliases: shade_confidence_interval shade_ci - > - > ### ** Examples - > - > # find the point estimate---mean number of hours worked per week - ... - + type = "se") - > - > - > # and plot it! - > boot_dist %>% - + visualize() + - + shade_confidence_interval(ci) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - 18. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 19. │ ├─ggplot2::ggplot_add(object, p, objectname) - 20. │ └─ggplot2:::ggplot_add.list(object, p, objectname) - 21. │ ├─ggplot2::ggplot_add(o, plot, object_name) - 22. │ └─ggplot2:::ggplot_add.Layer(o, plot, object_name) - 23. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 24. └─base::.handleSimpleError(...) - 25. └─testthat (local) h(simpleError(msg, call)) - 26. └─rlang::abort(...) - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘anova.Rmd’ - ... - + generate(reps = 1000, type = "permute") %>% calculate( .... [TRUNCATED] - Dropping unused factor levels DK from the supplied explanatory variable - 'partyid'. - - > null_dist %>% visualize() + shade_p_value(observed_f_statistic, - + direction = "greater") - - ... - When sourcing ‘t_test.R’: - Error: argument is of length zero - Execution halted - - ‘anova.Rmd’ using ‘UTF-8’... failed - ‘chi_squared.Rmd’ using ‘UTF-8’... failed - ‘infer.Rmd’ using ‘UTF-8’... failed - ‘observed_stat_examples.Rmd’ using ‘UTF-8’... failed - ‘paired.Rmd’ using ‘UTF-8’... failed - ‘t_test.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘anova.Rmd’ using rmarkdown - ``` - -# injurytools - -
- -* Version: 1.0.3 -* GitHub: https://github.com/lzumeta/injurytools -* Source code: https://github.com/cran/injurytools -* Date/Publication: 2023-11-14 17:20:05 UTC -* Number of recursive dependencies: 155 - -Run `revdepcheck::cloud_details(, "injurytools")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘model-injury-data-ii.Rmd’ - ... - n events median 0.95LCL 0.95UCL - seasonb=2017/2018 23 16 265 152 NA - seasonb=2018/2019 19 17 106 84 165 - - > ggsurvplot(fit, data = injd_sub, palette = c("#E7B800", - + "#2E9FDF")) + xlab("Time [calendar days]") + ylab(expression("Survival probability ( ..." ... [TRUNCATED] - - When sourcing ‘model-injury-data-ii.R’: - Error: argument is of length zero - Execution halted - - ‘estimate-epi-measures.Rmd’ using ‘UTF-8’... OK - ‘model-injury-data-i.Rmd’ using ‘UTF-8’... OK - ‘model-injury-data-ii.Rmd’ using ‘UTF-8’... failed - ‘prepare-injury-data.Rmd’ using ‘UTF-8’... OK - ‘visualize-injury-data.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘estimate-epi-measures.Rmd’ using rmarkdown - --- finished re-building ‘estimate-epi-measures.Rmd’ - - --- re-building ‘model-injury-data-i.Rmd’ using rmarkdown - ``` - -# inlabru - -
- -* Version: 2.11.1 -* GitHub: https://github.com/inlabru-org/inlabru -* Source code: https://github.com/cran/inlabru -* Date/Publication: 2024-07-01 23:30:02 UTC -* Number of recursive dependencies: 141 - -Run `revdepcheck::cloud_details(, "inlabru")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘inlabru-Ex.R’ failed - The error most likely occurred in: - - > ### Name: seals - > ### Title: Seal pups - > ### Aliases: seals seals_sp - > ### Keywords: datasets - > - > ### ** Examples - > - > if (require(ggplot2, quietly = TRUE)) { - + ggplot() + - + geom_fm(data = seals_sp$mesh) + - + gg(seals_sp$points) - + } - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > if (require(testthat, quietly = TRUE)) { - + test_check("inlabru") - + } - Loading required package: inlabru - Loading required package: fmesher - Starting 2 test processes - [ FAIL 2 | WARN 0 | SKIP 49 | PASS 144 ] - ... - 9. │ └─INLA:::expand.inla.stack.responses(responses) - 10. │ └─base::lapply(...) - 11. │ └─INLA (local) FUN(X[[i]], ...) - 12. │ └─dplyr::bind_rows(...) - 13. │ └─vctrs::vec_rbind(!!!dots, .names_to = .id, .error_call = current_env()) - 14. └─rlang::abort(message = message) - - [ FAIL 2 | WARN 0 | SKIP 49 | PASS 144 ] - Error: Test failures - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Package which this enhances but not available for checking: ‘stars’ - ``` - -# insurancerating - -
- -* Version: 0.7.4 -* GitHub: https://github.com/mharinga/insurancerating -* Source code: https://github.com/cran/insurancerating -* Date/Publication: 2024-05-20 11:30:03 UTC -* Number of recursive dependencies: 133 - -Run `revdepcheck::cloud_details(, "insurancerating")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘insurancerating-Ex.R’ failed - The error most likely occurred in: - - > ### Name: autoplot.univariate - > ### Title: Automatically create a ggplot for objects obtained from - > ### univariate() - > ### Aliases: autoplot.univariate - > - > ### ** Examples - > - ... - > xzip <- univariate(MTPL, x = bm, severity = amount, nclaims = nclaims, - + exposure = exposure, by = zip) - > autoplot(xzip, show_plots = 1:2) - Warning: Removed 16 rows containing missing values or values outside the scale range - (`geom_point()`). - Warning: Removed 5 rows containing missing values or values outside the scale range - (`geom_line()`). - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - -# inTextSummaryTable - -
- -* Version: 3.3.3 -* GitHub: https://github.com/openanalytics/inTextSummaryTable -* Source code: https://github.com/cran/inTextSummaryTable -* Date/Publication: 2024-06-12 18:30:02 UTC -* Number of recursive dependencies: 113 - -Run `revdepcheck::cloud_details(, "inTextSummaryTable")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(inTextSummaryTable) - > - > test_check("inTextSummaryTable") - [ FAIL 62 | WARN 0 | SKIP 0 | PASS 878 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - 6. └─inTextSummaryTable::subjectProfileSummaryPlot(...) - 7. └─ggplot2:::`+.gg`(gg, do.call(geom_line, argsGeomLine)) - 8. └─ggplot2:::add_ggplot(e1, e2, e2name) - 9. ├─ggplot2::ggplot_add(object, p, objectname) - 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 11. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 62 | WARN 0 | SKIP 0 | PASS 878 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘inTextSummaryTable-aesthetics.Rmd’ - ... - - > summaryTable <- data.frame(visit = c(1, 2, 1, 2), - + TRT = c("A", "A", "B", "B"), statMean = rnorm(4)) - - > subjectProfileSummaryPlot(data = summaryTable, xVar = "visit", - + colorVar = "TRT") - - ... - Error: argument is of length zero - Execution halted - - ‘inTextSummaryTable-advanced.Rmd’ using ‘UTF-8’... OK - ‘inTextSummaryTable-aesthetics.Rmd’ using ‘UTF-8’... failed - ‘inTextSummaryTable-createTables.Rmd’ using ‘UTF-8’... OK - ‘inTextSummaryTable-exportTables.Rmd’ using ‘UTF-8’... OK - ‘inTextSummaryTable-introduction.Rmd’ using ‘UTF-8’... OK - ‘inTextSummaryTable-standardTables.Rmd’ using ‘UTF-8’... OK - ‘inTextSummaryTable-visualization.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘inTextSummaryTable-advanced.Rmd’ using rmarkdown - --- finished re-building ‘inTextSummaryTable-advanced.Rmd’ - - --- re-building ‘inTextSummaryTable-aesthetics.Rmd’ using rmarkdown - - Quitting from lines 211-224 [aesthetics-defaultsVisualization] (inTextSummaryTable-aesthetics.Rmd) - Error: processing vignette 'inTextSummaryTable-aesthetics.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘inTextSummaryTable-aesthetics.Rmd’ - ... - Error: processing vignette 'inTextSummaryTable-visualization.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘inTextSummaryTable-visualization.Rmd’ - - SUMMARY: processing the following files failed: - ‘inTextSummaryTable-aesthetics.Rmd’ - ‘inTextSummaryTable-visualization.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 10.3Mb - sub-directories of 1Mb or more: - doc 9.7Mb - ``` - -# inventorize - -
- -* Version: 1.1.1 -* GitHub: NA -* Source code: https://github.com/cran/inventorize -* Date/Publication: 2022-05-31 22:20:09 UTC -* Number of recursive dependencies: 71 - -Run `revdepcheck::cloud_details(, "inventorize")` for more info - -
- -## Newly broken - -* checking whether package ‘inventorize’ can be installed ... ERROR - ``` - Installation failed. - See ‘/tmp/workdir/inventorize/new/inventorize.Rcheck/00install.out’ for details. - ``` - -## Installation - -### Devel - -``` -* installing *source* package ‘inventorize’ ... -** package ‘inventorize’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** byte-compile and prepare package for lazy loading -Error in pm[[2]] : subscript out of bounds -Error: unable to load R code in package ‘inventorize’ -Execution halted -ERROR: lazy loading failed for package ‘inventorize’ -* removing ‘/tmp/workdir/inventorize/new/inventorize.Rcheck/inventorize’ - - -``` -### CRAN - -``` -* installing *source* package ‘inventorize’ ... -** package ‘inventorize’ successfully unpacked and MD5 sums checked -** using staged installation -** R -** byte-compile and prepare package for lazy loading -Warning in qgamma(service_level, alpha, beta) : NaNs produced -** help -*** installing help indices -** building package indices -** testing if installed package can be loaded from temporary location -** testing if installed package can be loaded from final location -** testing if installed package keeps a record of temporary installation path -* DONE (inventorize) - - -``` -# IPV - -
- -* Version: 1.0.0 -* GitHub: https://github.com/NilsPetras/IPV -* Source code: https://github.com/cran/IPV -* Date/Publication: 2022-09-30 15:00:02 UTC -* Number of recursive dependencies: 82 - -Run `revdepcheck::cloud_details(, "IPV")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘IPV-Ex.R’ failed - The error most likely occurred in: - - > ### Name: nested_chart - > ### Title: Nested Chart - > ### Aliases: nested_chart - > - > ### ** Examples - > - > # as simple as that - ... - 6. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 7. └─ggplot2:::new_layer_names(object, names(plot$layers)) - 8. └─vctrs::vec_as_names(names, repair = "check_unique") - 9. └─vctrs (local) ``() - 10. └─vctrs:::validate_unique(names = names, arg = arg, call = call) - 11. └─vctrs:::stop_names_cannot_be_empty(names, call = call) - 12. └─vctrs:::stop_names(...) - 13. └─vctrs:::stop_vctrs(...) - 14. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ipv-vignette.Rmd’ - ... - Facet circle radius set to 0.211 based on the data. - cor_spacing set to 0.193 based on the data. - Relative scaling set to 3.78 based on the data. - Axis tick set to 0.1 based on the data. - dist_construct_label set to 0.5 based on the data. - - When sourcing ‘ipv-vignette.R’: - Error: Names can't be empty. - ✖ Empty name found at location 4. - Execution halted - - ‘ipv-vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘ipv-vignette.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 8.0Mb - sub-directories of 1Mb or more: - data 7.0Mb - ``` - -# IRon - -
- -* Version: 0.1.4 -* GitHub: https://github.com/nunompmoniz/IRon -* Source code: https://github.com/cran/IRon -* Date/Publication: 2023-01-20 07:20:06 UTC -* Number of recursive dependencies: 81 - -Run `revdepcheck::cloud_details(, "IRon")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘IRon-Ex.R’ failed - The error most likely occurred in: - - > ### Name: sera - > ### Title: Squared Error-Relevance Area (SERA) - > ### Aliases: sera - > - > ### ** Examples - > - > library(IRon) - ... - 16. │ └─self$stat$setup_params(data, self$stat_params) - 17. │ └─ggplot2 (local) setup_params(...) - 18. │ └─base::match.fun(method) - 19. │ └─base::get(as.character(FUN), mode = "function", envir = envir) - 20. └─base::.handleSimpleError(...) - 21. └─rlang (local) h(simpleError(msg, call)) - 22. └─handlers[[1L]](cnd) - 23. └─cli::cli_abort(...) - 24. └─rlang::abort(...) - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.7Mb - sub-directories of 1Mb or more: - data 6.5Mb - ``` - -# irt - -
- -* Version: 0.2.9 -* GitHub: https://github.com/egonulates/irt -* Source code: https://github.com/cran/irt -* Date/Publication: 2024-02-20 20:40:02 UTC -* Number of recursive dependencies: 52 - -Run `revdepcheck::cloud_details(, "irt")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘irt-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_distractor_icc - > ### Title: Plot Empirical Item or Test characteristic curve - > ### Aliases: plot_distractor_icc - > - > ### ** Examples - > - > n_item <- 10 # sample(8:12, 1) - ... - > raw_resp <- matrix(sample(LETTERS[1:4], n_item * n_theta, replace = TRUE), - + nrow = n_theta, ncol = n_item, - + dimnames = list(paste0("Examinee-", 1:n_theta), - + paste0("Item_", 1:n_item))) - > key <- sample(LETTERS[1:4], n_item, replace = TRUE) - > plot_distractor_icc(raw_resp, 3, key) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: plot_distractor_icc ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 20.3Mb - sub-directories of 1Mb or more: - R 1.5Mb - libs 18.0Mb - ``` - -# isoorbi - -
- -* Version: 1.3.1 -* GitHub: https://github.com/isoverse/isoorbi -* Source code: https://github.com/cran/isoorbi -* Date/Publication: 2024-08-27 05:10:03 UTC -* Number of recursive dependencies: 123 - -Run `revdepcheck::cloud_details(, "isoorbi")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘dual_inlet.Rmd’ - ... - |20230518_05_USGS32_vs_USGS34 | 16| 7|reference |changeover | NA| 10695| 11020| 65.019| 66.994| - |20230518_05_USGS32_vs_USGS34 | 17| 7|reference |data | NA| 11025| 12335| 67.025| 74.985| - - > orbi_plot_raw_data(df_w_blocks, isotopocules = "15N", - + y = ions.incremental) - - When sourcing ‘dual_inlet.R’: - ... - - When sourcing ‘shot_noise.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘dual_inlet.Rmd’ using ‘UTF-8’... failed - ‘flow_injection.Rmd’ using ‘UTF-8’... OK - ‘isoxl_demo.Rmd’ using ‘UTF-8’... OK - ‘quick_start.Rmd’ using ‘UTF-8’... OK - ‘shot_noise.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘dual_inlet.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.2Mb - sub-directories of 1Mb or more: - doc 2.0Mb - extdata 3.3Mb - ``` - -# ivDiag - -
- -* Version: 1.0.6 -* GitHub: NA -* Source code: https://github.com/cran/ivDiag -* Date/Publication: 2023-09-17 06:00:02 UTC -* Number of recursive dependencies: 90 - -Run `revdepcheck::cloud_details(, "ivDiag")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘ivDiag-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ltz - > ### Title: Local-to-Zero Test - > ### Aliases: ltz - > - > ### ** Examples - > - > data(ivDiag) - > controls <- c('altitudine', 'escursione', 'costal', 'nearsea', 'population', - + 'pop2', 'gini_land', 'gini_income') - > ltz_out <- ltz(data = gsz, Y = "totassoc_p", D = "libero_comune_allnord", - + Z = "bishopcity", controls = controls, weights = "population", - + prior = c(0.178, 0.137)) - > plot_ltz(ltz_out) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_ltz ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# ivreg - -
- -* Version: 0.6-3 -* GitHub: https://github.com/zeileis/ivreg -* Source code: https://github.com/cran/ivreg -* Date/Publication: 2024-04-20 15:22:35 UTC -* Number of recursive dependencies: 127 - -Run `revdepcheck::cloud_details(, "ivreg")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘ivreg.Rmd’ - ... - | F | 204.932 | | - +----------------------+-----------+---------+ - | RMSE | 0.37 | 0.40 | - +----------------------+-----------+---------+ - - > modelplot(m_list, coef_omit = "Intercept|experience") - - When sourcing ‘ivreg.R’: - Error: argument is of length zero - Execution halted - - ‘Diagnostics-for-2SLS-Regression.Rmd’ using ‘UTF-8’... OK - ‘ivreg.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Diagnostics-for-2SLS-Regression.Rmd’ using rmarkdown - ``` - -# jarbes - -
- -* Version: 2.2.1 -* GitHub: NA -* Source code: https://github.com/cran/jarbes -* Date/Publication: 2024-06-07 09:20:02 UTC -* Number of recursive dependencies: 111 - -Run `revdepcheck::cloud_details(, "jarbes")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘hmr.Rmd’ - ... - Warning: Contour data has duplicated x, y coordinates. - ℹ 15940 duplicated rows have been dropped. - Warning: Removed 161 rows containing non-finite outside the scale range - (`stat_contour()`). - Warning: Removed 92 rows containing missing values or values outside the scale range - (`geom_point()`). - - When sourcing ‘hmr.R’: - Error: argument is of length zero - Execution halted - - ‘bmeta.Rmd’ using ‘UTF-8’... OK - ‘hmr.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘bmeta.Rmd’ using rmarkdown - ``` - -# karel - -
- -* Version: 0.1.1 -* GitHub: https://github.com/mpru/karel -* Source code: https://github.com/cran/karel -* Date/Publication: 2022-03-26 21:50:02 UTC -* Number of recursive dependencies: 90 - -Run `revdepcheck::cloud_details(, "karel")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘karel-Ex.R’ failed - The error most likely occurred in: - - > ### Name: acciones - > ### Title: Acciones que Karel puede realizar - > ### Aliases: acciones avanzar girar_izquierda poner_coso juntar_coso - > ### girar_derecha darse_vuelta - > - > ### ** Examples - > - ... - 1. └─karel::ejecutar_acciones() - 2. ├─base::suppressWarnings(...) - 3. │ └─base::withCallingHandlers(...) - 4. ├─gganimate::animate(...) - 5. └─gganimate:::animate.gganim(...) - 6. └─args$renderer(frames_vars$frame_source, args$fps) - 7. └─gganimate:::png_dim(frames[1]) - 8. └─cli::cli_abort("Provided file ({file}) does not exist") - 9. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(karel) - > - > test_check("karel") - [ FAIL 2 | WARN 2 | SKIP 0 | PASS 78 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - 5. ├─gganimate::animate(...) - 6. └─gganimate:::animate.gganim(...) - 7. └─args$renderer(frames_vars$frame_source, args$fps) - 8. └─gganimate:::png_dim(frames[1]) - 9. └─cli::cli_abort("Provided file ({file}) does not exist") - 10. └─rlang::abort(...) - - [ FAIL 2 | WARN 2 | SKIP 0 | PASS 78 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘gifski’ - All declared Imports should be used. - ``` - -# kDGLM - -
- -* Version: 1.2.0 -* GitHub: https://github.com/silvaneojunior/kDGLM -* Source code: https://github.com/cran/kDGLM -* Date/Publication: 2024-05-25 09:50:03 UTC -* Number of recursive dependencies: 136 - -Run `revdepcheck::cloud_details(, "kDGLM")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘kDGLM-Ex.R’ failed - The error most likely occurred in: - - > ### Name: forecast.fitted_dlm - > ### Title: Auxiliary function for forecasting - > ### Aliases: forecast.fitted_dlm - > - > ### ** Examples - > - > - ... - > forecast(fitted.data, 24, - + chickenPox = list(Total = rep(175, 24)), # Optional - + Vaccine.1.Covariate = rep(TRUE, 24), - + Vaccine.2.Covariate = rep(TRUE, 24) - + ) - Scale for y is already present. - Adding another scale for y, which will replace the existing scale. - Error in pm[[2]] : subscript out of bounds - Calls: forecast ... lapply -> -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘fitting.Rmd’ - ... - > outcome <- Multinom(p = c("p.1", "p.2"), data = chickenPox[, - + c(2, 3, 5)]) - - > fitted.model <- fit_model(structure * 2, chickenPox = outcome) - - > forecast(fitted.model, t = 24, plot = "base") - - When sourcing ‘fitting.R’: - Error: Error: Missing extra argument: Vaccine.1.Covariate - Execution halted - - ‘example1.Rmd’ using ‘UTF-8’... OK - ‘fitting.Rmd’ using ‘UTF-8’... failed - ‘intro.Rmd’ using ‘UTF-8’... OK - ‘outcomes.Rmd’ using ‘UTF-8’... OK - ‘structures.Rmd’ using ‘UTF-8’... OK - ``` - -# KMEANS.KNN - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/KMEANS.KNN -* Date/Publication: 2024-05-17 09:20:12 UTC -* Number of recursive dependencies: 157 - -Run `revdepcheck::cloud_details(, "KMEANS.KNN")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘KMEANS.KNN-Ex.R’ failed - The error most likely occurred in: - - > ### Name: KMEANS_FUNCTION - > ### Title: KMEANS_FUNCTION - > ### Aliases: KMEANS_FUNCTION - > - > ### ** Examples - > - > data(iris) - ... - 12. │ └─ggplot2:::`+.gg`(...) - 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. │ ├─ggplot2::ggplot_add(object, p, objectname) - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html - ... - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 11 ] - Error: Test failures - Execution halted - ``` - -# latentcor - -
- -* Version: 2.0.1 -* GitHub: NA -* Source code: https://github.com/cran/latentcor -* Date/Publication: 2022-09-05 20:50:02 UTC -* Number of recursive dependencies: 143 - -Run `revdepcheck::cloud_details(, "latentcor")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘latentcor-Ex.R’ failed - The error most likely occurred in: - - > ### Name: latentcor - > ### Title: Estimate latent correlation for mixed types. - > ### Aliases: latentcor - > - > ### ** Examples - > - > # Example 1 - truncated data type, same type for all variables - ... - > R_approx = latentcor(X = X, types = "tru", method = "approx")$R - > proc.time() - start_time - user system elapsed - 0.027 0.000 0.027 - > # Heatmap for latent correlation matrix. - > Heatmap_R_approx = latentcor(X = X, types = "tru", method = "approx", - + showplot = TRUE)$plotR - Error in pm[[2]] : subscript out of bounds - Calls: latentcor ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -# lcars - -
- -* Version: 0.3.8 -* GitHub: https://github.com/leonawicz/lcars -* Source code: https://github.com/cran/lcars -* Date/Publication: 2023-09-10 04:10:02 UTC -* Number of recursive dependencies: 88 - -Run `revdepcheck::cloud_details(, "lcars")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘lcars-Ex.R’ failed - The error most likely occurred in: - - > ### Name: lcars_border - > ### Title: LCARS border plot - > ### Aliases: lcars_border - > - > ### ** Examples - > - > lcars_border() - ... - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family '0.5' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family '0.5' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family '0.5' not found in PostScript font database - Error in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - invalid font type - Calls: lcars_border ... drawDetails -> drawDetails.text -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘lcars.Rmd’ - ... - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family '0.5' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family '0.5' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family '0.5' not found in PostScript font database - - When sourcing ‘lcars.R’: - Error: invalid font type - Execution halted - - ‘lcars.Rmd’ using ‘UTF-8’... failed - ``` - -# lemon - -
- -* Version: 0.4.9 -* GitHub: https://github.com/stefanedwards/lemon -* Source code: https://github.com/cran/lemon -* Date/Publication: 2024-02-08 08:00:08 UTC -* Number of recursive dependencies: 76 - -Run `revdepcheck::cloud_details(, "lemon")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘lemon-Ex.R’ failed - The error most likely occurred in: - - > ### Name: annotate_y_axis - > ### Title: Annotations on the axis - > ### Aliases: annotate_y_axis annotate_x_axis - > - > ### ** Examples - > - > library(ggplot2) - > - > p <- ggplot(mtcars, aes(mpg, hp, colour=disp)) + geom_point() - > - > l <- p + annotate_y_axis('mark at', y=200, tick=TRUE) - > l - Error in identicalUnits(x) : object is not a unit - Calls: ... polylineGrob -> is.unit -> unit.c -> identicalUnits - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(lemon) - > - > - > if (TRUE) { - + test_check("lemon") - + } #else { - ... - 17. ├─grid::unit.c(unit(1, "npc"), unit(1, "npc") - tick.length) - 18. └─grid:::Ops.unit(unit(1, "npc"), tick.length) - 19. └─grid:::as.unit(e2) - - [ FAIL 1 | WARN 0 | SKIP 3 | PASS 138 ] - Deleting unused snapshots: - • facet/facet-rep-wrap-spacing.svg - • facet_aux/facet-rep-wrap.svg - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘capped-axes.Rmd’ - ... - > p + coord_capped_cart(bottom = "right") - - > p + coord_capped_cart(bottom = "right", left = "none") - - > ggplot(dat1, aes(gp, y)) + geom_point(position = position_jitter(width = 0.2, - + height = 0)) + coord_capped_cart(left = "none", bottom = bracke .... [TRUNCATED] - - ... - When sourcing ‘legends.R’: - Error: Could not find panel named `panel-1-5`. - Execution halted - - ‘capped-axes.Rmd’ using ‘UTF-8’... failed - ‘facet-rep-labels.Rmd’ using ‘UTF-8’... failed - ‘geoms.Rmd’ using ‘UTF-8’... OK - ‘gtable_show_lemonade.Rmd’ using ‘UTF-8’... OK - ‘legends.Rmd’ using ‘UTF-8’... failed - ‘lemon_print.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘capped-axes.Rmd’ using rmarkdown - ``` - -# lfproQC - -
- -* Version: 0.2.0 -* GitHub: NA -* Source code: https://github.com/cran/lfproQC -* Date/Publication: 2024-09-06 13:00:02 UTC -* Number of recursive dependencies: 143 - -Run `revdepcheck::cloud_details(, "lfproQC")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘lfproQC-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Boxplot_data - > ### Title: Creating Boxplot for a dataset - > ### Aliases: Boxplot_data - > - > ### ** Examples - > - > Boxplot_data(yeast_data) - Using Majority protein IDs as id variables - Warning: Removed 269 rows containing non-finite outside the scale range - (`stat_boxplot()`). - Error in pm[[2]] : subscript out of bounds - Calls: Boxplot_data -> -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘user_guide.Rmd’ - ... - > yeast$`Best combinations` - PCV_best_combination PEV_best_combination PMAD_best_combination - 1 knn_rlr lls_vsn lls_rlr - - > Boxplot_data(yeast$knn_rlr_data) - Using Majority protein IDs as id variables - - When sourcing ‘user_guide.R’: - Error: subscript out of bounds - Execution halted - - ‘user_guide.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘user_guide.Rmd’ using rmarkdown - - Quitting from lines 53-54 [unnamed-chunk-8] (user_guide.Rmd) - Error: processing vignette 'user_guide.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘user_guide.Rmd’ - - SUMMARY: processing the following file failed: - ‘user_guide.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.1Mb - sub-directories of 1Mb or more: - doc 5.8Mb - ``` - -# lgpr - -
- -* Version: 1.2.4 -* GitHub: https://github.com/jtimonen/lgpr -* Source code: https://github.com/cran/lgpr -* Date/Publication: 2023-09-24 06:50:02 UTC -* Number of recursive dependencies: 101 - -Run `revdepcheck::cloud_details(, "lgpr")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # Short tests - > # - focus on testing that everything runs - > # - should take less than minute - > library(testthat) - > library(lgpr) - Attached lgpr 1.2.4, using rstan 2.32.6. Type ?lgpr to get started. - > - ... - 3. └─bayesplot::mcmc_areas(sf, regex_pars = regex_pars, ...) - 4. └─ggplot2:::`+.gg`(...) - 5. └─ggplot2:::add_ggplot(e1, e2, e2name) - 6. ├─ggplot2::ggplot_add(object, p, objectname) - 7. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 8. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 3 | WARN 1 | SKIP 0 | PASS 434 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 156.9Mb - sub-directories of 1Mb or more: - R 1.5Mb - libs 155.0Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# LightLogR - -
- -* Version: 0.3.8 -* GitHub: https://github.com/tscnlab/LightLogR -* Source code: https://github.com/cran/LightLogR -* Date/Publication: 2024-07-04 17:00:02 UTC -* Number of recursive dependencies: 157 - -Run `revdepcheck::cloud_details(, "LightLogR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘LightLogR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: aggregate_Date - > ### Title: Aggregate dates to a single day - > ### Aliases: aggregate_Date - > - > ### ** Examples - > - > library(ggplot2) - > #gg_days without aggregation - > sample.data.environment %>% - + gg_days() - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# LMoFit - -
- -* Version: 0.1.7 -* GitHub: NA -* Source code: https://github.com/cran/LMoFit -* Date/Publication: 2024-05-14 07:33:23 UTC -* Number of recursive dependencies: 62 - -Run `revdepcheck::cloud_details(, "LMoFit")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘LMoFit.Rmd’ - ... - - > lspace_BrIII - - When sourcing ‘LMoFit.R’: - Error: Problem while setting up geom aesthetics. - ℹ Error occurred in the 1st layer. - Caused by error in `compute_geom_2()`: - ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, - c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, - Execution halted - - ‘LMoFit.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘LMoFit.Rmd’ using rmarkdown - - Quitting from lines 236-237 [unnamed-chunk-15] (LMoFit.Rmd) - Error: processing vignette 'LMoFit.Rmd' failed with diagnostics: - Problem while setting up geom aesthetics. - ℹ Error occurred in the 1st layer. - Caused by error in `compute_geom_2()`: - ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, - ... - NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 0, 0), list(), 11, list("white", NA, NULL, NULL, TRUE), list(), 5.5, NULL, NULL, list("grey92", NULL, NULL, NULL, FALSE, TRUE), list(), list(), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, - 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, c(5.5, 5.5, 5.5, 5.5), list("white", "black", 2, NULL, TRUE), NULL, NULL, "inherit", "inside", list(NULL, NULL, "grey10", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, - NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75, list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5))) - --- failed re-building ‘LMoFit.Rmd’ - - SUMMARY: processing the following file failed: - ‘LMoFit.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 7.0Mb - sub-directories of 1Mb or more: - data 6.5Mb - ``` - -# lnmixsurv - -
- -* Version: 3.1.6 -* GitHub: NA -* Source code: https://github.com/cran/lnmixsurv -* Date/Publication: 2024-09-03 15:20:08 UTC -* Number of recursive dependencies: 196 - -Run `revdepcheck::cloud_details(, "lnmixsurv")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - - Error in `pm[[2]]`: subscript out of bounds - Backtrace: - ▆ - 1. └─testthat::expect_snapshot(plot(mod1)) at test-survival_ln_mixture_em-methods.R:25:3 - 2. └─rlang::cnd_signal(state$error) - - [ FAIL 1 | WARN 0 | SKIP 7 | PASS 50 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘expectation_maximization.Rmd’ - ... - + x, data = data, iter = 200, starting_seed = 20, number_em_search = 0) - - > gg <- plot_fit_on_data(model_em, data)$ggplot - - > plot(model_em) - Loading required namespace: plotly - - When sourcing ‘expectation_maximization.R’: - Error: subscript out of bounds - Execution halted - - ‘compare.Rmd’ using ‘UTF-8’... OK - ‘expectation_maximization.Rmd’ using ‘UTF-8’... failed - ‘intercept_only.Rmd’ using ‘UTF-8’... OK - ‘lnmixsurv.Rmd’ using ‘UTF-8’... OK - ‘parallel_computation.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘compare.Rmd’ using rmarkdown - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - ... - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - - warning: solve(): system is singular; attempting approx solution - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 10.0Mb - sub-directories of 1Mb or more: - doc 4.0Mb - libs 5.7Mb - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘purrr’ ‘readr’ - All declared Imports should be used. - ``` - -* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘rstanarm’ - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# LocalControl - -
- -* Version: 1.1.4 -* GitHub: https://github.com/OHDSI/LocalControl -* Source code: https://github.com/cran/LocalControl -* Date/Publication: 2024-09-04 22:30:18 UTC -* Number of recursive dependencies: 41 - -Run `revdepcheck::cloud_details(, "LocalControl")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘LocalControl-jss-2020.Rnw’ - ... - Warning: A numeric `legend.position` argument in `theme()` was deprecated in - ggplot2 3.5.0. - ℹ Please use the `legend.position.inside` argument of `theme()` - instead. - - > grid.arrange(plotz$rad_1, plotz$rad_11, ncol = 1) - - When sourcing 'LocalControl-jss-2020.R': - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘LocalControl-jss-2020.Rnw’ using ‘UTF-8’... failed - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.2Mb - sub-directories of 1Mb or more: - doc 2.0Mb - libs 2.7Mb - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘LocalControl-jss-2020.Rnw’ using Sweave - Loading required package: data.table - Loading required package: colorspace - Loading required package: RColorBrewer - Loading required package: gridExtra - Loading required package: ggplot2 - Loading required package: rpart - Loading required package: rpart.plot - Loading required package: LocalControl - ... - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - - --- failed re-building 'LocalControl-jss-2020.Rnw' - - SUMMARY: processing the following file failed: - 'LocalControl-jss-2020.Rnw' - - Error: Vignette re-building failed. - Execution halted - ``` - -# LocalCop - -
- -* Version: 0.0.1 -* GitHub: https://github.com/mlysy/LocalCop -* Source code: https://github.com/cran/LocalCop -* Date/Publication: 2024-03-21 14:50:06 UTC -* Number of recursive dependencies: 92 - -Run `revdepcheck::cloud_details(, "LocalCop")` for more info - -
- -## Newly broken - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘LocalCop-vignette.Rmd’ using rmarkdown - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘LocalCop-vignette.Rmd’ - ... - > tibble(x = x0, True = BiCopEta2Tau(family, eta = eta_fun(x0)), - + Fitted = BiCopEta2Tau(fitseq$eta, family = family)) %>% pivot_longer(True:Fitt .... [TRUNCATED] - Warning: Removed 51 rows containing missing values or values outside the scale range - (`geom_line()`). - Warning: Removed 51 rows containing missing values or values outside the scale range - (`geom_point()`). - - When sourcing ‘LocalCop-vignette.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘LocalCop-vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking installed package size ... NOTE - ``` - installed size is 55.7Mb - sub-directories of 1Mb or more: - libs 55.3Mb - ``` - -# LongDat - -
- -* Version: 1.1.2 -* GitHub: https://github.com/CCY-dev/LongDat -* Source code: https://github.com/cran/LongDat -* Date/Publication: 2023-07-17 05:40:02 UTC -* Number of recursive dependencies: 135 - -Run `revdepcheck::cloud_details(, "LongDat")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘LongDat_cont_tutorial.Rmd’ - ... - - > test_plot <- cuneiform_plot(result_table = test_cont[[1]], - + title_size = 15) - [1] "Finished plotting successfully!" - - > test_plot - - ... - [1] "Finished plotting successfully!" - - > test_plot - - When sourcing ‘LongDat_disc_tutorial.R’: - Error: object is not coercible to a unit - Execution halted - - ‘LongDat_cont_tutorial.Rmd’ using ‘UTF-8’... failed - ‘LongDat_disc_tutorial.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘LongDat_cont_tutorial.Rmd’ using rmarkdown - Warning in eng_r(options) : - Failed to tidy R code in chunk 'unnamed-chunk-3'. Reason: - Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored. - - Warning in eng_r(options) : - Failed to tidy R code in chunk 'unnamed-chunk-4'. Reason: - Error : The formatR package is required by the chunk option tidy = TRUE but not installed; tidy = TRUE will be ignored. - - ... - Quitting from lines 181-182 [unnamed-chunk-11] (LongDat_disc_tutorial.Rmd) - Error: processing vignette 'LongDat_disc_tutorial.Rmd' failed with diagnostics: - object is not coercible to a unit - --- failed re-building ‘LongDat_disc_tutorial.Rmd’ - - SUMMARY: processing the following files failed: - ‘LongDat_cont_tutorial.Rmd’ ‘LongDat_disc_tutorial.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# longreadvqs - -
- -* Version: 0.1.3 -* GitHub: https://github.com/NakarinP/longreadvqs -* Source code: https://github.com/cran/longreadvqs -* Date/Publication: 2024-08-26 19:30:05 UTC -* Number of recursive dependencies: 131 - -Run `revdepcheck::cloud_details(, "longreadvqs")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘longreadvqs-Ex.R’ failed - The error most likely occurred in: - - > ### Name: vqscompare - > ### Title: Comparing viral quasispecies profile and operational taxonomic - > ### unit (OTU) classified by k-means clustering between samples - > ### Aliases: vqscompare - > - > ### ** Examples - > - ... - 13. │ └─ggplot2:::`+.gg`(...) - 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 15. │ ├─ggplot2::ggplot_add(object, p, objectname) - 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 18. └─base::.handleSimpleError(...) - 19. └─purrr (local) h(simpleError(msg, call)) - 20. └─cli::cli_abort(...) - 21. └─rlang::abort(...) - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘longreadvqs-vignette.Rmd’ - ... - - > comp <- vqscompare(samplelist = list(s1, s2, s3, s4_fix), - + lab_name = "Sample", kmeans.n = 10) - - When sourcing ‘longreadvqs-vignette.R’: - Error: ℹ In index: 1. - ℹ With name: Dim.2. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - Execution halted - - ‘longreadvqs-vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘longreadvqs-vignette.Rmd’ using rmarkdown - ``` - -# lpdensity - -
- -* Version: 2.4 -* GitHub: NA -* Source code: https://github.com/cran/lpdensity -* Date/Publication: 2023-01-21 23:50:02 UTC -* Number of recursive dependencies: 28 - -Run `revdepcheck::cloud_details(, "lpdensity")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘lpdensity-Ex.R’ failed - The error most likely occurred in: - - > ### Name: lpdensity - > ### Title: Local Polynomial Density Estimation and Inference - > ### Aliases: lpdensity - > - > ### ** Examples - > - > # Generate a random sample - ... - 18 1.2878 0.6298 457 0.1749 0.0097 0.1222 , 0.2179 - 19 1.5768 0.6298 299 0.1221 0.0086 0.0863 , 0.1719 - ============================================================================= - > - > # Plot the estimates and confidence intervals - > plot(est1, legendTitle="My Plot", legendGroups=c("X")) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -# lspartition - -
- -* Version: 0.4 -* GitHub: NA -* Source code: https://github.com/cran/lspartition -* Date/Publication: 2019-08-08 22:40:06 UTC -* Number of recursive dependencies: 34 - -Run `revdepcheck::cloud_details(, "lspartition")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘lspartition-Ex.R’ failed - The error most likely occurred in: - - > ### Name: lsprobust.plot - > ### Title: Graphic Presentation of Results for 'lspartition' Package - > ### Aliases: lsprobust.plot - > - > ### ** Examples - > - > x <- runif(500) - > y <- sin(4*x)+rnorm(500) - > est <- lsprobust(y, x) - > lsprobust.plot(est) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -## In both - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - -# LSTbook - -
- -* Version: 0.5.0 -* GitHub: https://github.com/dtkaplan/LSTbook -* Source code: https://github.com/cran/LSTbook -* Date/Publication: 2024-02-23 19:20:15 UTC -* Number of recursive dependencies: 88 - -Run `revdepcheck::cloud_details(, "LSTbook")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - - [ FAIL 1 | WARN 1 | SKIP 4 | PASS 73 ] - Deleting unused snapshots: - • model_plot/four-facets.png - • pointplot/1-var-plot.png - • pointplot/bird-logistic-plot.png - • pointplot/color-and-facet-na.png - • pointplot/logistic-fun-plot.png - Error: Test failures - Execution halted - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘DAGs.Rmd’ using rmarkdown - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘DAGs.Rmd’ - ... - 3 -1.35 -11.9 - 4 0.429 0.171 - 5 0.622 5.85 - 6 2.35 16.5 - - > Wrong_way <- datasim_make(x = rnorm(n, mean = 0, sd = 2)) - - ... - - > model_plot(height_model) - - When sourcing ‘modeling.R’: - Error: argument is of length zero - Execution halted - - ‘DAGs.Rmd’ using ‘UTF-8’... failed - ‘LSTbook.Rmd’ using ‘UTF-8’... OK - ‘modeling.Rmd’ using ‘UTF-8’... failed - ``` - -* checking loading without being on the library search path ... WARNING - ``` - Error: package or namespace load failed for ‘LSTbook’: - .onLoad failed in loadNamespace() for 'LSTbook', details: - call: loadNamespace(name) - error: there is no package called ‘mosaicData’ - Execution halted - - It looks like this package has a loading problem when not on .libPaths: - see the messages for details. - ``` - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 20 marked UTF-8 strings - ``` - -# manydata - -
- -* Version: 0.9.3 -* GitHub: https://github.com/globalgov/manydata -* Source code: https://github.com/cran/manydata -* Date/Publication: 2024-05-06 19:00:02 UTC -* Number of recursive dependencies: 130 - -Run `revdepcheck::cloud_details(, "manydata")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(manydata) - manydata 0.9.3 - Please see manydata.ch for more information. - Type 'citation("manydata")' for citing this R package in publications. - > - > test_check("manydata") - ... - ── Failure ('test_compare.R:8:3'): plot for compare_categories returns the correct output format ── - Names of `db` ('data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout', 'labels') don't match 'data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout' - ── Failure ('test_compare.R:74:3'): compare_missing() and plot_missing() returns the correct output format ── - `pl` has length 11, not length 10. - ── Failure ('test_compare.R:76:3'): compare_missing() and plot_missing() returns the correct output format ── - Names of `pl` ('data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout', 'labels') don't match 'data', 'layers', 'scales', 'guides', 'mapping', 'theme', 'coordinates', 'facet', 'plot_env', 'layout' - - [ FAIL 4 | WARN 0 | SKIP 3 | PASS 121 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 3 marked UTF-8 strings - ``` - -# manymome - -
- -* Version: 0.2.2 -* GitHub: https://github.com/sfcheung/manymome -* Source code: https://github.com/cran/manymome -* Date/Publication: 2024-06-05 23:30:03 UTC -* Number of recursive dependencies: 158 - -Run `revdepcheck::cloud_details(, "manymome")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘manymome-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_effect_vs_w - > ### Title: Plot an Effect Against a Moderator - > ### Aliases: plot_effect_vs_w - > - > ### ** Examples - > - > - ... - + y = "y", - + m = "m", - + fit = fit_lm, - + sd_from_mean = seq(-2, 2, length.out = 10), - + boot_ci = TRUE, - + boot_out = boot_out_lm) - > p <- plot_effect_vs_w(out_lm) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_effect_vs_w ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# mapbayr - -
- -* Version: 0.10.0 -* GitHub: https://github.com/FelicienLL/mapbayr -* Source code: https://github.com/cran/mapbayr -* Date/Publication: 2023-07-17 08:20:02 UTC -* Number of recursive dependencies: 68 - -Run `revdepcheck::cloud_details(, "mapbayr")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mapbayr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: mapbayr_plot - > ### Title: Make mapbayr plot - > ### Aliases: mapbayr_plot - > - > ### ** Examples - > - > aug <- data.frame( - ... - > obs <- data.frame( - + ID = 1, time = c(6, 20), evid = 0, - + mdv = c(0,1), DV = c(0.5, 5), cmt = 2 - + ) - > - > mapbayr_plot(aug, obs) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -# MBNMAdose - -
- -* Version: 0.4.3 -* GitHub: NA -* Source code: https://github.com/cran/MBNMAdose -* Date/Publication: 2024-04-18 12:42:47 UTC -* Number of recursive dependencies: 118 - -Run `revdepcheck::cloud_details(, "MBNMAdose")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘outputs-4.Rmd’ - ... - - > plot(trip.emax) - - When sourcing ‘outputs-4.R’: - Error: Problem while setting up geom aesthetics. - ℹ Error occurred in the 1st layer. - Caused by error in `use_defaults()`: - ... - Execution halted - - ‘consistencychecking-3.Rmd’ using ‘UTF-8’... OK - ‘dataexploration-1.Rmd’ using ‘UTF-8’... OK - ‘mbnmadose-overview.Rmd’ using ‘UTF-8’... OK - ‘metaregression-6.Rmd’ using ‘UTF-8’... OK - ‘nma_in_mbnmadose.Rmd’ using ‘UTF-8’... OK - ‘outputs-4.Rmd’ using ‘UTF-8’... failed - ‘predictions-5.Rmd’ using ‘UTF-8’... OK - ‘runmbnmadose-2.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘consistencychecking-3.Rmd’ using rmarkdown - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 6 marked Latin-1 strings - ``` - -# MBNMAtime - -
- -* Version: 0.2.4 -* GitHub: NA -* Source code: https://github.com/cran/MBNMAtime -* Date/Publication: 2023-10-14 15:20:02 UTC -* Number of recursive dependencies: 106 - -Run `revdepcheck::cloud_details(, "MBNMAtime")` for more info - -
- -## Newly broken - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘consistencychecking-3.Rmd’ using rmarkdown - - Quitting from lines 141-146 [unnamed-chunk-8] (consistencychecking-3.Rmd) - Error: processing vignette 'consistencychecking-3.Rmd' failed with diagnostics: - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, - NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.2, 0, 2.2), NULL, TRUE), list("grey20", NULL, NULL, NULL, FALSE, "grey20", TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, - NULL, NULL, NULL, NULL, list("transparent", NA, NULL, NULL, FALSE), NULL, 2, NULL, NULL, list("transparent", NA, NULL, NULL, FALSE), 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list(), list(NULL, "grey20", NULL, NULL, TRUE), NULL, NULL, - NULL, list("grey92", NULL, NULL, NULL, FALSE, "grey92", TRUE), list("grey95", NULL, NULL, NULL, FALSE, "grey95", FALSE), list("grey95", 0.5, NULL, NULL, FALSE, "grey95", FALSE), NULL, NULL, NULL, NULL, FALSE, list("white", NA, NULL, NULL, FALSE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list( - NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("lightsteelblue1", "black", NULL, NULL, FALSE), NULL, NULL, "on", "inside", list(NULL, NULL, "black", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) - --- failed re-building ‘consistencychecking-3.Rmd’ - - --- re-building ‘dataexploration-1.Rmd’ using rmarkdown - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘consistencychecking-3.Rmd’ - ... - |-> direct | | 0.228| -0.213| 0.684| - |-> indirect | | -0.515| -0.891| -0.137| - | | | | | | - - > plot(nodesplit, plot.type = "forest") - - When sourcing ‘consistencychecking-3.R’: - ... - ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, - Execution halted - - ‘consistencychecking-3.Rmd’ using ‘UTF-8’... failed - ‘dataexploration-1.Rmd’ using ‘UTF-8’... failed - ‘mbnmatime-overview.Rmd’ using ‘UTF-8’... OK - ‘outputs-4.Rmd’ using ‘UTF-8’... failed - ‘predictions-5.Rmd’ using ‘UTF-8’... OK - ‘runmbnmatime-2.Rmd’ using ‘UTF-8’... OK - ``` - -# mecoturn - -
- -* Version: 0.3.0 -* GitHub: https://github.com/ChiLiubio/mecoturn -* Source code: https://github.com/cran/mecoturn -* Date/Publication: 2023-09-10 13:40:02 UTC -* Number of recursive dependencies: 109 - -Run `revdepcheck::cloud_details(, "mecoturn")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mecoturn-Ex.R’ failed - The error most likely occurred in: - - > ### Name: betaturn - > ### Title: Analyze the 'turnover' of microbial communities. - > ### Aliases: betaturn - > - > ### ** Examples - > - > - ... - 13. │ └─ggplot2:::`+.gg`(...) - 14. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 15. │ ├─ggplot2::ggplot_add(object, p, objectname) - 16. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 17. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 18. └─base::.handleSimpleError(...) - 19. └─purrr (local) h(simpleError(msg, call)) - 20. └─cli::cli_abort(...) - 21. └─rlang::abort(...) - Execution halted - ``` - -# MetaNet - -
- -* Version: 0.1.2 -* GitHub: https://github.com/Asa12138/MetaNet -* Source code: https://github.com/cran/MetaNet -* Date/Publication: 2024-03-25 20:40:07 UTC -* Number of recursive dependencies: 151 - -Run `revdepcheck::cloud_details(, "MetaNet")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘MetaNet-Ex.R’ failed - The error most likely occurred in: - - > ### Name: as.ggig - > ### Title: Transfer an igraph object to a ggig - > ### Aliases: as.ggig - > - > ### ** Examples - > - > as.ggig(co_net, coors = c_net_layout(co_net)) -> ggig - > plot(ggig) - Warning: Removed 446 rows containing missing values or values outside the scale range - (`geom_text()`). - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics - Execution halted - ``` - -# metR - -
- -* Version: 0.15.0 -* GitHub: https://github.com/eliocamp/metR -* Source code: https://github.com/cran/metR -* Date/Publication: 2024-02-09 00:40:02 UTC -* Number of recursive dependencies: 121 - -Run `revdepcheck::cloud_details(, "metR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘metR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_contour_tanaka - > ### Title: Illuminated contours - > ### Aliases: geom_contour_tanaka GeomContourTanaka - > ### Keywords: datasets - > - > ### ** Examples - > - ... - 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) - 20. │ └─self$draw_panel(...) - 21. │ └─metR (local) draw_panel(...) - 22. │ └─metR:::stopf(...) - 23. │ └─base::stop(e) - 24. └─rlang (local) ``(``) - 25. └─handlers[[1L]](cnd) - 26. └─cli::cli_abort(...) - 27. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(metR) - > # library(vdiffr) - > - > on_cran <- !isTRUE(as.logical(Sys.getenv("NOT_CRAN", "false"))) - > if (on_cran) data.table::setDTthreads(2) - > - ... - • vis-streamline/streamline-ywrapped.svg - • vis-text-contour/labels-text.svg - • vis-text-contour/minsize.svg - • vis-text-contour/placement-fraction.svg - • vis-text-contour/placement-minmax-horizontal.svg - • vis-text-contour/placement-minmax-vertical.svg - • vis-text-contour/placement-n.svg - • vis-text-contour/text-contour-norotate.svg - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Visualization-tools.Rmd’ - ... - - > ggplot(temperature[lev == 300], aes(lon, lat, z = air.z)) + - + geom_contour_fill() + geom_contour_tanaka() + scale_fill_divergent() - - When sourcing ‘Visualization-tools.R’: - Error: Problem while converting geom to grob. - ℹ Error occurred in the 2nd layer. - Caused by error: - ! geom_path: If you are using dotted or dashed lines, colour, size and linetype must be constant over the line. - Execution halted - - ‘Visualization-tools.Rmd’ using ‘UTF-8’... failed - ‘Working-with-data.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Visualization-tools.Rmd’ using knitr - - Quitting from lines 241-245 [unnamed-chunk-16] (Visualization-tools.Rmd) - Error: processing vignette 'Visualization-tools.Rmd' failed with diagnostics: - Problem while converting geom to grob. - ℹ Error occurred in the 2nd layer. - Caused by error: - ! geom_path: If you are using dotted or dashed lines, colour, size and linetype must be constant over the line. - ... - --- failed re-building ‘Visualization-tools.Rmd’ - - --- re-building ‘Working-with-data.Rmd’ using knitr - --- finished re-building ‘Working-with-data.Rmd’ - - SUMMARY: processing the following file failed: - ‘Visualization-tools.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.6Mb - sub-directories of 1Mb or more: - R 1.5Mb - data 2.0Mb - doc 1.8Mb - ``` - -# metrica - -
- -* Version: 2.1.0 -* GitHub: https://github.com/adriancorrendo/metrica -* Source code: https://github.com/cran/metrica -* Date/Publication: 2024-06-30 14:20:02 UTC -* Number of recursive dependencies: 92 - -Run `revdepcheck::cloud_details(, "metrica")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘regression_case.Rmd’ - ... - + mutate(Year = seq(2001, 2020, by = 1)) - - > wheat_time %>% ggplot2::ggplot(aes(x = Year)) + geom_point(aes(y = pred, - + fill = "Predicted", shape = "Predicted")) + geom_point(aes(y = obs, .... [TRUNCATED] - Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. - ℹ Please use `linewidth` instead. - - ... - Execution halted - - ‘Cheatsheet.Rmd’ using ‘UTF-8’... OK - ‘JOSS_publication.Rmd’ using ‘UTF-8’... OK - ‘Shinyapp.Rmd’ using ‘UTF-8’... OK - ‘apsim_open.Rmd’ using ‘UTF-8’... OK - ‘available_metrics_classification.Rmd’ using ‘UTF-8’... OK - ‘available_metrics_regression.Rmd’ using ‘UTF-8’... OK - ‘classification_case.Rmd’ using ‘UTF-8’... OK - ‘regression_case.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Cheatsheet.Rmd’ using rmarkdown - --- finished re-building ‘Cheatsheet.Rmd’ - - --- re-building ‘JOSS_publication.Rmd’ using rmarkdown - --- finished re-building ‘JOSS_publication.Rmd’ - - --- re-building ‘Shinyapp.Rmd’ using rmarkdown - --- finished re-building ‘Shinyapp.Rmd’ - - ... - --- re-building ‘apsim_open.Rmd’ using rmarkdown - --- finished re-building ‘apsim_open.Rmd’ - - --- re-building ‘available_metrics_classification.Rmd’ using rmarkdown - --- finished re-building ‘available_metrics_classification.Rmd’ - - --- re-building ‘available_metrics_regression.Rmd’ using rmarkdown - --- finished re-building ‘available_metrics_regression.Rmd’ - - --- re-building ‘classification_case.Rmd’ using rmarkdown - ``` - -# miceRanger - -
- -* Version: 1.5.0 -* GitHub: https://github.com/FarrellDay/miceRanger -* Source code: https://github.com/cran/miceRanger -* Date/Publication: 2021-09-06 15:20:02 UTC -* Number of recursive dependencies: 131 - -Run `revdepcheck::cloud_details(, "miceRanger")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘usingMiceRanger.Rmd’ - ... - > plotList <- lapply(plotVars, function(x) { - + missIndx <- is.na(ampIris[, get(x)]) - + impVsAmp <- data.table(originalData = iris[missIndx, x], .... [TRUNCATED] - - When sourcing ‘usingMiceRanger.R’: - Error: ℹ In index: 1. - ℹ With name: imputedData. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - Execution halted - - ‘diagnosticPlotting.Rmd’ using ‘UTF-8’... OK - ‘miceAlgorithm.Rmd’ using ‘UTF-8’... OK - ‘usingMiceRanger.Rmd’ using ‘UTF-8’... failed - ``` - -# microbial - -
- -* Version: 0.0.21 -* GitHub: NA -* Source code: https://github.com/cran/microbial -* Date/Publication: 2024-05-15 18:20:02 UTC -* Number of recursive dependencies: 179 - -Run `revdepcheck::cloud_details(, "microbial")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘microbial-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotalpha - > ### Title: plot alpha diversity - > ### Aliases: plotalpha - > - > ### ** Examples - > - > { - ... - 12. │ └─ggplot2:::`+.gg`(...) - 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. │ ├─ggplot2::ggplot_add(object, p, objectname) - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘microbial.Rmd’ - ... - > plotbar(phy, level = "Phylum") - - > plotalpha(physeq, group = "group") - - When sourcing ‘microbial.R’: - Error: ℹ In index: 1. - ℹ With name: val. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - Execution halted - - ‘microbial.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘microbial.Rmd’ using knitr - ``` - -# MicrobiomeSurv - -
- -* Version: 0.1.0 -* GitHub: https://github.com/N-T-Huyen/MicrobiomeSurv -* Source code: https://github.com/cran/MicrobiomeSurv -* Date/Publication: 2023-10-12 06:20:02 UTC -* Number of recursive dependencies: 158 - -Run `revdepcheck::cloud_details(, "MicrobiomeSurv")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘MicrobiomeSurv-Ex.R’ failed - The error most likely occurred in: - - > ### Name: EstimateHR - > ### Title: Classification, Survival Estimation and Visualization - > ### Aliases: EstimateHR - > - > ### ** Examples - > - > # Prepare data - ... - + Mean = TRUE) - > - > # Using the function - > est_HR_fam_shan_w3 = EstimateHR(Risk.Scores = lasso_fam_shan_w3$Risk.Scores, - + Data.Survival = lasso_fam_shan_w3$Data.Survival, - + Prognostic = prog_fam_shan_w3, Plots = TRUE, - + Mean = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: EstimateHR ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# migraph - -
- -* Version: 1.4.2 -* GitHub: https://github.com/stocnet/migraph -* Source code: https://github.com/cran/migraph -* Date/Publication: 2024-09-04 12:00:02 UTC -* Number of recursive dependencies: 99 - -Run `revdepcheck::cloud_details(, "migraph")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(manynet) - > library(migraph) - > - > test_check("migraph") - Starting 2 test processes - [ FAIL 2 | WARN 2 | SKIP 0 | PASS 46 ] - ... - `expected` is a character vector ('Statistic') - ── Failure ('test-model_tests.R:73:3'): qap plot works ───────────────────────── - qapplot$labels$x (`actual`) not identical to "Statistic" (`expected`). - - `actual` is NULL - `expected` is a character vector ('Statistic') - - [ FAIL 2 | WARN 2 | SKIP 0 | PASS 46 ] - Error: Test failures - Execution halted - ``` - -# mikropml - -
- -* Version: 1.6.1 -* GitHub: https://github.com/SchlossLab/mikropml -* Source code: https://github.com/cran/mikropml -* Date/Publication: 2023-08-21 15:10:05 UTC -* Number of recursive dependencies: 130 - -Run `revdepcheck::cloud_details(, "mikropml")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(mikropml) - > test_check("mikropml") - Fraction of data in the training set: 0.778 - Groups in the training set: A C D - Groups in the testing set: B - Fraction of data in the training set: 0.778 - ... - `names(expected)` is absent - ── Failure ('test-plot.R:140:3'): plot_mean_prc uses geom ribbon, line, and hline ── - ... %>% unlist() (`actual`) not equal to c(...) (`expected`). - - `names(actual)` is a character vector ('geom_ribbon1', 'geom_ribbon2', 'geom_ribbon3', 'geom_ribbon4', 'geom_line1', ...) - `names(expected)` is absent - - [ FAIL 2 | WARN 19 | SKIP 12 | PASS 314 ] - Error: Test failures - Execution halted - ``` - -# MiMIR - -
- -* Version: 1.5 -* GitHub: NA -* Source code: https://github.com/cran/MiMIR -* Date/Publication: 2024-02-01 08:50:02 UTC -* Number of recursive dependencies: 191 - -Run `revdepcheck::cloud_details(, "MiMIR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘MiMIR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: LOBOV_accuracies - > ### Title: LOBOV_accuracies - > ### Aliases: LOBOV_accuracies - > - > ### ** Examples - > - > require(pROC) - ... - 56 metabolites x 500 samples - | Pruning samples on5SD: - 56 metabolites x 500 samples - | Performing scaling ... DONE! - | Imputation ... DONE! - > p_avail<-colnames(b_p)[c(1:5)] - > LOBOV_accuracies(sur$surrogates, b_p, p_avail, MiMIR::acc_LOBOV) - Error in pm[[2]] : subscript out of bounds - Calls: LOBOV_accuracies -> -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -# miRetrieve - -
- -* Version: 1.3.4 -* GitHub: NA -* Source code: https://github.com/cran/miRetrieve -* Date/Publication: 2021-09-18 17:30:02 UTC -* Number of recursive dependencies: 126 - -Run `revdepcheck::cloud_details(, "miRetrieve")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(miRetrieve) - > - > test_check("miRetrieve") - [ FAIL 1 | WARN 11 | SKIP 0 | PASS 202 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - Backtrace: - ▆ - 1. └─miRetrieve::compare_mir_terms_scatter(df_merged, "miR-21", title = "Test_title") at test-comparemirterms.R:56:1 - 2. ├─plotly::ggplotly(plot) - 3. └─plotly:::ggplotly.ggplot(plot) - 4. └─plotly::gg2list(...) - - [ FAIL 1 | WARN 11 | SKIP 0 | PASS 202 ] - Error: Test failures - Execution halted - ``` - -# MiscMetabar - -
- -* Version: 0.9.3 -* GitHub: https://github.com/adrientaudiere/MiscMetabar -* Source code: https://github.com/cran/MiscMetabar -* Date/Publication: 2024-09-09 09:20:01 UTC -* Number of recursive dependencies: 420 - -Run `revdepcheck::cloud_details(, "MiscMetabar")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘MiscMetabar-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ggscatt_pq - > ### Title: Scatterplot with marginal distributions and statistical results - > ### against Hill diversity of phyloseq object - > ### Aliases: ggscatt_pq - > - > ### ** Examples - > - ... - + ) - + } - Loading required namespace: ggstatsplot - Taxa are now in columns. - Cleaning suppress 0 taxa and 0 samples. - Taxa are now in rows. - Joining with `by = join_by(Sample)` - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggscatt_pq ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(MiscMetabar) - Loading required package: phyloseq - Loading required package: ggplot2 - Loading required package: dada2 - Loading required package: Rcpp - Loading required package: dplyr - ... - 14. └─ggplot2:::add_ggplot(e1, e2, e2name) - 15. ├─ggplot2::ggplot_add(object, p, objectname) - 16. └─ggplot2:::ggplot_add.list(object, p, objectname) - 17. ├─ggplot2::ggplot_add(o, plot, object_name) - 18. └─ggplot2:::ggplot_add.Layer(o, plot, object_name) - 19. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 2 | WARN 0 | SKIP 76 | PASS 82 ] - Error: Test failures - Execution halted - ``` - -# misspi - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/misspi -* Date/Publication: 2023-10-17 09:50:02 UTC -* Number of recursive dependencies: 88 - -Run `revdepcheck::cloud_details(, "misspi")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘misspi-Ex.R’ failed - The error most likely occurred in: - - > ### Name: evaliq - > ### Title: Evaluate the Imputation Quality - > ### Aliases: evaliq - > - > ### ** Examples - > - > # A very quick example - ... - > # Default plot - > er.eval <- evaliq(x.true[na.idx], x.est[na.idx]) - `geom_smooth()` using formula = 'y ~ x' - > - > # Interactive plot - > er.eval <- evaliq(x.true[na.idx], x.est[na.idx], interactive = TRUE) - `geom_smooth()` using formula = 'y ~ x' - Error in pm[[2]] : subscript out of bounds - Calls: evaliq -> print -> ggplotly -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -# mixpoissonreg - -
- -* Version: 1.0.0 -* GitHub: https://github.com/vpnsctl/mixpoissonreg -* Source code: https://github.com/cran/mixpoissonreg -* Date/Publication: 2021-03-10 19:50:06 UTC -* Number of recursive dependencies: 139 - -Run `revdepcheck::cloud_details(, "mixpoissonreg")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mixpoissonreg-Ex.R’ failed - The error most likely occurred in: - - > ### Name: autoplot.mixpoissonreg - > ### Title: Autoplot Method for 'mixpoissonreg' Objects - > ### Aliases: autoplot.mixpoissonreg autoplot - > - > ### ** Examples - > - > daysabs_prog <- mixpoissonregML(daysabs ~ prog, data = Attendance) - > autoplot(daysabs_prog) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: autoplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(mixpoissonreg) - > - > test_check("mixpoissonreg") - - Negative Binomial Regression - Expectation-Maximization Algorithm - - ... - 2. └─mixpoissonreg:::autoplot.mixpoissonreg(fit_ml1, nrow = 2) - 3. └─ggplot2:::`+.gg`(...) - 4. └─ggplot2:::add_ggplot(e1, e2, e2name) - 5. ├─ggplot2::ggplot_add(object, p, objectname) - 6. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 7. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 1 | WARN 28 | SKIP 0 | PASS 35 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘influence-mixpoissonreg.Rmd’ - ... - 5 2.747544 -0.2460342 -0.006644830 -0.4252217 -1.269154 - 6 2.746786 -0.2443429 -0.006641383 -0.4268347 -1.269387 - - > plot(fit, which = c(3, 4, 5)) - - > autoplot(fit, which = c(3, 4, 5)) - - ... - - When sourcing ‘tutorial-mixpoissonreg.R’: - Error: argument is of length zero - Execution halted - - ‘influence-mixpoissonreg.Rmd’ using ‘UTF-8’... failed - ‘intervals-mixpoissonreg.Rmd’ using ‘UTF-8’... OK - ‘ml-mixpoissonreg.Rmd’ using ‘UTF-8’... failed - ‘tidyverse-mixpoissonreg.Rmd’ using ‘UTF-8’... failed - ‘tutorial-mixpoissonreg.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘influence-mixpoissonreg.Rmd’ using rmarkdown - ``` - -# mizer - -
- -* Version: 2.5.1 -* GitHub: https://github.com/sizespectrum/mizer -* Source code: https://github.com/cran/mizer -* Date/Publication: 2024-03-08 23:10:02 UTC -* Number of recursive dependencies: 110 - -Run `revdepcheck::cloud_details(, "mizer")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(mizer) - > - > test_check("mizer") - [ FAIL 10 | WARN 0 | SKIP 5 | PASS 1251 ] - - ... - • plots/plot-spectra.svg - • plots/plot-yield-by-gear.svg - • plots/plot-yield.svg - • plots/plotfishing-mortality.svg - • plots/plotfmort-truncated.svg - • plots/plotpredation-mortality.svg - • plots/plotpredmort-truncated.new.svg - • plots/plotpredmort-truncated.svg - Error: Test failures - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.1Mb - sub-directories of 1Mb or more: - doc 1.5Mb - help 1.8Mb - ``` - -# mlr3spatiotempcv - -
- -* Version: 2.3.1 -* GitHub: https://github.com/mlr-org/mlr3spatiotempcv -* Source code: https://github.com/cran/mlr3spatiotempcv -* Date/Publication: 2024-04-17 12:10:05 UTC -* Number of recursive dependencies: 167 - -Run `revdepcheck::cloud_details(, "mlr3spatiotempcv")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mlr3spatiotempcv-Ex.R’ failed - The error most likely occurred in: - - > ### Name: autoplot.ResamplingCustomCV - > ### Title: Visualization Functions for Non-Spatial CV Methods. - > ### Aliases: autoplot.ResamplingCustomCV plot.ResamplingCustomCV - > - > ### ** Examples - > - > if (mlr3misc::require_namespaces(c("sf", "patchwork"), quietly = TRUE)) { - ... - + - + autoplot(resampling, task) + - + ggplot2::scale_x_continuous(breaks = seq(-79.085, -79.055, 0.01)) - + autoplot(resampling, task, fold_id = 1) - + autoplot(resampling, task, fold_id = c(1, 2)) * - + ggplot2::scale_x_continuous(breaks = seq(-79.085, -79.055, 0.01)) - + } - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘spatiotemp-viz.Rmd’ - ... - - > knitr::opts_chunk$set(collapse = TRUE, comment = "#>") - - > knitr::include_graphics("../man/figures/sptcv_cstf_multiplot.png") - - When sourcing ‘spatiotemp-viz.R’: - Error: Cannot find the file(s): "../man/figures/sptcv_cstf_multiplot.png" - Execution halted - - ‘mlr3spatiotempcv.Rmd’ using ‘UTF-8’... OK - ‘spatiotemp-viz.Rmd’ using ‘UTF-8’... failed - ``` - -* checking installed package size ... NOTE - ``` - installed size is 5.9Mb - sub-directories of 1Mb or more: - data 3.5Mb - ``` - -# mlr3viz - -
- -* Version: 0.9.0 -* GitHub: https://github.com/mlr-org/mlr3viz -* Source code: https://github.com/cran/mlr3viz -* Date/Publication: 2024-07-01 12:30:02 UTC -* Number of recursive dependencies: 142 - -Run `revdepcheck::cloud_details(, "mlr3viz")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mlr3viz-Ex.R’ failed - The error most likely occurred in: - - > ### Name: autoplot.OptimInstanceBatchSingleCrit - > ### Title: Plots for Optimization Instances - > ### Aliases: autoplot.OptimInstanceBatchSingleCrit - > - > ### ** Examples - > - > if (requireNamespace("mlr3") && requireNamespace("bbotk") && requireNamespace("patchwork")) { - ... - INFO [09:22:56.650] [bbotk] 5.884797 2.2371095 -32.51896 - INFO [09:22:56.650] [bbotk] -7.841127 -0.8872557 -91.31148 - INFO [09:22:56.668] [bbotk] Finished optimizing after 20 evaluation(s) - INFO [09:22:56.669] [bbotk] Result: - INFO [09:22:56.670] [bbotk] x1 x2 x_domain y - INFO [09:22:56.670] [bbotk] - INFO [09:22:56.670] [bbotk] 2.582281 -2.940254 9.657379 - Error in identicalUnits(x) : object is not a unit - Calls: print ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > if (requireNamespace("testthat", quietly = TRUE)) { - + library("testthat") - + library("mlr3viz") - + test_check("mlr3viz") - + } - Starting 2 test processes - [ FAIL 4 | WARN 1 | SKIP 24 | PASS 84 ] - ... - • TuningInstanceSingleCrit/tisc-surface-grid-50.svg - • TuningInstanceSingleCrit/tisc-surface-regr-lm.svg - • TuningInstanceSingleCrit/tisc-surface.svg - • plot_learner_prediction/learner-prediction-1d-se.svg - • plot_learner_prediction/learner-prediction-binary-prob.svg - • plot_learner_prediction/learner-prediction-binary-response.svg - • plot_learner_prediction/learner-prediction-categorical.svg - • plot_learner_prediction/learner-prediction-prob.svg - Error: Test failures - Execution halted - ``` - -# modeltime.resample - -
- -* Version: 0.2.3 -* GitHub: https://github.com/business-science/modeltime.resample -* Source code: https://github.com/cran/modeltime.resample -* Date/Publication: 2023-04-12 15:50:02 UTC -* Number of recursive dependencies: 227 - -Run `revdepcheck::cloud_details(, "modeltime.resample")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > - > # Machine Learning - > library(tidymodels) - ── Attaching packages ────────────────────────────────────── tidymodels 1.2.0 ── - ✔ broom 1.0.6 ✔ recipes 1.1.0 - ✔ dials 1.3.0 ✔ rsample 1.2.1 - ... - ▆ - 1. ├─m750_models_resample %>% ... at test-modeltime_fit_resamples.R:116:5 - 2. └─modeltime.resample::plot_modeltime_resamples(., .interactive = TRUE) - 3. ├─plotly::ggplotly(g) - 4. └─plotly:::ggplotly.ggplot(g) - 5. └─plotly::gg2list(...) - - [ FAIL 1 | WARN 4 | SKIP 0 | PASS 16 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘crayon’ ‘dials’ ‘glue’ ‘parsnip’ - All declared Imports should be used. - ``` - -# moreparty - -
- -* Version: 0.4 -* GitHub: NA -* Source code: https://github.com/cran/moreparty -* Date/Publication: 2023-11-22 14:30:02 UTC -* Number of recursive dependencies: 165 - -Run `revdepcheck::cloud_details(, "moreparty")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Titanic_example.Rmd’ - ... - 24 Age 57 0.3187270 - 25 Embarked Cherbourg 0.4603041 - [ reached 'max' / getOption("max.print") -- omitted 2 rows ] - - > ggForestEffects(pdep, vline = mean(pred_foret), xlab = "Probability of survival") + - + xlim(c(0, 1)) - - When sourcing ‘Titanic_example.R’: - Error: `x` must be a vector, not a object. - Execution halted - - ‘Titanic_example.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Titanic_example.Rmd’ using rmarkdown - ``` - -# mosaicCalc - -
- -* Version: 0.6.4 -* GitHub: https://github.com/ProjectMOSAIC/mosaicCalc -* Source code: https://github.com/cran/mosaicCalc -* Date/Publication: 2024-07-26 15:50:02 UTC -* Number of recursive dependencies: 128 - -Run `revdepcheck::cloud_details(, "mosaicCalc")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mosaicCalc-Ex.R’ failed - The error most likely occurred in: - - > ### Name: box_set - > ### Title: Evenly spaced samples across a one- or two-dim domain - > ### Aliases: box_set - > - > ### ** Examples - > - > box_set(x*y ~ x & y, domain(x=0:1, y=0:1), n = 4) - ... - [1] 0 - > # a polygon - > poly <- tibble(x = c(1:9, 8:1), y = c(1, 2*(5:3), 2, -1, 17, 9, 8, 2:9)) - > boxes <- box_set(1 ~ x & y, poly, dx = 1) - > gf_polygon(y ~ x, data = poly, color="blue", fill="blue", alpha=0.2) %>% - + gf_rect((y - dy/3) + (y + dy/3) ~ (x - dx/3) + (x + dx/3), - + data = boxes) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Calculus_with_R.Rmd’ - ... - - > soln <- integrateODE(SIR, bounds(t = 0:20)) - Solution containing functions S(t), I(t). - - > traj_plot(S(t) ~ I(t), soln, color = "blue") %>% vectorfield_plot(SIR, - + bounds(I = 0:75, S = 60:400), transform = I, npts = 20, alpha = 0.6) - - ... - - > gf_point(flipper_length_mm ~ body_mass_g, data = palmerpenguins::penguins) - - When sourcing ‘quick-reference.R’: - Error: argument is of length zero - Execution halted - - ‘Calculus_with_R.Rmd’ using ‘UTF-8’... failed - ‘Instructors.Rmd’ using ‘UTF-8’... failed - ‘quick-reference.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Calculus_with_R.Rmd’ using rmarkdown - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 56 marked UTF-8 strings - ``` - -# mosaicData - -
- -* Version: 0.20.4 -* GitHub: https://github.com/ProjectMOSAIC/mosaicData -* Source code: https://github.com/cran/mosaicData -* Date/Publication: 2023-11-05 05:50:02 UTC -* Number of recursive dependencies: 56 - -Run `revdepcheck::cloud_details(, "mosaicData")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘mosaicData-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Birthdays - > ### Title: US Births in 1969 - 1988 - > ### Aliases: Birthdays - > - > ### ** Examples - > - > data(Birthdays) - ... - IQR, binom.test, cor, cor.test, cov, fivenum, median, prop.test, - quantile, sd, t.test, var - - The following objects are masked from ‘package:base’: - - max, mean, min, prod, range, sample, sum - - Error in if (new_name %in% existing) { : argument is of length zero - Calls: gf_point ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 7 marked UTF-8 strings - ``` - -# mosaicModel - -
- -* Version: 0.3.0 -* GitHub: NA -* Source code: https://github.com/cran/mosaicModel -* Date/Publication: 2017-09-22 16:21:41 UTC -* Number of recursive dependencies: 157 - -Run `revdepcheck::cloud_details(, "mosaicModel")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Basics.Rmd’ - ... - + out.width = "45%") - - > mtcars <- mtcars %>% mutate(transmission = ifelse(am, - + "manual", "automatic")) - - > gf_point(mpg ~ hp, color = ~transmission, data = mtcars) - - When sourcing ‘Basics.R’: - Error: argument is of length zero - Execution halted - - ‘Basics.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Basics.Rmd’ using rmarkdown - - Quitting from lines 66-68 [fuel_intro] (Basics.Rmd) - Error: processing vignette 'Basics.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Basics.Rmd’ - - SUMMARY: processing the following file failed: - ‘Basics.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘MASS’ ‘caret’ ‘ggformula’ ‘knitr’ ‘testthat’ ‘tidyverse’ - All declared Imports should be used. - ``` - -# mppR - -
- -* Version: 1.5.0 -* GitHub: https://github.com/vincentgarin/mppR -* Source code: https://github.com/cran/mppR -* Date/Publication: 2024-02-22 17:20:02 UTC -* Number of recursive dependencies: 69 - -Run `revdepcheck::cloud_details(, "mppR")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘MPP_ME_QTL_detect.Rmd’ - ... - F2 -2.9970560 0.18508863 -0.00806081 0.1266095 - F283 10.2417600 1.78749082 -0.04223259 2.0862106 - DK105 0.1792433 0.03829626 NA NA - - > plot_QxEC(Qeff, EC = EC, env_id = c("CIAM", "TUM", - + "INRA", "KWS"), QTL = 2, EC_id = "cum rain", trait_id = "DMY") - - When sourcing ‘MPP_ME_QTL_detect.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘MPP_ME_QTL_detect.Rmd’ using ‘UTF-8’... failed - ‘mppR_gen_vignette.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘MPP_ME_QTL_detect.Rmd’ using rmarkdown + installed size is 10.3Mb + sub-directories of 1Mb or more: + doc 9.7Mb ``` -# MSCMT +# inventorize
-* Version: 1.4.0 +* Version: 1.1.1 * GitHub: NA -* Source code: https://github.com/cran/MSCMT -* Date/Publication: 2024-03-19 10:20:02 UTC -* Number of recursive dependencies: 82 - -Run `revdepcheck::cloud_details(, "MSCMT")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘WorkingWithMSCMT.Rmd’ - ... - (Predictor weights V are standardized by sum(V)=1) - - - > library(ggplot2) - - > ggplot(res, type = "comparison") - - When sourcing ‘WorkingWithMSCMT.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘CheckingSynth.Rmd’ using ‘UTF-8’... OK - ‘UsingTimeSeries.Rmd’ using ‘UTF-8’... OK - ‘WorkingWithMSCMT.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘CheckingSynth.Rmd’ using rmarkdown - --- finished re-building ‘CheckingSynth.Rmd’ - - --- re-building ‘UsingTimeSeries.Rmd’ using rmarkdown - --- finished re-building ‘UsingTimeSeries.Rmd’ - - --- re-building ‘WorkingWithMSCMT.Rmd’ using rmarkdown - - ... - Quitting from lines 156-158 [unnamed-chunk-8] (WorkingWithMSCMT.Rmd) - Error: processing vignette 'WorkingWithMSCMT.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘WorkingWithMSCMT.Rmd’ - - SUMMARY: processing the following file failed: - ‘WorkingWithMSCMT.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# mstate - -
- -* Version: 0.3.3 -* GitHub: https://github.com/hputter/mstate -* Source code: https://github.com/cran/mstate -* Date/Publication: 2024-07-11 21:30:06 UTC -* Number of recursive dependencies: 114 +* Source code: https://github.com/cran/inventorize +* Date/Publication: 2022-05-31 22:20:09 UTC +* Number of recursive dependencies: 71 -Run `revdepcheck::cloud_details(, "mstate")` for more info +Run `revdepcheck::cloud_details(, "inventorize")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘mstate-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot.Cuminc - > ### Title: Plot method for Cuminc objects - > ### Aliases: plot.Cuminc - > - > ### ** Examples - > - > library(ggplot2) - ... - 4. └─ggplot2:::ggplot_build.ggplot(x) - 5. └─layout$setup(data, plot$data, plot$plot_env) - 6. └─ggplot2 (local) setup(..., self = self) - 7. └─self$coord$setup_params(data) - 8. └─ggplot2 (local) setup_params(..., self = self) - 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 10. └─ggplot2:::check_logical(expand) - 11. └─ggplot2:::stop_input_type(...) - 12. └─rlang::abort(message, ..., call = call, arg = arg) - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘visuals_demo.Rmd’ - ... - - > msf.WW <- msfit(object = c1, newdata = WW, trans = tmat) - - > plot(msf.WW) - - > plot(msf.WW, use.ggplot = TRUE) - - When sourcing ‘visuals_demo.R’: - Error: `expand` must be a logical vector, not the number 0. - Execution halted - - ‘visuals_demo.Rmd’ using ‘UTF-8’... failed - ‘Tutorial.Rnw’ using ‘UTF-8’... OK - ``` - -## In both - -* checking re-building of vignette outputs ... NOTE +* checking whether package ‘inventorize’ can be installed ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘visuals_demo.Rmd’ using rmarkdown + Installation failed. + See ‘/tmp/workdir/inventorize/new/inventorize.Rcheck/00install.out’ for details. ``` -# mtb - -
- -* Version: 0.1.8 -* GitHub: https://github.com/yh202109/mtb -* Source code: https://github.com/cran/mtb -* Date/Publication: 2022-10-20 17:22:35 UTC -* Number of recursive dependencies: 64 +## Installation -Run `revdepcheck::cloud_details(, "mtb")` for more info +### Devel -
+``` +* installing *source* package ‘inventorize’ ... +** package ‘inventorize’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** byte-compile and prepare package for lazy loading +Error in pm[[2]] : subscript out of bounds +Error: unable to load R code in package ‘inventorize’ +Execution halted +ERROR: lazy loading failed for package ‘inventorize’ +* removing ‘/tmp/workdir/inventorize/new/inventorize.Rcheck/inventorize’ -## Newly broken -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(mtb) - > - > test_check("mtb") - [ FAIL 2 | WARN 13 | SKIP 0 | PASS 56 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - - "yend" [6] - - "xmin" [7] - - "xmax" [8] - - "ymin" [9] - - "ymax" [10] - ... ... ... and 3 more ... - - [ FAIL 2 | WARN 13 | SKIP 0 | PASS 56 ] - Error: Test failures - Execution halted - ``` +``` +### CRAN -# mulgar +``` +* installing *source* package ‘inventorize’ ... +** package ‘inventorize’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** byte-compile and prepare package for lazy loading +Warning in qgamma(service_level, alpha, beta) : NaNs produced +** help +*** installing help indices +** building package indices +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (inventorize) -
-* Version: 1.0.2 -* GitHub: https://github.com/dicook/mulgar -* Source code: https://github.com/cran/mulgar -* Date/Publication: 2023-08-25 22:00:02 UTC -* Number of recursive dependencies: 43 +``` +# IPV -Run `revdepcheck::cloud_details(, "mulgar")` for more info +
+ +* Version: 1.0.0 +* GitHub: https://github.com/NilsPetras/IPV +* Source code: https://github.com/cran/IPV +* Date/Publication: 2022-09-30 15:00:02 UTC +* Number of recursive dependencies: 82 + +Run `revdepcheck::cloud_details(, "IPV")` for more info
@@ -17617,49 +9922,74 @@ Run `revdepcheck::cloud_details(, "mulgar")` for more info * checking examples ... ERROR ``` - Running examples in ‘mulgar-Ex.R’ failed + Running examples in ‘IPV-Ex.R’ failed The error most likely occurred in: - > ### Name: ggmcbic - > ### Title: Produces an mclust summary plot with ggplot - > ### Aliases: ggmcbic + > ### Name: nested_chart + > ### Title: Nested Chart + > ### Aliases: nested_chart > > ### ** Examples > - > require(mclust) + > # as simple as that ... - Type 'citation("mclust")' for citing this R package in publications. - > data(clusters) - > clusters_BIC <- mclustBIC(clusters[,1:5], G=2:6) - > ggmcbic(clusters_BIC) - Warning: Removed 5 rows containing missing values or values outside the scale range - (`geom_line()`). - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics + 6. └─ggplot2:::ggplot_add.Layer(object, p, objectname) + 7. └─ggplot2:::new_layer_names(object, names(plot$layers)) + 8. └─vctrs::vec_as_names(names, repair = "check_unique") + 9. └─vctrs (local) ``() + 10. └─vctrs:::validate_unique(names = names, arg = arg, call = call) + 11. └─vctrs:::stop_names_cannot_be_empty(names, call = call) + 12. └─vctrs:::stop_names(...) + 13. └─vctrs:::stop_vctrs(...) + 14. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) + Execution halted + ``` + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘ipv-vignette.Rmd’ + ... + Facet circle radius set to 0.211 based on the data. + cor_spacing set to 0.193 based on the data. + Relative scaling set to 3.78 based on the data. + Axis tick set to 0.1 based on the data. + dist_construct_label set to 0.5 based on the data. + + When sourcing ‘ipv-vignette.R’: + Error: Names can't be empty. + ✖ Empty name found at location 4. Execution halted + + ‘ipv-vignette.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘ipv-vignette.Rmd’ using rmarkdown ``` ## In both * checking installed package size ... NOTE ``` - installed size is 8.8Mb + installed size is 8.0Mb sub-directories of 1Mb or more: - data 8.5Mb + data 7.0Mb ``` -# MultivariateAnalysis +# IRon
-* Version: 0.5.0 -* GitHub: NA -* Source code: https://github.com/cran/MultivariateAnalysis -* Date/Publication: 2024-04-08 18:40:03 UTC -* Number of recursive dependencies: 128 +* Version: 0.1.4 +* GitHub: https://github.com/nunompmoniz/IRon +* Source code: https://github.com/cran/IRon +* Date/Publication: 2023-01-20 07:20:06 UTC +* Number of recursive dependencies: 84 -Run `revdepcheck::cloud_details(, "MultivariateAnalysis")` for more info +Run `revdepcheck::cloud_details(, "IRon")` for more info
@@ -17667,202 +9997,201 @@ Run `revdepcheck::cloud_details(, "MultivariateAnalysis")` for more info * checking examples ... ERROR ``` - Running examples in ‘MultivariateAnalysis-Ex.R’ failed + Running examples in ‘IRon-Ex.R’ failed The error most likely occurred in: - > ### Name: ContribuicaoRelativa - > ### Title: Contribuicao das variaveis independentes para o agrupamento - > ### Aliases: ContribuicaoRelativa + > ### Name: sera + > ### Title: Squared Error-Relevance Area (SERA) + > ### Aliases: sera > > ### ** Examples > - > + > library(IRon) ... - 12. │ └─ggplot2:::`+.gg`(p, do.call(geom_line, option)) - 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. │ ├─ggplot2::ggplot_add(object, p, objectname) - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) + 16. │ └─self$stat$setup_params(data, self$stat_params) + 17. │ └─ggplot2 (local) setup_params(...) + 18. │ └─base::match.fun(method) + 19. │ └─base::get(as.character(FUN), mode = "function", envir = envir) + 20. └─base::.handleSimpleError(...) + 21. └─rlang (local) h(simpleError(msg, call)) + 22. └─handlers[[1L]](cnd) + 23. └─cli::cli_abort(...) + 24. └─rlang::abort(...) Execution halted ``` -# mxfda - -
- -* Version: 0.2.1 -* GitHub: https://github.com/julia-wrobel/mxfda -* Source code: https://github.com/cran/mxfda -* Date/Publication: 2024-05-08 11:00:02 UTC -* Number of recursive dependencies: 221 - -Run `revdepcheck::cloud_details(, "mxfda")` for more info - -
- -## Newly broken +## In both * checking installed package size ... NOTE ``` - installed size is 5.6Mb + installed size is 6.7Mb sub-directories of 1Mb or more: - data 4.0Mb + data 6.5Mb ``` -# neatmaps +# isoorbi
-* Version: 2.1.0 -* GitHub: https://github.com/PhilBoileau/neatmaps -* Source code: https://github.com/cran/neatmaps -* Date/Publication: 2019-05-12 19:10:03 UTC -* Number of recursive dependencies: 99 +* Version: 1.3.1 +* GitHub: https://github.com/isoverse/isoorbi +* Source code: https://github.com/cran/isoorbi +* Date/Publication: 2024-08-27 05:10:03 UTC +* Number of recursive dependencies: 122 -Run `revdepcheck::cloud_details(, "neatmaps")` for more info +Run `revdepcheck::cloud_details(, "isoorbi")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘neatmaps-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘dual_inlet.Rmd’ + ... + |20230518_05_USGS32_vs_USGS34 | 16| 7|reference |changeover | NA| 10695| 11020| 65.019| 66.994| + |20230518_05_USGS32_vs_USGS34 | 17| 7|reference |data | NA| 11025| 12335| 67.025| 74.985| - > ### Name: consClustResTable - > ### Title: Consensus Cluster Results in a Table - > ### Aliases: consClustResTable - > - > ### ** Examples - > - > # create the data frame using the network, node and edge attributes - ... - > df <- netsDataFrame(network_attr_df, - + node_attr_df, - + edge_df) - > - > # run the neatmap code on df - > neat_res <- neatmap(df, scale_df = "ecdf", max_k = 3, reps = 100, - + xlab = "vars", ylab = "nets", xlab_cex = 1, ylab_cex = 1) - Error in pm[[2]] : subscript out of bounds - Calls: neatmap ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list + > orbi_plot_raw_data(df_w_blocks, isotopocules = "15N", + + y = ions.incremental) + + When sourcing ‘dual_inlet.R’: + Error: Names can't be empty. + ✖ Empty name found at location 1. Execution halted + + ‘dual_inlet.Rmd’ using ‘UTF-8’... failed + ‘flow_injection.Rmd’ using ‘UTF-8’... OK + ‘isoxl_demo.Rmd’ using ‘UTF-8’... OK + ‘quick_start.Rmd’ using ‘UTF-8’... OK + ‘shot_noise.Rmd’ using ‘UTF-8’... OK + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘dual_inlet.Rmd’ using rmarkdown ``` ## In both * checking installed package size ... NOTE ``` - installed size is 6.3Mb + installed size is 6.2Mb + sub-directories of 1Mb or more: + doc 2.0Mb + extdata 3.3Mb ``` -# neatStats +# jenga
-* Version: 1.13.3 -* GitHub: https://github.com/gasparl/neatstats -* Source code: https://github.com/cran/neatStats -* Date/Publication: 2022-12-07 20:50:02 UTC -* Number of recursive dependencies: 129 +* Version: 1.3.0 +* GitHub: NA +* Source code: https://github.com/cran/jenga +* Date/Publication: 2022-08-18 08:10:02 UTC +* Number of recursive dependencies: 111 -Run `revdepcheck::cloud_details(, "neatStats")` for more info +Run `revdepcheck::cloud_details(, "jenga")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘jenga’ can be installed ... WARNING ``` - Running examples in ‘neatStats-Ex.R’ failed - The error most likely occurred in: - - > ### Name: peek_neat - > ### Title: Cursory Summaries and Plots per Group - > ### Aliases: peek_neat - > - > ### ** Examples - > - > - ... - 11. │ └─ggplot2:::`+.gg`(...) - 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. │ ├─ggplot2::ggplot_add(object, p, objectname) - 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 16. └─base::.handleSimpleError(...) - 17. └─purrr (local) h(simpleError(msg, call)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘jenga’ + See ‘/tmp/workdir/jenga/new/jenga.Rcheck/00install.out’ for details. ``` -# netcom +# karel
-* Version: 2.1.7 -* GitHub: https://github.com/langendorfr/netcom -* Source code: https://github.com/cran/netcom -* Date/Publication: 2024-06-04 17:50:05 UTC -* Number of recursive dependencies: 103 +* Version: 0.1.1 +* GitHub: https://github.com/mpru/karel +* Source code: https://github.com/cran/karel +* Date/Publication: 2022-03-26 21:50:02 UTC +* Number of recursive dependencies: 89 -Run `revdepcheck::cloud_details(, "netcom")` for more info +Run `revdepcheck::cloud_details(, "karel")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘tutorial.Rmd’ - ... - > networks <- c(networks_undisturbed, networks_disturbed) - - > comparisons <- netcom::compare(networks, method = "align") - - > stats::prcomp(comparisons) %>% ggplot2::autoplot(data = tibble(Kind = c(rep("Undisturbed", - + num_networks), rep("Disturbed", num_networks))), c .... [TRUNCATED] + Running examples in ‘karel-Ex.R’ failed + The error most likely occurred in: - When sourcing ‘tutorial.R’: - Error: argument is of length zero + > ### Name: acciones + > ### Title: Acciones que Karel puede realizar + > ### Aliases: acciones avanzar girar_izquierda poner_coso juntar_coso + > ### girar_derecha darse_vuelta + > + > ### ** Examples + > + ... + 1. └─karel::ejecutar_acciones() + 2. ├─base::suppressWarnings(...) + 3. │ └─base::withCallingHandlers(...) + 4. ├─gganimate::animate(...) + 5. └─gganimate:::animate.gganim(...) + 6. └─args$renderer(frames_vars$frame_source, args$fps) + 7. └─gganimate:::png_dim(frames[1]) + 8. └─cli::cli_abort("Provided file ({file}) does not exist") + 9. └─rlang::abort(...) Execution halted - - ‘tutorial.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +* checking tests ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘tutorial.Rmd’ using rmarkdown + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(karel) + > + > test_check("karel") + [ FAIL 2 | WARN 2 | SKIP 0 | PASS 78 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + 5. ├─gganimate::animate(...) + 6. └─gganimate:::animate.gganim(...) + 7. └─args$renderer(frames_vars$frame_source, args$fps) + 8. └─gganimate:::png_dim(frames[1]) + 9. └─cli::cli_abort("Provided file ({file}) does not exist") + 10. └─rlang::abort(...) + + [ FAIL 2 | WARN 2 | SKIP 0 | PASS 78 ] + Error: Test failures + Execution halted ``` ## In both * checking dependencies in R code ... NOTE ``` - Namespaces in Imports field not imported from: - ‘ggfortify’ ‘ggplot2’ ‘ggraph’ ‘reshape2’ + Namespace in Imports field not imported from: ‘gifski’ All declared Imports should be used. ``` -# NetFACS +# kDGLM
-* Version: 0.5.0 -* GitHub: NA -* Source code: https://github.com/cran/NetFACS -* Date/Publication: 2022-12-06 17:32:35 UTC -* Number of recursive dependencies: 101 +* Version: 1.2.0 +* GitHub: https://github.com/silvaneojunior/kDGLM +* Source code: https://github.com/cran/kDGLM +* Date/Publication: 2024-05-25 09:50:03 UTC +* Number of recursive dependencies: 136 -Run `revdepcheck::cloud_details(, "NetFACS")` for more info +Run `revdepcheck::cloud_details(, "kDGLM")` for more info
@@ -17870,110 +10199,96 @@ Run `revdepcheck::cloud_details(, "NetFACS")` for more info * checking examples ... ERROR ``` - Running examples in ‘NetFACS-Ex.R’ failed + Running examples in ‘kDGLM-Ex.R’ failed The error most likely occurred in: - > ### Name: network_conditional - > ### Title: Create a network based on conditional probabilities of dyads of - > ### elements - > ### Aliases: network_conditional + > ### Name: forecast.fitted_dlm + > ### Title: Auxiliary function for forecasting + > ### Aliases: forecast.fitted_dlm > > ### ** Examples > + > ... - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Error in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - invalid font type - Calls: ... drawDetails -> drawDetails.text -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘netfacs_tutorial.Rmd’ - ... - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - font family 'Arial Narrow' not found in PostScript font database - - When sourcing ‘netfacs_tutorial.R’: - Error: invalid font type + > forecast(fitted.data, 24, + + chickenPox = list(Total = rep(175, 24)), # Optional + + Vaccine.1.Covariate = rep(TRUE, 24), + + Vaccine.2.Covariate = rep(TRUE, 24) + + ) + Scale for y is already present. + Adding another scale for y, which will replace the existing scale. + Error in pm[[2]] : subscript out of bounds + Calls: forecast ... lapply -> -> ggplotly.ggplot -> gg2list Execution halted - - ‘netfacs_tutorial.Rmd’ using ‘UTF-8’... failed ``` -# neuroUp +# knfi
-* Version: 0.3.1 -* GitHub: https://github.com/eduardklap/neuroUp -* Source code: https://github.com/cran/neuroUp -* Date/Publication: 2024-08-28 08:20:05 UTC -* Number of recursive dependencies: 82 +* Version: 1.0.1.9 +* GitHub: https://github.com/SYOUNG9836/knfi +* Source code: https://github.com/cran/knfi +* Date/Publication: 2024-12-03 07:20:05 UTC +* Number of recursive dependencies: 148 -Run `revdepcheck::cloud_details(, "neuroUp")` for more info +Run `revdepcheck::cloud_details(, "knfi")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘knfi’ can be installed ... WARNING ``` - Running examples in ‘neuroUp-Ex.R’ failed - The error most likely occurred in: - - > ### Name: estim_corr - > ### Title: Estimate correlations - > ### Aliases: estim_corr - > - > ### ** Examples - > - > data_gambling <- gambling - ... - 8 100 -0.0787 -0.271 0.120 2 NA - 9 140 -0.0555 -0.219 0.111 2 NA - 10 221 -0.0405 -0.172 0.0920 2 NA - # ℹ 45 more rows - - $fig_corr - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘knfi’ + See ‘/tmp/workdir/knfi/new/knfi.Rcheck/00install.out’ for details. ``` +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 42740 marked UTF-8 strings + ``` + +# lans2r + +
+ +* Version: 1.2.0 +* GitHub: https://github.com/KopfLab/lans2r +* Source code: https://github.com/cran/lans2r +* Date/Publication: 2023-02-19 07:20:02 UTC +* Number of recursive dependencies: 85 + +Run `revdepcheck::cloud_details(, "lans2r")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files + > library(testthat) + > library(dplyr) + + Attaching package: 'dplyr' + + The following object is masked from 'package:testthat': + ... - 25. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) + 1. ├─testthat::expect_true(is(plot_maps(data), "ggplot")) at test-plotting.R:18:3 + 2. │ └─testthat::quasi_label(enquo(object), label, arg = "object") + 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) + 4. ├─methods::is(plot_maps(data), "ggplot") + 5. └─lans2r::plot_maps(data) + 6. └─ggplot2::scale_fill_continuous(low = color_scale[1], high = color_scale[2]) - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 10 ] - Deleting unused snapshots: - • estim_corr/create-fig-corr-nozero.svg - • estim_diff/create-fig-cohen-s-d.svg - • estim_diff/create-fig-d-nozero.svg - • estim_diff/create-fig-nozero.svg + [ FAIL 1 | WARN 2 | SKIP 0 | PASS 143 ] Error: Test failures Execution halted ``` @@ -17981,143 +10296,181 @@ Run `revdepcheck::cloud_details(, "neuroUp")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘neuroUp.Rmd’ + when running code in ‘lans2r.Rmd’ ... - > set.seed(1234) - - > feedback_estim <- estim_diff(feedback_data, c("mfg_learning", - + "mfg_application"), 20:271, 20, "Feedback middle frontal gyrus") + |analysis1 | 1| 7| 256| 0.0391172| 0.2738203| 10.014|12C |ion_count | 702| 26.49528| 0| + |analysis1 | 1| 8| 256| 0.0391172| 0.3129375| 10.014|12C |ion_count | 453| 21.28380| 0| + |analysis1 | 1| 9| 256| 0.0391172| 0.3520547| 10.014|12C |ion_count | 319| 17.86057| 0| + |analysis1 | 1| 10| 256| 0.0391172| 0.3911719| 10.014|12C |ion_count | 220| 14.83240| 0| - > feedback_estim$fig_diff + > plot_maps(maps) - When sourcing ‘neuroUp.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘lans2r.R’: + Error: unused arguments (low = "black", high = "white") Execution halted - ‘neuroUp.Rmd’ using ‘UTF-8’... failed + ‘lans2r-calculate.Rmd’ using ‘UTF-8’... OK + ‘lans2r-hmr.Rmd’ using ‘UTF-8’... OK + ‘lans2r.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘neuroUp.Rmd’ using rmarkdown - - Quitting from lines 92-93 [unnamed-chunk-5] (neuroUp.Rmd) - Error: processing vignette 'neuroUp.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘neuroUp.Rmd’ - - SUMMARY: processing the following file failed: - ‘neuroUp.Rmd’ - - Error: Vignette re-building failed. - Execution halted + --- re-building ‘lans2r-calculate.Rmd’ using rmarkdown ``` -# NHSRplotthedots +# latentcor
-* Version: 0.1.0 +* Version: 2.0.1 * GitHub: NA -* Source code: https://github.com/cran/NHSRplotthedots -* Date/Publication: 2021-11-03 20:20:10 UTC -* Number of recursive dependencies: 88 +* Source code: https://github.com/cran/latentcor +* Date/Publication: 2022-09-05 20:50:02 UTC +* Number of recursive dependencies: 142 -Run `revdepcheck::cloud_details(, "NHSRplotthedots")` for more info +Run `revdepcheck::cloud_details(, "latentcor")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(NHSRplotthedots) - > - > test_check("NHSRplotthedots") - [ FAIL 1 | WARN 733 | SKIP 3 | PASS 431 ] - + Running examples in ‘latentcor-Ex.R’ failed + The error most likely occurred in: + + > ### Name: latentcor + > ### Title: Estimate latent correlation for mixed types. + > ### Aliases: latentcor + > + > ### ** Examples + > + > # Example 1 - truncated data type, same type for all variables ... - - `actual$type` is absent - `expected$type` is a character vector ('type') - - `actual$text` is absent - `expected$text` is a character vector ('text') - - [ FAIL 1 | WARN 733 | SKIP 3 | PASS 431 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘NHSRdatasets’ ‘grid’ ‘utils’ - All declared Imports should be used. + > R_approx = latentcor(X = X, types = "tru", method = "approx")$R + > proc.time() - start_time + user system elapsed + 0.02 0.00 0.02 + > # Heatmap for latent correlation matrix. + > Heatmap_R_approx = latentcor(X = X, types = "tru", method = "approx", + + showplot = TRUE)$plotR + Error in pm[[2]] : subscript out of bounds + Calls: latentcor ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list + Execution halted ``` -# nichetools +# lcars
-* Version: 0.3.1 -* GitHub: https://github.com/benjaminhlina/nichetools -* Source code: https://github.com/cran/nichetools -* Date/Publication: 2024-09-06 17:00:02 UTC -* Number of recursive dependencies: 119 +* Version: 0.4.0 +* GitHub: https://github.com/leonawicz/lcars +* Source code: https://github.com/cran/lcars +* Date/Publication: 2024-09-11 22:52:42 UTC +* Number of recursive dependencies: 87 -Run `revdepcheck::cloud_details(, "nichetools")` for more info +Run `revdepcheck::cloud_details(, "lcars")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘lcars-Ex.R’ failed + The error most likely occurred in: + + > ### Name: lcars_border + > ### Title: LCARS border plot + > ### Aliases: lcars_border + > + > ### ** Examples + > + > lcars_border() + ... + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family '0.5' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family '0.5' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family '0.5' not found in PostScript font database + Error in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + invalid font type + Calls: lcars_border ... drawDetails -> drawDetails.text -> grid.Call.graphics + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘using-nichetools-with-the-package-SIBER.Rmd’ + when running code in ‘lcars.Rmd’ ... - + option = "A", alpha = 0.75) - - > ggplot() + stat_pointinterval(data = bays_95_overlap, - + aes(x = group_1, y = prop_overlap, point_fill = group_2), - + interval_colour = "gre ..." ... [TRUNCATED] + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family '0.5' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family '0.5' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family '0.5' not found in PostScript font database - When sourcing ‘using-nichetools-with-the-package-SIBER.R’: - Error: unused argument (theme = list(list("black", 0.681818181818182, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.681818181818182, 1, TRUE), list("", "plain", "black", 15, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.681818181818182, 0.681818181818182, 1, 1, "", 5.27189705271897, 2.04545454545455, 19, TRUE), 7.5, c(7.5, 7.5, 7.5, 7.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, - NULL, c(3.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, + When sourcing ‘lcars.R’: + Error: invalid font type Execution halted - ‘using-nichetools-with-the-package-SIBER.Rmd’ using ‘UTF-8’... failed - ‘using-nichetools-with-the-package-nicheROVER.Rmd’ using ‘UTF-8’... OK + ‘lcars.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +# legendry + +
+ +* Version: 0.2.0 +* GitHub: https://github.com/teunbrand/legendry +* Source code: https://github.com/cran/legendry +* Date/Publication: 2024-12-14 11:40:02 UTC +* Number of recursive dependencies: 70 + +Run `revdepcheck::cloud_details(, "legendry")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘using-nichetools-with-the-package-SIBER.Rmd’ using rmarkdown + Running examples in ‘legendry-Ex.R’ failed + The error most likely occurred in: + + > ### Name: key_group + > ### Title: Group keys + > ### Aliases: key_group key_group_split key_group_lut + > + > ### ** Examples + > + > # Example scale + > values <- c("group A:value 1", "group A:value 2", "group B:value 1") + > template <- scale_colour_discrete(limits = values) + > + > # Treat the 'group X' part as groups + > key <- key_group_split(sep = ":") + > key(template) + Error in self$palette(n) : attempt to apply non-function + Calls: key ... group_from_split_label -> -> extract_key -> -> map + Execution halted ``` -# NIMAA - -
+# lemon -* Version: 0.2.1 -* GitHub: https://github.com/jafarilab/NIMAA -* Source code: https://github.com/cran/NIMAA -* Date/Publication: 2022-04-11 14:12:45 UTC -* Number of recursive dependencies: 177 +
-Run `revdepcheck::cloud_details(, "NIMAA")` for more info +* Version: 0.5.0 +* GitHub: https://github.com/stefanedwards/lemon +* Source code: https://github.com/cran/lemon +* Date/Publication: 2024-11-10 18:20:02 UTC +* Number of recursive dependencies: 75 + +Run `revdepcheck::cloud_details(, "lemon")` for more info
@@ -18125,26 +10478,23 @@ Run `revdepcheck::cloud_details(, "NIMAA")` for more info * checking examples ... ERROR ``` - Running examples in ‘NIMAA-Ex.R’ failed + Running examples in ‘lemon-Ex.R’ failed The error most likely occurred in: - > ### Name: extractSubMatrix - > ### Title: Extract the non-missing submatrices from a given matrix. - > ### Aliases: extractSubMatrix + > ### Name: annotate_y_axis + > ### Title: Annotations on the axis + > ### Aliases: annotate_y_axis annotate_x_axis > > ### ** Examples > - > # load part of the beatAML data - ... - + row.vars = "inhibitor") - binmatnest.temperature - 13.21221 - Size of Square: 66 rows x 66 columns - Size of Rectangular_row: 6 rows x 105 columns - Size of Rectangular_col: 99 rows x 2 columns - Size of Rectangular_element_max: 59 rows x 79 columns - Error in pm[[2]] : subscript out of bounds - Calls: extractSubMatrix ... plotSubmatrix -> print -> -> ggplotly.ggplot -> gg2list + > library(ggplot2) + > + > p <- ggplot(mtcars, aes(mpg, hp, colour=disp)) + geom_point() + > + > l <- p + annotate_y_axis('mark at', y=200, tick=TRUE) + > l + Error in identicalUnits(x) : object is not a unit + Calls: ... polylineGrob -> is.unit -> unit.c -> identicalUnits Execution halted ``` @@ -18154,21 +10504,21 @@ Run `revdepcheck::cloud_details(, "NIMAA")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(NIMAA) - Warning message: - In check_dep_version() : ABI version mismatch: - lme4 was built with Matrix ABI version 1 - Current Matrix ABI version is 0 - Please re-install lme4 from source or restore original 'Matrix' package + > library(lemon) + > + > + > if (TRUE) { + + test_check("lemon") + + } #else { ... - 1. └─NIMAA::extractSubMatrix(...) at test-extract-nonmissing-submatrix.R:5:3 - 2. └─NIMAA:::plotSubmatrix(...) - 3. ├─base::print(plotly::ggplotly(p)) - 4. ├─plotly::ggplotly(p) - 5. └─plotly:::ggplotly.ggplot(p) - 6. └─plotly::gg2list(...) + 13. └─gtable::gtable_add_row_space(panel_table, theme$panel.spacing.y %||% theme$panel.spacing) + 14. └─cli::cli_abort("{.arg height} must be of length 1 or nrow - 1") + 15. └─rlang::abort(...) - [ FAIL 1 | WARN 4 | SKIP 0 | PASS 7 ] + [ FAIL 2 | WARN 13 | SKIP 3 | PASS 138 ] + Deleting unused snapshots: + • facet/facet-rep-wrap-spacing.svg + • facet_aux/facet-rep-wrap.svg Error: Test failures Execution halted ``` @@ -18176,66 +10526,45 @@ Run `revdepcheck::cloud_details(, "NIMAA")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘NIMAA-vignette.Rmd’ + when running code in ‘capped-axes.Rmd’ ... + > p + coord_capped_cart(bottom = "right") - > beatAML_incidence_matrix <- plotIncMatrix(x = beatAML_data, - + index_nominal = c(2, 1), index_numeric = 3, print_skim = FALSE, - + plot_weigh .... [TRUNCATED] + > p + coord_capped_cart(bottom = "right", left = "none") - Na/missing values Proportion: 0.2603 + > ggplot(dat1, aes(gp, y)) + geom_point(position = position_jitter(width = 0.2, + + height = 0)) + coord_capped_cart(left = "none", bottom = bracke .... [TRUNCATED] - When sourcing ‘NIMAA-vignette.R’: - Error: subscript out of bounds + ... + When sourcing ‘legends.R’: + Error: EXPR must be a length 1 vector Execution halted - ‘NIMAA-vignette.Rmd’ using ‘UTF-8’... failed + ‘capped-axes.Rmd’ using ‘UTF-8’... failed + ‘facet-rep-labels.Rmd’ using ‘UTF-8’... failed + ‘geoms.Rmd’ using ‘UTF-8’... OK + ‘gtable_show_lemonade.Rmd’ using ‘UTF-8’... OK + ‘legends.Rmd’ using ‘UTF-8’... failed + ‘lemon_print.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘NIMAA-vignette.Rmd’ using rmarkdown - - Quitting from lines 49-57 [plotIncMatrix function] (NIMAA-vignette.Rmd) - Error: processing vignette 'NIMAA-vignette.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘NIMAA-vignette.Rmd’ - - SUMMARY: processing the following file failed: - ‘NIMAA-vignette.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.5Mb - sub-directories of 1Mb or more: - data 2.0Mb - doc 4.0Mb - ``` - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 24 marked UTF-8 strings + --- re-building ‘capped-axes.Rmd’ using rmarkdown ``` -# nonmem2R +# lfproQC
-* Version: 0.2.5 -* GitHub: NA -* Source code: https://github.com/cran/nonmem2R -* Date/Publication: 2024-03-11 17:30:02 UTC -* Number of recursive dependencies: 64 +* Version: 1.4.0 +* GitHub: https://github.com/kabilansbio/lfproQC +* Source code: https://github.com/cran/lfproQC +* Date/Publication: 2024-10-10 13:10:02 UTC +* Number of recursive dependencies: 145 -Run `revdepcheck::cloud_details(, "nonmem2R")` for more info +Run `revdepcheck::cloud_details(, "lfproQC")` for more info
@@ -18243,66 +10572,72 @@ Run `revdepcheck::cloud_details(, "nonmem2R")` for more info * checking examples ... ERROR ``` - Running examples in ‘nonmem2R-Ex.R’ failed + Running examples in ‘lfproQC-Ex.R’ failed The error most likely occurred in: - > ### Name: vpcfig2 - > ### Title: Visual Predictive Check (VPC) based on Perl-speaks-NONMEM (PsN) - > ### generated VPC files (ggplot2-version). - > ### Aliases: vpcfig2 + > ### Name: Boxplot_data + > ### Title: Creating Boxplot for a dataset + > ### Aliases: Boxplot_data > > ### ** Examples > - ... - VPC based on files: - /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpctab004.dat - and - /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpc_results.csv - Facetting was set using: - facet_wrap(~strata) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > Boxplot_data(yeast_data) + Using Majority protein IDs as id variables + Warning: Removed 269 rows containing non-finite outside the scale range + (`stat_boxplot()`). + Error in pm[[2]] : subscript out of bounds + Calls: Boxplot_data -> -> ggplotly.ggplot -> gg2list Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘VPCvignette.Rmd’ + when running code in ‘user_guide.Rmd’ ... - VPC based on files: - /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpctab004.dat - and - /tmp/workdir/nonmem2R/new/nonmem2R.Rcheck/nonmem2R/extdata/vpc_results.csv - Facetting was set using: - facet_wrap(~strata) - - When sourcing ‘VPCvignette.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + > yeast$`Best combinations` + PCV_best_combination PEV_best_combination PMAD_best_combination + 1 rlr_knn, rlr_lls vsn_lls rlr_lls + + > Boxplot_data(yeast$rlr_knn_data) + Using Majority protein IDs as id variables + + When sourcing ‘user_guide.R’: + Error: subscript out of bounds Execution halted - ‘GOFvignette.Rmd’ using ‘UTF-8’... OK - ‘VPCvignette.Rmd’ using ‘UTF-8’... failed + ‘user_guide.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘GOFvignette.Rmd’ using rmarkdown + ... + --- re-building ‘user_guide.Rmd’ using rmarkdown + + Quitting from lines 55-56 [unnamed-chunk-8] (user_guide.Rmd) + Error: processing vignette 'user_guide.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘user_guide.Rmd’ + + SUMMARY: processing the following file failed: + ‘user_guide.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -# nphRCT +# LMoFit
-* Version: 0.1.1 +* Version: 0.1.7 * GitHub: NA -* Source code: https://github.com/cran/nphRCT -* Date/Publication: 2024-06-27 12:30:02 UTC -* Number of recursive dependencies: 120 +* Source code: https://github.com/cran/LMoFit +* Date/Publication: 2024-05-14 07:33:23 UTC +* Number of recursive dependencies: 62 -Run `revdepcheck::cloud_details(, "nphRCT")` for more info +Run `revdepcheck::cloud_details(, "LMoFit")` for more info
@@ -18311,183 +10646,113 @@ Run `revdepcheck::cloud_details(, "nphRCT")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘explanation.Rmd’ + when running code in ‘LMoFit.Rmd’ ... + [1] 4.074066 12.939823 41.130281 119.281677 - > km <- survfit(Surv(time, event) ~ arm, data = dat) - - > p_km <- survminer::ggsurvplot(km, data = dat, risk.table = TRUE, - + break.x.by = 6, legend.title = "", xlab = "Time (months)", - + ylab = "Ov ..." ... [TRUNCATED] + > lspace_BrIII - When sourcing ‘explanation.R’: - Error: argument is of length zero + When sourcing ‘LMoFit.R’: + Error: Problem while computing layer data. + ℹ Error occurred in the 1st layer. + Caused by error in `is.waive()`: + ! could not find function "is.waive" Execution halted - ‘explanation.Rmd’ using ‘UTF-8’... failed - ‘weighted_log_rank_tests.Rmd’ using ‘UTF-8’... OK + ‘LMoFit.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘explanation.Rmd’ using rmarkdown + ... + --- re-building ‘LMoFit.Rmd’ using rmarkdown - Quitting from lines 44-73 [unnamed-chunk-1] (explanation.Rmd) - Error: processing vignette 'explanation.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘explanation.Rmd’ + Quitting from lines 236-237 [unnamed-chunk-15] (LMoFit.Rmd) + Error: processing vignette 'LMoFit.Rmd' failed with diagnostics: + Problem while computing layer data. + ℹ Error occurred in the 1st layer. + Caused by error in `is.waive()`: + ! could not find function "is.waive" + --- failed re-building ‘LMoFit.Rmd’ - --- re-building ‘weighted_log_rank_tests.Rmd’ using rmarkdown - ``` - -# nprobust - -
- -* Version: 0.4.0 -* GitHub: NA -* Source code: https://github.com/cran/nprobust -* Date/Publication: 2020-08-26 10:40:02 UTC -* Number of recursive dependencies: 30 - -Run `revdepcheck::cloud_details(, "nprobust")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘nprobust-Ex.R’ failed - The error most likely occurred in: + SUMMARY: processing the following file failed: + ‘LMoFit.Rmd’ - > ### Name: nprobust.plot - > ### Title: Graphical Presentation of Results from 'nprobust' Package. - > ### Aliases: nprobust.plot - > - > ### ** Examples - > - > x <- runif(500) - > y <- sin(4*x) + rnorm(500) - > est <- lprobust(y,x) - > nprobust.plot(est) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + Error: Vignette re-building failed. Execution halted ``` ## In both -* checking C++ specification ... NOTE +* checking installed package size ... NOTE ``` - Specified C++11: please drop specification unless essential + installed size is 7.0Mb + sub-directories of 1Mb or more: + data 6.5Mb ``` -# nzelect +# LocalCop
-* Version: 0.4.0 -* GitHub: NA -* Source code: https://github.com/cran/nzelect -* Date/Publication: 2017-10-02 20:35:23 UTC -* Number of recursive dependencies: 95 +* Version: 0.0.2 +* GitHub: https://github.com/mlysy/LocalCop +* Source code: https://github.com/cran/LocalCop +* Date/Publication: 2024-09-12 17:41:03 UTC +* Number of recursive dependencies: 91 -Run `revdepcheck::cloud_details(, "nzelect")` for more info +Run `revdepcheck::cloud_details(, "LocalCop")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘nzelect-Ex.R’ failed - The error most likely occurred in: - - > ### Name: polls - > ### Title: New Zealand Opinion Polls - > ### Aliases: polls - > ### Keywords: datasets - > - > ### ** Examples - > - ... - ℹ This can happen when ggplot fails to infer the correct grouping structure in - the data. - ℹ Did you forget to specify a `group` aesthetic or to convert a numerical - variable into a factor? - Warning: Removed 159 rows containing missing values or values outside the scale range - (`geom_line()`). - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘README.Rmd’ - ... - > proportions <- nzge %>% filter(election_year == 2014) %>% - + group_by(voting_place, voting_type) %>% summarise(`proportion Labour` = sum(votes[p .... [TRUNCATED] - `summarise()` has grouped output by 'voting_place'. You can override using the - `.groups` argument. - - > ggpairs(proportions, aes(colour = voting_type), columns = 3:5) - - When sourcing ‘README.R’: - Error: argument is of length zero - Execution halted - - ‘README.Rmd’ using ‘UTF-8’... failed - ``` - * checking re-building of vignette outputs ... NOTE ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘README.Rmd’ using rmarkdown - - Quitting from lines 64-82 [unnamed-chunk-3] (README.Rmd) - Error: processing vignette 'README.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘README.Rmd’ - - SUMMARY: processing the following file failed: - ‘README.Rmd’ - - Error: Vignette re-building failed. - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘LocalCop.Rmd’ using rmarkdown ``` ## In both -* checking installed package size ... NOTE +* checking running R code from vignettes ... ERROR ``` - installed size is 5.3Mb - sub-directories of 1Mb or more: - data 5.0Mb + Errors in running code in vignettes: + when running code in ‘LocalCop.Rmd’ + ... + > tibble(x = x0, True = BiCopEta2Tau(family, eta = eta_fun(x0)), + + Fitted = BiCopEta2Tau(fitseq$eta, family = family)) %>% pivot_longer(True:Fitt .... [TRUNCATED] + Warning: Removed 51 rows containing missing values or values outside the scale range + (`geom_line()`). + Warning: Removed 51 rows containing missing values or values outside the scale range + (`geom_point()`). + + When sourcing ‘LocalCop.R’: + Error: invalid line type: must be length 2, 4, 6 or 8 + Execution halted + + ‘LocalCop.Rmd’ using ‘UTF-8’... failed ``` -* checking data for non-ASCII characters ... NOTE +* checking installed package size ... NOTE ``` - Note: found 6409 marked UTF-8 strings + installed size is 56.2Mb + sub-directories of 1Mb or more: + libs 55.7Mb ``` -# OBIC +# lognorm
-* Version: 3.0.3 -* GitHub: https://github.com/AgroCares/Open-Bodem-Index-Calculator -* Source code: https://github.com/cran/OBIC -* Date/Publication: 2024-09-09 08:30:02 UTC -* Number of recursive dependencies: 75 +* Version: 0.1.10 +* GitHub: https://github.com/bgctw/lognorm +* Source code: https://github.com/cran/lognorm +* Date/Publication: 2021-11-21 17:50:10 UTC +* Number of recursive dependencies: 73 -Run `revdepcheck::cloud_details(, "OBIC")` for more info +Run `revdepcheck::cloud_details(, "lognorm")` for more info
@@ -18496,56 +10761,80 @@ Run `revdepcheck::cloud_details(, "OBIC")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘obic_workability.Rmd’ + when running code in ‘lognorm.Rmd’ ... - > gg2 <- ggplot(data = dt, aes(x = field, fill = field)) + - + geom_col(aes(y = I_P_WO)) + theme_bw() + theme(axis.text = element_text(size = 10, - .... [TRUNCATED] + > ans %>% ggplot(aes(x, density, linetype = sigmaStar, + + color = sigmaStar)) + geom_area(data = ansNormal, aes(linetype = NA, + + color = NA), .... [TRUNCATED] + Warning: A numeric `legend.position` argument in `theme()` was deprecated in ggplot2 + 3.5.0. + ℹ Please use the `legend.position.inside` argument of `theme()` instead. - > (gg | gg2) + plot_layout(guides = "collect") + plot_annotation(caption = "Baseline workability scores.", - + theme = theme(plot.caption = element .... [TRUNCATED] - - When sourcing ‘obic_workability.R’: - Error: object is not a unit + When sourcing ‘lognorm.R’: + Error: invalid hex digit in 'color' or 'lty' Execution halted - ‘description-of-the-columns.Rmd’ using ‘UTF-8’... OK - ‘obic_introduction.Rmd’ using ‘UTF-8’... OK - ‘obic_score_aggregation.Rmd’ using ‘UTF-8’... OK - ‘obic_water_functions.Rmd’ using ‘UTF-8’... OK - ‘obic_workability.Rmd’ using ‘UTF-8’... failed + ‘lognorm.Rmd’ using ‘UTF-8’... failed + ‘lognormalDiff.Rmd’ using ‘UTF-8’... OK + ‘lognormalSum.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘description-of-the-columns.Rmd’ using rmarkdown - --- finished re-building ‘description-of-the-columns.Rmd’ + --- re-building ‘lognorm.Rmd’ using rmarkdown - --- re-building ‘obic_introduction.Rmd’ using rmarkdown + Quitting from lines 51-78 [lognormalDensities] (lognorm.Rmd) + Error: processing vignette 'lognorm.Rmd' failed with diagnostics: + invalid hex digit in 'color' or 'lty' + --- failed re-building ‘lognorm.Rmd’ + + --- re-building ‘lognormalDiff.Rmd’ using rmarkdown + ``` + +# LorMe + +
+ +* Version: 1.1.0 +* GitHub: NA +* Source code: https://github.com/cran/LorMe +* Date/Publication: 2024-09-13 09:00:02 UTC +* Number of recursive dependencies: 210 + +Run `revdepcheck::cloud_details(, "LorMe")` for more info + +
+ +## Newly broken + +* checking whether package ‘LorMe’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘LorMe’ + See ‘/tmp/workdir/LorMe/new/LorMe.Rcheck/00install.out’ for details. ``` ## In both * checking installed package size ... NOTE ``` - installed size is 6.0Mb + installed size is 7.5Mb sub-directories of 1Mb or more: - data 4.0Mb - doc 1.4Mb + data 7.0Mb ``` -# oceanic +# lphom
-* Version: 0.1.7 +* Version: 0.3.5-5 * GitHub: NA -* Source code: https://github.com/cran/oceanic -* Date/Publication: 2024-06-11 03:40:02 UTC -* Number of recursive dependencies: 52 +* Source code: https://github.com/cran/lphom +* Date/Publication: 2024-03-03 10:30:02 UTC +* Number of recursive dependencies: 30 -Run `revdepcheck::cloud_details(, "oceanic")` for more info +Run `revdepcheck::cloud_details(, "lphom")` for more info
@@ -18553,168 +10842,154 @@ Run `revdepcheck::cloud_details(, "oceanic")` for more info * checking examples ... ERROR ``` - Running examples in ‘oceanic-Ex.R’ failed + Running examples in ‘lphom-Ex.R’ failed The error most likely occurred in: - > ### Name: dotplot - > ### Title: dotplot - > ### Aliases: dotplot + > ### Name: plot.lphom + > ### Title: Graphical representation of a RxC ecological inference (vote + > ### transfer) matrix + > ### Aliases: plot.lphom > > ### ** Examples > - > dotplot(141,23) ... - 4. └─ggplot2:::ggplot_build.ggplot(x) - 5. └─layout$setup(data, plot$data, plot$plot_env) - 6. └─ggplot2 (local) setup(..., self = self) - 7. └─self$coord$setup_params(data) - 8. └─ggplot2 (local) setup_params(..., self = self) - 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 10. └─ggplot2:::check_logical(expand) - 11. └─ggplot2:::stop_input_type(...) - 12. └─rlang::abort(message, ..., call = call, arg = arg) + Their aggregate importances, measured in percentage of the total census, are: + %NET_ENTRIES = 0.0281% + %NET_EXITS = 0.0262% + If NET_ENTRIES and/or NET_EXITS are really small, less than 1% in all units, their corresponding results will not be displayed in the main output, VTM. They are anyway always included in VTM.complete. + ************************************************* + > p <- plot(mt.ns, show.plot = FALSE) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#CD107680", low = "white") + Calls: plot -> plot.lphom -> pintar_con -> Execution halted ``` -## In both +# LTCDM -* checking installed package size ... NOTE - ``` - installed size is 8.1Mb - sub-directories of 1Mb or more: - data 8.0Mb - ``` +
-* checking data for non-ASCII characters ... NOTE +* Version: 1.0.0 +* GitHub: NA +* Source code: https://github.com/cran/LTCDM +* Date/Publication: 2024-05-15 20:00:02 UTC +* Number of recursive dependencies: 99 + +Run `revdepcheck::cloud_details(, "LTCDM")` for more info + +
+ +## Newly broken + +* checking whether package ‘LTCDM’ can be installed ... WARNING ``` - Note: found 1242 marked UTF-8 strings + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘LTCDM’ + See ‘/tmp/workdir/LTCDM/new/LTCDM.Rcheck/00install.out’ for details. ``` -# oddsratio +# mapindia
-* Version: 2.0.1 -* GitHub: https://github.com/pat-s/oddsratio -* Source code: https://github.com/cran/oddsratio -* Date/Publication: 2020-05-24 22:00:02 UTC -* Number of recursive dependencies: 63 +* Version: 1.0.1 +* GitHub: https://github.com/shubhamdutta26/mapindia +* Source code: https://github.com/cran/mapindia +* Date/Publication: 2024-11-14 16:10:07 UTC +* Number of recursive dependencies: 94 -Run `revdepcheck::cloud_details(, "oddsratio")` for more info +Run `revdepcheck::cloud_details(, "mapindia")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘oddsratio-Ex.R’ failed - The error most likely occurred in: - - > ### Name: insert_or - > ### Title: Insert odds ratios of GAM(M)s into smoothing function - > ### Aliases: insert_or - > - > ### ** Examples - > - > library(oddsratio) - ... - 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 6. └─ggplot2:::new_layer_names(object, names(plot$layers)) - 7. └─vctrs::vec_as_names(names, repair = "check_unique") - 8. └─vctrs (local) ``() - 9. └─vctrs:::validate_unique(names = names, arg = arg, call = call) - 10. └─vctrs:::stop_names_cannot_be_empty(names, call = call) - 11. └─vctrs:::stop_names(...) - 12. └─vctrs:::stop_vctrs(...) - 13. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘oddsratio.Rmd’ + when running code in ‘getting_started.Rmd’ ... - + pred = "x2", values = c(0.4, 0.6)) - > insert_or(plot, or_object2, or_yloc = 2.1, values_yloc = 2, - + line_col = "green4", text_col = "black", rect_col = "green4", - + rect_alpha = .... [TRUNCATED] + > mh + tn - When sourcing ‘oddsratio.R’: - Error: Names can't be empty. - ✖ Empty name found at location 1. + > statepop2011 <- plot_india("states", data = statepop, + + values = "pop_2011") + scale_fill_continuous(low = "blue", + + high = "yellow", guid .... [TRUNCATED] + + When sourcing ‘getting_started.R’: + Error: unused arguments (low = "blue", high = "yellow") Execution halted - ‘oddsratio.Rmd’ using ‘UTF-8’... failed + ‘getting_started.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘oddsratio.Rmd’ using rmarkdown - ``` - -## In both - -* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘gam’ + --- re-building ‘getting_started.Rmd’ using rmarkdown ``` -# ofpetrial +# mc2d
-* Version: 0.1.1 -* GitHub: https://github.com/DIFM-Brain/ofpetrial -* Source code: https://github.com/cran/ofpetrial -* Date/Publication: 2024-05-15 08:50:03 UTC -* Number of recursive dependencies: 136 +* Version: 0.2.1 +* GitHub: NA +* Source code: https://github.com/cran/mc2d +* Date/Publication: 2024-06-05 17:30:07 UTC +* Number of recursive dependencies: 90 -Run `revdepcheck::cloud_details(, "ofpetrial")` for more info +Run `revdepcheck::cloud_details(, "mc2d")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘mc2d’ can be installed ... WARNING ``` - Running examples in ‘ofpetrial-Ex.R’ failed - The error most likely occurred in: + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘mc2d’ + See ‘/tmp/workdir/mc2d/new/mc2d.Rcheck/00install.out’ for details. + ``` + +## In both + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘docmcEnglish.Rnw’ using Sweave + Loading required package: mvtnorm + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘mc2d’ - > ### Name: check_ortho_with_chars - > ### Title: Check the orthogonality with field/topographic characteristics - > ### Aliases: check_ortho_with_chars - > - > ### ** Examples - > - > data(td_single_input) + Attaching package: ‘mc2d’ + + The following objects are masked from ‘package:base’: + + pmax, pmin ... - 33. │ └─ggplot2:::`+.gg`(init, x[[i]]) - 34. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 35. │ ├─ggplot2::ggplot_add(object, p, objectname) - 36. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 37. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 38. └─base::.handleSimpleError(...) - 39. └─purrr (local) h(simpleError(msg, call)) - 40. └─cli::cli_abort(...) - 41. └─rlang::abort(...) + l.179 \RequirePackage{grfext}\relax + ^^M + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘mc2dLmEnglish.rnw’ + + SUMMARY: processing the following files failed: + ‘docmcEnglish.Rnw’ ‘mc2dLmEnglish.rnw’ + + Error: Vignette re-building failed. Execution halted ``` -# OmicNavigator +# mcStats
-* Version: 1.13.13 -* GitHub: https://github.com/abbvie-external/OmicNavigator -* Source code: https://github.com/cran/OmicNavigator -* Date/Publication: 2023-08-25 20:40:02 UTC -* Number of recursive dependencies: 86 +* Version: 0.1.2 +* GitHub: NA +* Source code: https://github.com/cran/mcStats +* Date/Publication: 2020-02-26 06:50:02 UTC +* Number of recursive dependencies: 55 -Run `revdepcheck::cloud_details(, "OmicNavigator")` for more info +Run `revdepcheck::cloud_details(, "mcStats")` for more info
@@ -18722,67 +10997,47 @@ Run `revdepcheck::cloud_details(, "OmicNavigator")` for more info * checking tests ... ERROR ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: - > # Test files in inst/tinytest/ - > if (requireNamespace("tinytest", quietly = TRUE)) { - + suppressMessages(tinytest::test_package("OmicNavigator")) - + } + > library(testthat) + > library(mcStats) + > + > test_check("mcStats") + [ FAIL 3 | WARN 2 | SKIP 0 | PASS 5 ] - testAdd.R..................... 0 tests - testAdd.R..................... 0 tests + ══ Failed tests ════════════════════════════════════════════════════════════════ ... - testPlot.R.................... 140 tests OK - testPlot.R.................... 140 tests OK - testPlot.R.................... 141 tests OK - testPlot.R.................... 141 tests OK - testPlot.R.................... 141 tests OK - testPlot.R.................... 142 tests OK - testPlot.R.................... 142 tests OK - testPlot.R.................... 143 tests OK Error in pm[[2]] : subscript out of bounds - Calls: suppressMessages ... plotStudy -> f -> -> ggplotly.ggplot -> gg2list + * Removed 420 rows containing missing values or values outside the scale range + (`geom_area()`). + * Removed 442 rows containing missing values or values outside the scale range + (`geom_area()`). + * Removed 184 rows containing missing values or values outside the scale range + (`geom_area()`). + + [ FAIL 3 | WARN 2 | SKIP 0 | PASS 5 ] + Error: Test failures Execution halted ``` ## In both -* checking re-building of vignette outputs ... NOTE +* checking LazyData ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘OmicNavigatorAPI.Rnw’ using Sweave - OmicNavigator R package version: 1.13.13 - The app is not installed. Install it with installApp() - Installing study "ABC" in /tmp/RtmpFyTBK9/file1d2273c45a46 - Exporting study "ABC" as an R package - Note: No maintainer email was specified. Using the placeholder: Unknown - Calculating pairwise overlaps. This may take a while... - Exported study to /tmp/RtmpFyTBK9/ONstudyABC - Success! - ... - l.14 ^^M - - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘OmicNavigatorUsersGuide.Rnw’ - - SUMMARY: processing the following files failed: - ‘OmicNavigatorAPI.Rnw’ ‘OmicNavigatorUsersGuide.Rnw’ - - Error: Vignette re-building failed. - Execution halted + 'LazyData' is specified without a 'data' directory ``` -# omu +# MetAlyzer
-* Version: 1.1.2 -* GitHub: https://github.com/connor-reid-tiffany/Omu -* Source code: https://github.com/cran/omu -* Date/Publication: 2024-03-06 23:40:02 UTC -* Number of recursive dependencies: 129 +* Version: 1.1.0 +* GitHub: https://github.com/nilsmechtel/MetAlyzer +* Source code: https://github.com/cran/MetAlyzer +* Date/Publication: 2024-12-06 14:00:02 UTC +* Number of recursive dependencies: 98 -Run `revdepcheck::cloud_details(, "omu")` for more info +Run `revdepcheck::cloud_details(, "MetAlyzer")` for more info
@@ -18790,72 +11045,40 @@ Run `revdepcheck::cloud_details(, "omu")` for more info * checking examples ... ERROR ``` - Running examples in ‘omu-Ex.R’ failed + Running examples in ‘MetAlyzer-Ex.R’ failed The error most likely occurred in: - > ### Name: PCA_plot - > ### Title: Create a PCA plot - > ### Aliases: PCA_plot + > ### Name: plotly_scatter + > ### Title: Plotly Log2FC Scatter Plot + > ### Aliases: plotly_scatter > > ### ** Examples > - > PCA_plot(count_data = c57_nos2KO_mouse_countDF, metadata = c57_nos2KO_mouse_metadata, - + variable = "Treatment", color = "Treatment", response_variable = "Metabolite") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: PCA_plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Omu_vignette.Rmd’ using rmarkdown - - Quitting from lines 97-104 [unnamed-chunk-4] (Omu_vignette.Rmd) - Error: processing vignette 'Omu_vignette.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Omu_vignette.Rmd’ - - SUMMARY: processing the following file failed: - ‘Omu_vignette.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Omu_vignette.Rmd’ - ... - - > library(knitr) - - > load("../data/c57_nos2KO_mouse_countDF.rda") - Warning in readChar(con, 5L, useBytes = TRUE) : - cannot open compressed file '../data/c57_nos2KO_mouse_countDF.rda', probable reason 'No such file or directory' - - When sourcing ‘Omu_vignette.R’: - Error: cannot open the connection + > + ... + Warning: Partial NA coefficients for 2 probe(s) + > + > p_scatter <- plotly_scatter(metalyzer_se) + Warning in geom_rect(data = rects_df, inherit.aes = FALSE, aes(xmin = .data$Start, : + Ignoring unknown aesthetics: text + Warning in geom_point(size = 0.5, aes(text = paste0(.data$Metabolite, "\nClass: ", : + Ignoring unknown aesthetics: text + Error in pm[[2]] : subscript out of bounds + Calls: plotly_scatter -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted - - ‘Omu_vignette.Rmd’ using ‘UTF-8’... failed ``` -# OncoBayes2 +# MetaNet
-* Version: 0.8-9 -* GitHub: NA -* Source code: https://github.com/cran/OncoBayes2 -* Date/Publication: 2023-07-20 18:40:05 UTC -* Number of recursive dependencies: 100 +* Version: 0.1.2 +* GitHub: https://github.com/Asa12138/MetaNet +* Source code: https://github.com/cran/MetaNet +* Date/Publication: 2024-03-25 20:40:07 UTC +* Number of recursive dependencies: 154 -Run `revdepcheck::cloud_details(, "OncoBayes2")` for more info +Run `revdepcheck::cloud_details(, "MetaNet")` for more info
@@ -18863,80 +11086,91 @@ Run `revdepcheck::cloud_details(, "OncoBayes2")` for more info * checking examples ... ERROR ``` - Running examples in ‘OncoBayes2-Ex.R’ failed + Running examples in ‘MetaNet-Ex.R’ failed The error most likely occurred in: - > ### Name: plot_blrm - > ### Title: Plot a fitted model - > ### Aliases: plot_blrm plot_toxicity_curve plot_toxicity_intervals - > ### plot_toxicity_intervals_stacked plot_toxicity_curve.blrmfit - > ### plot_toxicity_curve.blrm_trial plot_toxicity_intervals.blrmfit - > ### plot_toxicity_intervals.blrm_trial - > ### plot_toxicity_intervals_stacked.blrmfit - ... - > # Plot the dose-toxicity curve - > plot_toxicity_curve(blrmfit, - + x = "drug_A", - + group = ~ group_id * drug_B, - + newdata = subset(dose_info_combo2, group_id == "trial_AB"), - + facet_args = list(ncol = 4)) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > ### Name: as.ggig + > ### Title: Transfer an igraph object to a ggig + > ### Aliases: as.ggig + > + > ### ** Examples + > + > as.ggig(co_net, coors = c_net_layout(co_net)) -> ggig + ... + 2. └─ggplot2:::print.ggplot(x) + 3. ├─ggplot2::ggplot_build(x) + 4. └─ggplot2:::ggplot_build.ggplot(x) + 5. └─npscales$set_palettes(plot$theme) + 6. └─ggplot2 (local) set_palettes(..., self = self) + 7. └─ggplot2:::as_continuous_pal(elem) + 8. └─scales::colour_ramp(x) + 9. └─cli::cli_abort("Must provide at least one colour to create a colour ramp") + 10. └─rlang::abort(...) Execution halted ``` -## In both - -* checking installed package size ... NOTE - ``` - installed size is 76.7Mb - sub-directories of 1Mb or more: - libs 74.7Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# oncomsm +# metR
-* Version: 0.1.4 -* GitHub: https://github.com/Boehringer-Ingelheim/oncomsm -* Source code: https://github.com/cran/oncomsm -* Date/Publication: 2023-04-17 07:00:02 UTC -* Number of recursive dependencies: 126 +* Version: 0.17.0 +* GitHub: https://github.com/eliocamp/metR +* Source code: https://github.com/cran/metR +* Date/Publication: 2025-01-13 19:50:02 UTC +* Number of recursive dependencies: 120 -Run `revdepcheck::cloud_details(, "oncomsm")` for more info +Run `revdepcheck::cloud_details(, "metR")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘metR-Ex.R’ failed + The error most likely occurred in: + + > ### Name: geom_contour_tanaka + > ### Title: Illuminated contours + > ### Aliases: geom_contour_tanaka GeomContourTanaka + > ### Keywords: datasets + > + > ### ** Examples + > + ... + 19. │ ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params)) + 20. │ └─self$draw_panel(...) + 21. │ └─metR (local) draw_panel(...) + 22. │ └─metR:::stopf(...) + 23. │ └─base::stop(e) + 24. └─rlang (local) ``(``) + 25. └─handlers[[1L]](cnd) + 26. └─cli::cli_abort(...) + 27. └─rlang::abort(...) + Execution halted + ``` + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(dplyr) - - Attaching package: 'dplyr' - - The following objects are masked from 'package:stats': - - filter, lag + > library(testthat) + > library(metR) + > # library(vdiffr) + > + > on_cran <- !isTRUE(as.logical(Sys.getenv("NOT_CRAN", "false"))) + > if (on_cran) data.table::setDTthreads(2) + > ... - 10. └─grid::unit.c(legend.box.margin[4], widths, legend.box.margin[2]) - 11. └─grid:::identicalUnits(x) + 9. └─npscales$set_palettes(plot$theme) + 10. └─ggplot2 (local) set_palettes(..., self = self) + 11. └─ggplot2:::as_continuous_pal(elem) + 12. └─scales::colour_ramp(x) + 13. └─cli::cli_abort("Must provide at least one colour to create a colour ramp") + 14. └─rlang::abort(...) - [ FAIL 1 | WARN 0 | SKIP 2 | PASS 59 ] - Deleting unused snapshots: - • plots/plot-mstate-srp-model-2.svg - • plots/plot-mstate-srp-model-3.svg - • plots/plot-srp-model-2.svg + [ FAIL 2 | WARN 1 | SKIP 18 | PASS 184 ] Error: Test failures Execution halted ``` @@ -18944,189 +11178,202 @@ Run `revdepcheck::cloud_details(, "oncomsm")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘avoiding-bias.Rmd’ + when running code in ‘Visualization-tools.Rmd’ ... - > mdl <- create_srpmodel(A = define_srp_prior(median_t_q05 = c(1, - + 4, 12), median_t_q95 = c(6, 8, 36), shape_q05 = c(0.99, 0.99, - + 0.99), s .... [TRUNCATED] - - > plot(mdl, confidence = 0.9) - - ... - - > plot(mdl, parameter_sample = smpl_prior, confidence = 0.75) + > ggplot(temperature[lev == 300], aes(lon, lat, z = air.z)) + + + geom_contour_fill() + geom_contour_tanaka() + scale_fill_divergent() - When sourcing ‘oncomsm.R’: - Error: object is not a unit + When sourcing ‘Visualization-tools.R’: + Error: Problem while converting geom to grob. + ℹ Error occurred in the 2nd layer. + Caused by error: + ! geom_path: If you are using dotted or dashed lines, colour, size and linetype must be constant over the line. Execution halted - ‘avoiding-bias.Rmd’ using ‘UTF-8’... failed - ‘oncomsm.Rmd’ using ‘UTF-8’... failed - ‘prior-choice.Rmd’ using ‘UTF-8’... OK + ‘Visualization-tools.Rmd’ using ‘UTF-8’... failed + ‘Working-with-data.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘avoiding-bias.Rmd’ using rmarkdown + ... + --- re-building ‘Visualization-tools.Rmd’ using knitr - Quitting from lines 35-46 [unnamed-chunk-2] (avoiding-bias.Rmd) - Error: processing vignette 'avoiding-bias.Rmd' failed with diagnostics: - object is not a unit - --- failed re-building ‘avoiding-bias.Rmd’ + Quitting from lines 241-245 [unnamed-chunk-16] (Visualization-tools.Rmd) + Error: processing vignette 'Visualization-tools.Rmd' failed with diagnostics: + Problem while converting geom to grob. + ℹ Error occurred in the 2nd layer. + Caused by error: + ! geom_path: If you are using dotted or dashed lines, colour, size and linetype must be constant over the line. + ... + --- failed re-building ‘Visualization-tools.Rmd’ - --- re-building ‘oncomsm.Rmd’ using rmarkdown + --- re-building ‘Working-with-data.Rmd’ using knitr + --- finished re-building ‘Working-with-data.Rmd’ - Quitting from lines 211-215 [plotting-the-prior] (oncomsm.Rmd) - Error: processing vignette 'oncomsm.Rmd' failed with diagnostics: - object is not a unit - --- failed re-building ‘oncomsm.Rmd’ + SUMMARY: processing the following file failed: + ‘Visualization-tools.Rmd’ - --- re-building ‘prior-choice.Rmd’ using rmarkdown + Error: Vignette re-building failed. + Execution halted ``` ## In both * checking installed package size ... NOTE ``` - installed size is 59.2Mb + installed size is 6.6Mb sub-directories of 1Mb or more: - doc 1.1Mb - libs 57.0Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. + R 1.5Mb + data 2.0Mb + doc 1.8Mb ``` -# OneSampleLogRankTest +# MF.beta4
-* Version: 0.9.2 -* GitHub: NA -* Source code: https://github.com/cran/OneSampleLogRankTest -* Date/Publication: 2024-02-03 12:30:15 UTC -* Number of recursive dependencies: 106 +* Version: 1.1.1 +* GitHub: https://github.com/AnneChao/MF.beta4 +* Source code: https://github.com/cran/MF.beta4 +* Date/Publication: 2024-12-08 06:50:02 UTC +* Number of recursive dependencies: 182 -Run `revdepcheck::cloud_details(, "OneSampleLogRankTest")` for more info +Run `revdepcheck::cloud_details(, "MF.beta4")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘MF.beta4’ can be installed ... WARNING ``` - Running examples in ‘OneSampleLogRankTest-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotKM - > ### Title: Plot Kaplan-Meier Curve against Population - > ### Aliases: plotKM - > - > ### ** Examples - > - > # load data - > data(dataSurv_small) - > data(dataPop_2018_2021) - > - > plotKM(dataSurv_small, dataPop_2018_2021, type = "exact") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plotKM ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘MF.beta4’ + See ‘/tmp/workdir/MF.beta4/new/MF.beta4.Rcheck/00install.out’ for details. ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘oneSampleLogRankTest.Rmd’ - ... - $estimate - std_mort_ratio_est lwr upr - 1 1.531173 0.8302562 2.823816 - - - > plotKM(dataSurv, dataPop_2018_2021_race_sex_eth, type = "approximate") - - When sourcing ‘oneSampleLogRankTest.R’: - Error: argument is of length zero - Execution halted - - ‘oneSampleLogRankTest.Rmd’ using ‘UTF-8’... failed - ``` +## In both -* checking re-building of vignette outputs ... NOTE +* checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: ... - --- re-building ‘oneSampleLogRankTest.Rmd’ using rmarkdown + --- re-building ‘Introduction.Rnw’ using Sweave + Error: processing vignette 'Introduction.Rnw' failed with diagnostics: + Running 'texi2dvi' on 'Introduction.tex' failed. + LaTeX errors: + ! LaTeX Error: File `pdfpages.sty' not found. - Quitting from lines 74-77 [unnamed-chunk-3] (oneSampleLogRankTest.Rmd) - Error: processing vignette 'oneSampleLogRankTest.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘oneSampleLogRankTest.Rmd’ + Type X to quit or to proceed, + or enter new name. (Default extension: sty) + ... + l.4 ^^M + + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘Introduction.Rnw’ SUMMARY: processing the following file failed: - ‘oneSampleLogRankTest.Rmd’ + ‘Introduction.Rnw’ Error: Vignette re-building failed. Execution halted ``` -# onpoint +# migraph
-* Version: 1.0.5 -* GitHub: https://github.com/r-spatialecology/onpoint -* Source code: https://github.com/cran/onpoint -* Date/Publication: 2024-01-10 14:03:06 UTC -* Number of recursive dependencies: 72 +* Version: 1.4.5 +* GitHub: https://github.com/stocnet/migraph +* Source code: https://github.com/cran/migraph +* Date/Publication: 2024-12-02 10:00:10 UTC +* Number of recursive dependencies: 97 -Run `revdepcheck::cloud_details(, "onpoint")` for more info +Run `revdepcheck::cloud_details(, "migraph")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘onpoint-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot.env_summarized - > ### Title: plot.env_summarized - > ### Aliases: plot.env_summarized - > - > ### ** Examples - > - > set.seed(42) + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(manynet) + > library(migraph) + > + > test_check("migraph") + Starting 2 test processes + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] ... - 39. - - Done. - > - > x <- summarize_envelope(cluster_env) - > plot(x) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + `expected` is a character vector ('Statistic') + ── Failure ('test-model_tests.R:73:3'): qap plot works ───────────────────────── + qapplot$labels$x (`actual`) not identical to "Statistic" (`expected`). + + `actual` is NULL + `expected` is a character vector ('Statistic') + + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] + Error: Test failures + Execution halted ``` -# ordbetareg +# mikropml
-* Version: 0.7.2 -* GitHub: https://github.com/saudiwin/ordbetareg_pack -* Source code: https://github.com/cran/ordbetareg -* Date/Publication: 2023-08-10 07:30:02 UTC -* Number of recursive dependencies: 174 +* Version: 1.6.1 +* GitHub: https://github.com/SchlossLab/mikropml +* Source code: https://github.com/cran/mikropml +* Date/Publication: 2023-08-21 15:10:05 UTC +* Number of recursive dependencies: 129 + +Run `revdepcheck::cloud_details(, "mikropml")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(mikropml) + > test_check("mikropml") + Fraction of data in the training set: 0.778 + Groups in the training set: A C D + Groups in the testing set: B + Fraction of data in the training set: 0.778 + ... + `names(expected)` is absent + ── Failure ('test-plot.R:140:3'): plot_mean_prc uses geom ribbon, line, and hline ── + ... %>% unlist() (`actual`) not equal to c(...) (`expected`). + + `names(actual)` is a character vector ('geom_ribbon1', 'geom_ribbon2', 'geom_ribbon3', 'geom_ribbon4', 'geom_line1', ...) + `names(expected)` is absent + + [ FAIL 2 | WARN 19 | SKIP 12 | PASS 314 ] + Error: Test failures + Execution halted + ``` + +# MiMIR + +
+ +* Version: 1.5 +* GitHub: NA +* Source code: https://github.com/cran/MiMIR +* Date/Publication: 2024-02-01 08:50:02 UTC +* Number of recursive dependencies: 192 -Run `revdepcheck::cloud_details(, "ordbetareg")` for more info +Run `revdepcheck::cloud_details(, "MiMIR")` for more info
@@ -19134,100 +11381,81 @@ Run `revdepcheck::cloud_details(, "ordbetareg")` for more info * checking examples ... ERROR ``` - Running examples in ‘ordbetareg-Ex.R’ failed + Running examples in ‘MiMIR-Ex.R’ failed The error most likely occurred in: - > ### Name: pp_check_ordbeta - > ### Title: Accurate Posterior Predictive Plots for Ordbetareg Models - > ### Aliases: pp_check_ordbeta + > ### Name: LOBOV_accuracies + > ### Title: LOBOV_accuracies + > ### Aliases: LOBOV_accuracies > > ### ** Examples > - > + > require(pROC) ... - 16. │ └─ggplot2 (local) setup_params(...) - 17. │ └─ggplot2:::make_summary_fun(...) - 18. │ └─rlang::as_function(fun.data) - 19. │ └─base::get(x, envir = env, mode = "function") - 20. └─base::.handleSimpleError(...) - 21. └─rlang (local) h(simpleError(msg, call)) - 22. └─handlers[[1L]](cnd) - 23. └─cli::cli_abort(...) - 24. └─rlang::abort(...) + 56 metabolites x 500 samples + | Pruning samples on5SD: + 56 metabolites x 500 samples + | Performing scaling ... DONE! + | Imputation ... DONE! + > p_avail<-colnames(b_p)[c(1:5)] + > LOBOV_accuracies(sur$surrogates, b_p, p_avail, MiMIR::acc_LOBOV) + Error in pm[[2]] : subscript out of bounds + Calls: LOBOV_accuracies -> -> ggplotly.ggplot -> gg2list Execution halted ``` -## In both - -* checking installed package size ... NOTE - ``` - installed size is 8.1Mb - sub-directories of 1Mb or more: - data 7.5Mb - ``` - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 36 marked UTF-8 strings - ``` - -# packcircles +# miRetrieve
-* Version: 0.3.6 -* GitHub: https://github.com/mbedward/packcircles -* Source code: https://github.com/cran/packcircles -* Date/Publication: 2023-09-08 06:30:02 UTC -* Number of recursive dependencies: 57 +* Version: 1.3.4 +* GitHub: NA +* Source code: https://github.com/cran/miRetrieve +* Date/Publication: 2021-09-18 17:30:02 UTC +* Number of recursive dependencies: 125 -Run `revdepcheck::cloud_details(, "packcircles")` for more info +Run `revdepcheck::cloud_details(, "miRetrieve")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘progressive_packing.Rmd’ - ... - + scale_fill_man .... [TRUNCATED] - - > if (requireNamespace("ggiraph")) { - + gg <- ggplot(data = dat.gg) + ggiraph::geom_polygon_interactive(aes(x, - + y, group = id, fill = fac .... [TRUNCATED] - Loading required namespace: ggiraph - - When sourcing ‘progressive_packing.R’: - Error: argument is of length zero - Execution halted - - ‘graph_packing.Rmd’ using ‘UTF-8’... OK - ‘intro.Rmd’ using ‘UTF-8’... OK - ‘progressive_packing.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE +* checking tests ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘graph_packing.Rmd’ using rmarkdown - --- finished re-building ‘graph_packing.Rmd’ - - --- re-building ‘intro.Rmd’ using rmarkdown + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(miRetrieve) + > + > test_check("miRetrieve") + [ FAIL 1 | WARN 11 | SKIP 0 | PASS 202 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + Backtrace: + ▆ + 1. └─miRetrieve::compare_mir_terms_scatter(df_merged, "miR-21", title = "Test_title") at test-comparemirterms.R:56:1 + 2. ├─plotly::ggplotly(plot) + 3. └─plotly:::ggplotly.ggplot(plot) + 4. └─plotly::gg2list(...) + + [ FAIL 1 | WARN 11 | SKIP 0 | PASS 202 ] + Error: Test failures + Execution halted ``` -# pafr +# MiscMetabar
-* Version: 0.0.2 -* GitHub: https://github.com/dwinter/pafr -* Source code: https://github.com/cran/pafr -* Date/Publication: 2020-12-08 10:20:12 UTC -* Number of recursive dependencies: 110 +* Version: 0.10.1 +* GitHub: https://github.com/adrientaudiere/MiscMetabar +* Source code: https://github.com/cran/MiscMetabar +* Date/Publication: 2024-10-07 21:40:01 UTC +* Number of recursive dependencies: 417 -Run `revdepcheck::cloud_details(, "pafr")` for more info +Run `revdepcheck::cloud_details(, "MiscMetabar")` for more info
@@ -19239,43 +11467,67 @@ Run `revdepcheck::cloud_details(, "pafr")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(pafr) + > library(MiscMetabar) + Loading required package: phyloseq Loading required package: ggplot2 - > - > test_check("pafr") - [ FAIL 6 | WARN 2 | SKIP 0 | PASS 70 ] - + Loading required package: dada2 + Loading required package: Rcpp + Loading required package: dplyr ... - ── Failure ('test_plot.r:11:5'): dotplot works produces a plot ───────────────── - unname(labs["xintercept"]) not equal to "xintercept". - target is NULL, current is character - ── Failure ('test_plot.r:12:5'): dotplot works produces a plot ───────────────── - unname(labs["yintercept"]) not equal to "yintercept". - target is NULL, current is character + 'test_tuckey.R:5:3', 'test_tuckey.R:17:3', 'test_tuckey.R:26:3', + 'test_misc.R:11:3', 'test_misc.R:30:3', 'test_misc.R:97:3' - [ FAIL 6 | WARN 2 | SKIP 0 | PASS 70 ] + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test_figures_beta_div.R:72:5'): graph_test_pq works ─────────────── + `graph_test_pq(data_fungi_mini, fact = "Tree_name")` produced warnings. + + [ FAIL 1 | WARN 0 | SKIP 75 | PASS 83 ] Error: Test failures Execution halted ``` +# missingHE + +
+ +* Version: 1.5.0 +* GitHub: NA +* Source code: https://github.com/cran/missingHE +* Date/Publication: 2023-03-21 08:50:02 UTC +* Number of recursive dependencies: 152 + +Run `revdepcheck::cloud_details(, "missingHE")` for more info + +
+ +## Newly broken + +* checking whether package ‘missingHE’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘missingHE’ + See ‘/tmp/workdir/missingHE/new/missingHE.Rcheck/00install.out’ for details. + ``` + ## In both -* checking LazyData ... NOTE +* checking dependencies in R code ... NOTE ``` - 'LazyData' is specified without a 'data' directory + Namespace in Imports field not imported from: ‘mcmcr’ + All declared Imports should be used. ``` -# patchwork +# misspi
-* Version: 1.2.0 -* GitHub: https://github.com/thomasp85/patchwork -* Source code: https://github.com/cran/patchwork -* Date/Publication: 2024-01-08 14:40:02 UTC -* Number of recursive dependencies: 80 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/misspi +* Date/Publication: 2023-10-17 09:50:02 UTC +* Number of recursive dependencies: 88 -Run `revdepcheck::cloud_details(, "patchwork")` for more info +Run `revdepcheck::cloud_details(, "misspi")` for more info
@@ -19283,40 +11535,40 @@ Run `revdepcheck::cloud_details(, "patchwork")` for more info * checking examples ... ERROR ``` - Running examples in ‘patchwork-Ex.R’ failed + Running examples in ‘misspi-Ex.R’ failed The error most likely occurred in: - > ### Name: free - > ### Title: Free a plot from alignment - > ### Aliases: free + > ### Name: evaliq + > ### Title: Evaluate the Imputation Quality + > ### Aliases: evaliq > > ### ** Examples > - > # Sometimes you have a plot that defies good composition alginment, e.g. due + > # A very quick example ... - > p1 / p2 - > - > # We can fix this be using free - > free(p1) / p2 + > # Default plot + > er.eval <- evaliq(x.true[na.idx], x.est[na.idx]) + `geom_smooth()` using formula = 'y ~ x' > - > # We can still collect guides like before - > free(p1) / p2 + plot_layout(guides = "collect") - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits + > # Interactive plot + > er.eval <- evaliq(x.true[na.idx], x.est[na.idx], interactive = TRUE) + `geom_smooth()` using formula = 'y ~ x' + Error in pm[[2]] : subscript out of bounds + Calls: evaliq -> print -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -# pathviewr +# mizer
-* Version: 1.1.7 -* GitHub: https://github.com/ropensci/pathviewr -* Source code: https://github.com/cran/pathviewr -* Date/Publication: 2023-03-08 08:10:05 UTC -* Number of recursive dependencies: 182 +* Version: 2.5.3 +* GitHub: https://github.com/sizespectrum/mizer +* Source code: https://github.com/cran/mizer +* Date/Publication: 2024-10-17 07:10:09 UTC +* Number of recursive dependencies: 109 -Run `revdepcheck::cloud_details(, "pathviewr")` for more info +Run `revdepcheck::cloud_details(, "mizer")` for more info
@@ -19324,156 +11576,77 @@ Run `revdepcheck::cloud_details(, "pathviewr")` for more info * checking tests ... ERROR ``` + Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(pathviewr) - > #library(vdiffr) - > - > test_check("pathviewr") - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 286 ] - + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview ... - ── Error ('test-plot_by_subject.R:168:3'): elev views wrangled correctly via tidyverse ── - Error in `expect_match(elev_all_plots[[3]][[4]][["labels"]][["x"]], "position_height")`: is.character(act$val) is not TRUE - Backtrace: - ▆ - 1. └─testthat::expect_match(...) at test-plot_by_subject.R:168:3 - 2. └─base::stopifnot(is.character(act$val)) - - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 286 ] + • plots/plot-feeding-level.svg + • plots/plot-single-growth-curve.svg + • plots/plot-spectra.svg + • plots/plot-yield-by-gear.svg + • plots/plot-yield.svg + • plots/plotfishing-mortality.svg + • plots/plotfmort-truncated.svg + • plots/plotpredation-mortality.svg Error: Test failures Execution halted ``` -# patientProfilesVis - -
- -* Version: 2.0.9 -* GitHub: https://github.com/openanalytics/patientProfilesVis -* Source code: https://github.com/cran/patientProfilesVis -* Date/Publication: 2024-06-18 09:00:02 UTC -* Number of recursive dependencies: 102 - -Run `revdepcheck::cloud_details(, "patientProfilesVis")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘patientProfiles-template-SDTM.Rmd’ - ... - > patientProfilesPlots <- c(patientProfilesPlots, list(MH = mhPlots)) - - > cmPlots <- subjectProfileIntervalPlot(data = dataAll$CM, - + paramVar = c("CMTRT", "CMDOSE", "CMDOSU", "CMROUTE", "CMDOSFRQ"), - + timeStartVa .... [TRUNCATED] - 171 record(s) with missing Study Day of Start of Medication and 208 record(s) with missing Study Day of End of Medication are imputed with minimal imputation. - - ... - + paramVar = "AETERM", timeStartVar = "AESTDY", timeEndVar = "AEENDY", - + colorVar = " ..." ... [TRUNCATED] - 3 record(s) with missing Study Day of Start of Adverse Event and 19 record(s) with missing Study Day of End of Adverse Event are imputed with minimal imputation. - - When sourcing ‘patientProfilesVis-introduction.R’: - Error: argument is of length zero - Execution halted - - ‘patientProfiles-template-SDTM.Rmd’ using ‘UTF-8’... failed - ‘patientProfilesVis-introduction.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘patientProfiles-template-SDTM.Rmd’ using rmarkdown - - Quitting from lines 129-153 [patientProfiles-concomitantMedications] (patientProfiles-template-SDTM.Rmd) - Error: processing vignette 'patientProfiles-template-SDTM.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘patientProfiles-template-SDTM.Rmd’ - - --- re-building ‘patientProfilesVis-introduction.Rmd’ using rmarkdown - ``` - ## In both -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(patientProfilesVis) - > - > test_check("patientProfilesVis") - [ FAIL 100 | WARN 0 | SKIP 20 | PASS 145 ] - - ══ Skipped tests (20) ══════════════════════════════════════════════════════════ - ... - 11. └─patientProfilesVis (local) .fun(piece, ...) - 12. └─ggplot2:::`+.gg`(...) - 13. └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. ├─ggplot2::ggplot_add(object, p, objectname) - 15. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 100 | WARN 0 | SKIP 20 | PASS 145 ] - Error: Test failures - Execution halted - ``` - * checking installed package size ... NOTE ``` - installed size is 5.7Mb + installed size is 5.5Mb sub-directories of 1Mb or more: - doc 5.2Mb + help 1.8Mb ``` -# PCADSC +# modeltime.resample
-* Version: 0.8.0 -* GitHub: https://github.com/annepetersen1/PCADSC -* Source code: https://github.com/cran/PCADSC -* Date/Publication: 2017-04-19 10:07:43 UTC -* Number of recursive dependencies: 35 +* Version: 0.2.3 +* GitHub: https://github.com/business-science/modeltime.resample +* Source code: https://github.com/cran/modeltime.resample +* Date/Publication: 2023-04-12 15:50:02 UTC +* Number of recursive dependencies: 234 -Run `revdepcheck::cloud_details(, "PCADSC")` for more info +Run `revdepcheck::cloud_details(, "modeltime.resample")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘PCADSC-Ex.R’ failed - The error most likely occurred in: - - > ### Name: CEPlot - > ### Title: Cumulative eigenvalue plot - > ### Aliases: CEPlot - > - > ### ** Examples - > - > #load iris data + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > + > # Machine Learning + > library(tidymodels) + ── Attaching packages ────────────────────────────────────── tidymodels 1.2.0 ── + ✔ broom 1.0.7 ✔ recipes 1.1.0 + ✔ dials 1.3.0 ✔ rsample 1.2.1 ... - > CEPlot(irisPCADSC_fast) - Warning: The `guide` argument in `scale_*()` cannot be `FALSE`. This was deprecated in - ggplot2 3.3.4. - ℹ Please use "none" instead. - ℹ The deprecated feature was likely used in the PCADSC package. - Please report the issue at . - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + ▆ + 1. ├─m750_models_resample %>% ... at test-modeltime_fit_resamples.R:116:5 + 2. └─modeltime.resample::plot_modeltime_resamples(., .interactive = TRUE) + 3. ├─plotly::ggplotly(g) + 4. └─plotly:::ggplotly.ggplot(g) + 5. └─plotly::gg2list(...) + + [ FAIL 1 | WARN 4 | SKIP 0 | PASS 16 ] + Error: Test failures + Execution halted ``` ## In both @@ -19481,120 +11654,94 @@ Run `revdepcheck::cloud_details(, "PCADSC")` for more info * checking dependencies in R code ... NOTE ``` Namespaces in Imports field not imported from: - ‘Matrix’ ‘pander’ + ‘crayon’ ‘dials’ ‘glue’ ‘parsnip’ All declared Imports should be used. ``` -* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘data.table’ - ``` - -* checking LazyData ... NOTE - ``` - 'LazyData' is specified without a 'data' directory - ``` - -# pcutils +# moreparty
-* Version: 0.2.6 -* GitHub: https://github.com/Asa12138/pcutils -* Source code: https://github.com/cran/pcutils -* Date/Publication: 2024-06-25 21:20:05 UTC -* Number of recursive dependencies: 281 +* Version: 0.4 +* GitHub: NA +* Source code: https://github.com/cran/moreparty +* Date/Publication: 2023-11-22 14:30:02 UTC +* Number of recursive dependencies: 163 -Run `revdepcheck::cloud_details(, "pcutils")` for more info +Run `revdepcheck::cloud_details(, "moreparty")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘pcutils-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘Titanic_example.Rmd’ + ... + 24 Age 57 0.3187270 + 25 Embarked Cherbourg 0.4603041 + [ reached 'max' / getOption("max.print") -- omitted 2 rows ] - > ### Name: gghist - > ### Title: gg histogram - > ### Aliases: gghist - > - > ### ** Examples - > - > if (requireNamespace("ggpubr")) { - ... - 12. │ └─ggplot2:::`+.gg`(...) - 13. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 14. │ ├─ggplot2::ggplot_add(object, p, objectname) - 15. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 16. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 17. └─base::.handleSimpleError(...) - 18. └─purrr (local) h(simpleError(msg, call)) - 19. └─cli::cli_abort(...) - 20. └─rlang::abort(...) + > ggForestEffects(pdep, vline = mean(pred_foret), xlab = "Probability of survival") + + + xlim(c(0, 1)) + + When sourcing ‘Titanic_example.R’: + Error: `x` must be a vector, not a object. Execution halted + + ‘Titanic_example.Rmd’ using ‘UTF-8’... failed ``` -# pdxTrees +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘Titanic_example.Rmd’ using rmarkdown + ``` + +# MSPRT
-* Version: 0.4.0 -* GitHub: https://github.com/mcconvil/pdxTrees -* Source code: https://github.com/cran/pdxTrees -* Date/Publication: 2020-08-17 14:00:02 UTC -* Number of recursive dependencies: 105 +* Version: 3.0 +* GitHub: NA +* Source code: https://github.com/cran/MSPRT +* Date/Publication: 2020-11-13 10:20:05 UTC +* Number of recursive dependencies: 76 -Run `revdepcheck::cloud_details(, "pdxTrees")` for more info +Run `revdepcheck::cloud_details(, "MSPRT")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘pdxTrees-vignette.Rmd’ - ... - + y = Pollution_Removal_value, color = Mature_Size)) + geom_point(size = 2, - + .... [TRUNCATED] - - > berkeley_graph + transition_states(states = Mature_Size, - + transition_length = 10, state_length = 8) + enter_grow() + - + exit_shrink() - - When sourcing ‘pdxTrees-vignette.R’: - Error: argument "theme" is missing, with no default - Execution halted - - ‘pdxTrees-vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE +* checking whether package ‘MSPRT’ can be installed ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘pdxTrees-vignette.Rmd’ using rmarkdown + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘MSPRT’ + See ‘/tmp/workdir/MSPRT/new/MSPRT.Rcheck/00install.out’ for details. ``` ## In both -* checking LazyData ... NOTE +* checking dependencies in R code ... NOTE ``` - 'LazyData' is specified without a 'data' directory + Namespaces in Imports field not imported from: + ‘datasets’ ‘grDevices’ ‘graphics’ ‘iterators’ ‘methods’ + All declared Imports should be used. ``` -# personalized +# mtb
-* Version: 0.2.7 -* GitHub: https://github.com/jaredhuling/personalized -* Source code: https://github.com/cran/personalized -* Date/Publication: 2022-06-27 20:20:03 UTC -* Number of recursive dependencies: 94 +* Version: 0.1.8 +* GitHub: https://github.com/yh202109/mtb +* Source code: https://github.com/cran/mtb +* Date/Publication: 2022-10-20 17:22:35 UTC +* Number of recursive dependencies: 63 -Run `revdepcheck::cloud_details(, "personalized")` for more info +Run `revdepcheck::cloud_details(, "mtb")` for more info
@@ -19605,115 +11752,37 @@ Run `revdepcheck::cloud_details(, "personalized")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > Sys.setenv("R_TESTS" = "") > library(testthat) - > library(personalized) - Loading required package: glmnet - Loading required package: Matrix - Loaded glmnet 4.1-8 - Loading required package: mgcv + > library(mtb) + > + > test_check("mtb") + [ FAIL 2 | WARN 13 | SKIP 0 | PASS 56 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ ... - 4. └─personalized:::plot.subgroup_validated(subgrp.val, type = "stability") - 5. ├─plotly::subplot(...) - 6. │ └─plotly:::dots2plots(...) - 7. ├─plotly::ggplotly(p.primary, tooltip = paste0("tooltip", 1:4)) - 8. └─plotly:::ggplotly.ggplot(...) - 9. └─plotly::gg2list(...) + - "yend" [6] + - "xmin" [7] + - "xmax" [8] + - "ymin" [9] + - "ymax" [10] + ... ... ... and 3 more ... - [ FAIL 1 | WARN 2 | SKIP 0 | PASS 215 ] + [ FAIL 2 | WARN 13 | SKIP 0 | PASS 56 ] Error: Test failures Execution halted ``` -# phyloseqGraphTest - -
- -* Version: 0.1.1 -* GitHub: https://github.com/jfukuyama/phyloseqGraphTest -* Source code: https://github.com/cran/phyloseqGraphTest -* Date/Publication: 2024-02-05 19:00:02 UTC -* Number of recursive dependencies: 97 - -Run `revdepcheck::cloud_details(, "phyloseqGraphTest")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘phyloseqGraphTest-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_test_network - > ### Title: Plots the graph used for testing - > ### Aliases: plot_test_network - > - > ### ** Examples - > - > library(phyloseq) - ... - > plot_test_network(gt) - Warning in fortify(data, ...) : - Arguments in `...` must be used. - ✖ Problematic argument: - • layout = layout - ℹ Did you misspell an argument name? - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘gt_vignette.Rmd’ - ... - > plot_test_network(gt) - Warning in fortify(data, ...) : - Arguments in `...` must be used. - ✖ Problematic argument: - • layout = layout - ℹ Did you misspell an argument name? - - When sourcing ‘gt_vignette.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘gt_vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘gt_vignette.Rmd’ using rmarkdown - - Quitting from lines 175-176 [unnamed-chunk-5] (gt_vignette.Rmd) - Error: processing vignette 'gt_vignette.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘gt_vignette.Rmd’ - - SUMMARY: processing the following file failed: - ‘gt_vignette.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -# PieGlyph +# MTLR
-* Version: 1.0.0 -* GitHub: https://github.com/rishvish/PieGlyph -* Source code: https://github.com/cran/PieGlyph -* Date/Publication: 2024-06-28 12:00:02 UTC -* Number of recursive dependencies: 91 +* Version: 0.2.1 +* GitHub: https://github.com/haiderstats/MTLR +* Source code: https://github.com/cran/MTLR +* Date/Publication: 2019-06-03 21:30:03 UTC +* Number of recursive dependencies: 80 -Run `revdepcheck::cloud_details(, "PieGlyph")` for more info +Run `revdepcheck::cloud_details(, "MTLR")` for more info
@@ -19721,98 +11790,47 @@ Run `revdepcheck::cloud_details(, "PieGlyph")` for more info * checking examples ... ERROR ``` - Running examples in ‘PieGlyph-Ex.R’ failed + Running examples in ‘MTLR-Ex.R’ failed The error most likely occurred in: - > ### Name: geom_pie_interactive - > ### Title: Scatter plots with interactive pie-chart glyphs - > ### Aliases: geom_pie_interactive + > ### Name: plotcurves + > ### Title: Graphically Visualize MTLR Survival Curves + > ### Aliases: plotcurves > > ### ** Examples > - > #' ## Load libraries + > #Set up the example: ... - > # One of the interactive aesthetics is tooltip. It is set that by default - > # it shows the value and percentage of each slice in the pie-chart. - > # Hover over any pie-chart in the plot to see this - > plot_obj1 <- ggplot(data = plot_data, aes(x = system, y = response)) + - + geom_pie_interactive(slices = c("A", "B", "C", "D"), - + data = plot_data)+ - + theme_classic() - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > #Note the legend is now gone: + > plotcurves(curves, 1:20) + Warning: Use of `plot_data$value` is discouraged. + ℹ Use `value` instead. + Warning: Use of `plot_data$Index` is discouraged. + ℹ Use `Index` instead. + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` -* checking tests ... ERROR - ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - ... - • geom_pie_interactive/custom-tooltip.svg - • geom_pie_interactive/data-id.svg - • geom_pie_interactive/long-form-data-works.svg - • geom_pie_interactive/multiple-interactive-parameters.svg - • geom_pie_interactive/only-one-attribute.svg - • pie-grob/pie-grob-with-multiple-values-no-fill-works.svg - • pie-grob/pie-grob-with-single-non-zero-value-no-fill-works.svg - • pie-grob/pie-grob-with-single-non-zero-value-works.svg - Error: Test failures - Execution halted - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘PieGlyph.Rmd’ using rmarkdown - ``` - ## In both -* checking running R code from vignettes ... ERROR +* checking LazyData ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘PieGlyph.Rmd’ - ... - + geom_pie_glyph(slices = "Attributes", values = "values") + - + theme_cla .... [TRUNCATED] - - > plot_obj <- ggplot(data = plot_data) + geom_pie_interactive(aes(x = system, - + y = response, data_id = system), slices = c("A", "B", "C", - + .... [TRUNCATED] - - ... - before plotting. - Execution halted - - ‘PieGlyph.Rmd’ using ‘UTF-8’... failed - ‘interactive-pie-glyphs.Rmd’ using ‘UTF-8’... failed - ‘multinomial-classification-example.Rmd’ using ‘UTF-8’... OK - ‘pie-lollipop-example.Rmd’ using ‘UTF-8’... OK - ‘spatial-example.Rmd’ using ‘UTF-8’... OK - ‘time-series-example.Rmd’ using ‘UTF-8’... failed - ‘unusual-situations.Rmd’ using ‘UTF-8’... failed + 'LazyData' is specified without a 'data' directory ``` -# Plasmidprofiler +# mulgar
-* Version: 0.1.6 -* GitHub: NA -* Source code: https://github.com/cran/Plasmidprofiler -* Date/Publication: 2017-01-06 01:10:47 -* Number of recursive dependencies: 90 +* Version: 1.0.2 +* GitHub: https://github.com/dicook/mulgar +* Source code: https://github.com/cran/mulgar +* Date/Publication: 2023-08-25 22:00:02 UTC +* Number of recursive dependencies: 43 -Run `revdepcheck::cloud_details(, "Plasmidprofiler")` for more info +Run `revdepcheck::cloud_details(, "mulgar")` for more info
@@ -19820,238 +11838,199 @@ Run `revdepcheck::cloud_details(, "Plasmidprofiler")` for more info * checking examples ... ERROR ``` - Running examples in ‘Plasmidprofiler-Ex.R’ failed + Running examples in ‘mulgar-Ex.R’ failed The error most likely occurred in: - > ### Name: main - > ### Title: Main: Run everything - > ### Aliases: main + > ### Name: ggmcbic + > ### Title: Produces an mclust summary plot with ggplot + > ### Aliases: ggmcbic > > ### ** Examples > - > main(blastdata, + > require(mclust) ... - Saving 12 x 7 in image - Warning: Vectorized input to `element_text()` is not officially supported. - ℹ Results may be unexpected or may change in future versions of ggplot2. - Warning in geom_tile(aes(x = Plasmid, y = Sample, label = AMR_gene, fill = Inc_group, : - Ignoring unknown aesthetics: label and text - Warning: Use of `report$Sureness` is discouraged. - ℹ Use `Sureness` instead. - Error in pm[[2]] : subscript out of bounds - Calls: main ... -> ggplotly -> ggplotly.ggplot -> gg2list + Type 'citation("mclust")' for citing this R package in publications. + > data(clusters) + > clusters_BIC <- mclustBIC(clusters[,1:5], G=2:6) + > ggmcbic(clusters_BIC) + Warning: Removed 5 rows containing missing values or values outside the scale range + (`geom_line()`). + Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : + invalid line type: must be length 2, 4, 6 or 8 + Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ``` -# platetools - -
- -* Version: 0.1.7 -* GitHub: https://github.com/swarchal/platetools -* Source code: https://github.com/cran/platetools -* Date/Publication: 2024-03-07 16:50:02 UTC -* Number of recursive dependencies: 48 - -Run `revdepcheck::cloud_details(, "platetools")` for more info - -
- -## Newly broken +## In both -* checking tests ... ERROR +* checking installed package size ... NOTE ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(platetools) - > - > test_check("platetools") - [ FAIL 2 | WARN 1 | SKIP 4 | PASS 187 ] - - ══ Skipped tests (4) ═══════════════════════════════════════════════════════════ - ... - length(out96) not equal to length(ggplot()). - 1/1 mismatches - [1] 11 - 10 == 1 - ── Failure ('test-plot_wrapper.R:34:5'): returns expected ggplot object ──────── - names(out96) not equal to names(ggplot()). - Lengths differ: 11 is not 10 - - [ FAIL 2 | WARN 1 | SKIP 4 | PASS 187 ] - Error: Test failures - Execution halted + installed size is 8.8Mb + sub-directories of 1Mb or more: + data 8.5Mb ``` -# PLNmodels +# MultiTraits
-* Version: 1.2.0 -* GitHub: https://github.com/pln-team/PLNmodels -* Source code: https://github.com/cran/PLNmodels -* Date/Publication: 2024-03-05 15:50:03 UTC -* Number of recursive dependencies: 155 +* Version: 0.2.0 +* GitHub: NA +* Source code: https://github.com/cran/MultiTraits +* Date/Publication: 2024-12-21 14:10:02 UTC +* Number of recursive dependencies: 138 -Run `revdepcheck::cloud_details(, "PLNmodels")` for more info +Run `revdepcheck::cloud_details(, "MultiTraits")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘MultiTraits-Ex.R’ failed + The error most likely occurred in: + + > ### Name: CSR_plot + > ### Title: Create a ternary plot of CSR strategies + > ### Aliases: CSR_plot + > + > ### ** Examples + > + > data(PFF) + ... + 3. ├─ggtern::ggplot_build(x) + 4. └─ggtern:::ggplot_build.ggplot(x) + 5. └─ggtern:::layers_add_or_remove_mask(plot) + 6. └─ggint$plot_theme(plot) + 7. └─ggplot2:::validate_theme(theme) + 8. └─base::mapply(...) + 9. └─ggplot2 (local) ``(...) + 10. └─cli::cli_abort(...) + 11. └─rlang::abort(...) + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘PLNPCA.Rmd’ + when running code in ‘MultiTraits_tutorial.Rmd’ ... - 3 "$contrib" "contributions of the individuals" + 4 490 20 16 30.293240 30.891427 38.81533 CSR + 5 51 14 31 4.068212 0.000000 95.93179 R + 6 66 27 13 5.131786 73.958953 20.90926 S/SR - > factoextra::fviz_pca_biplot(myPCA_ICL) + > CSR_plot(data = result, expand_margin = 1) - When sourcing ‘PLNPCA.R’: - Error: ℹ In index: 1. - ℹ With name: y. - ... - ! argument is of length zero + When sourcing ‘MultiTraits_tutorial.R’: + Error: The `tern.axis.ticks.length.major` theme element must be a + object. Execution halted - ‘Import_data.Rmd’ using ‘UTF-8’... OK - ‘PLN.Rmd’ using ‘UTF-8’... OK - ‘PLNLDA.Rmd’ using ‘UTF-8’... OK - ‘PLNPCA.Rmd’ using ‘UTF-8’... failed - ‘PLNmixture.Rmd’ using ‘UTF-8’... failed - ‘PLNnetwork.Rmd’ using ‘UTF-8’... OK - ‘Trichoptera.Rmd’ using ‘UTF-8’... OK + ‘MultiTraits_tutorial.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘Import_data.Rmd’ using rmarkdown - --- finished re-building ‘Import_data.Rmd’ + ... + --- re-building ‘MultiTraits_tutorial.Rmd’ using rmarkdown - --- re-building ‘PLN.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 26.0Mb - sub-directories of 1Mb or more: - R 1.0Mb - data 3.5Mb - doc 2.1Mb - libs 18.6Mb + Quitting from lines 106-120 [unnamed-chunk-4] (MultiTraits_tutorial.Rmd) + Error: processing vignette 'MultiTraits_tutorial.Rmd' failed with diagnostics: + The `tern.axis.ticks.length.major` theme element must be a + object. + --- failed re-building ‘MultiTraits_tutorial.Rmd’ + + SUMMARY: processing the following file failed: + ‘MultiTraits_tutorial.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -# plotBart +# naive
-* Version: 0.1.7 -* GitHub: https://github.com/priism-center/plotBart -* Source code: https://github.com/cran/plotBart -* Date/Publication: 2022-05-27 07:50:06 UTC -* Number of recursive dependencies: 94 +* Version: 1.2.3 +* GitHub: NA +* Source code: https://github.com/cran/naive +* Date/Publication: 2023-06-20 14:30:04 UTC +* Number of recursive dependencies: 108 -Run `revdepcheck::cloud_details(, "plotBart")` for more info +Run `revdepcheck::cloud_details(, "naive")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘naive’ can be installed ... WARNING ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(vdiffr) - > library(plotBart) - Loading required package: bartCause - Loading required package: ggplot2 - > - > test_check("plotBart") # run tests - ... - • plots/mod-search.svg - • plots/overlappscoresdensity.svg - • plots/overlapvarsdensity.svg - • plots/pate.svg - • plots/sate.svg - • plots/supportchi.svg - • plots/supportsd.svg - • plots/waterfall2.svg - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘naive’ + See ‘/tmp/workdir/naive/new/naive.Rcheck/00install.out’ for details. ``` -# plotDK +# neatmaps
-* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/plotDK -* Date/Publication: 2021-10-01 08:00:02 UTC -* Number of recursive dependencies: 86 +* Version: 2.1.0 +* GitHub: https://github.com/PhilBoileau/neatmaps +* Source code: https://github.com/cran/neatmaps +* Date/Publication: 2019-05-12 19:10:03 UTC +* Number of recursive dependencies: 99 -Run `revdepcheck::cloud_details(, "plotDK")` for more info +Run `revdepcheck::cloud_details(, "neatmaps")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(plotDK) - > - > test_check("plotDK") - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ + Running examples in ‘neatmaps-Ex.R’ failed + The error most likely occurred in: + + > ### Name: consClustResTable + > ### Title: Consensus Cluster Results in a Table + > ### Aliases: consClustResTable + > + > ### ** Examples + > + > # create the data frame using the network, node and edge attributes ... - Error in `expect_setequal(c("x", "y", "group", "subgroup", "text", "fill"), - names(labels))`: `object` and `expected` must both be vectors - Backtrace: - ▆ - 1. └─testthat::expect_setequal(c("x", "y", "group", "subgroup", "text", "fill"), names(labels)) at test-plotDK.R:67:5 - 2. └─rlang::abort("`object` and `expected` must both be vectors") - - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] - Error: Test failures - Execution halted + > df <- netsDataFrame(network_attr_df, + + node_attr_df, + + edge_df) + > + > # run the neatmap code on df + > neat_res <- neatmap(df, scale_df = "ecdf", max_k = 3, reps = 100, + + xlab = "vars", ylab = "nets", xlab_cex = 1, ylab_cex = 1) + Error in pm[[2]] : subscript out of bounds + Calls: neatmap ... %>% -> layout -> ggplotly -> ggplotly.ggplot -> gg2list + Execution halted ``` ## In both -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘mapproj’ - All declared Imports should be used. - ``` - -* checking data for non-ASCII characters ... NOTE +* checking installed package size ... NOTE ``` - Note: found 12992 marked UTF-8 strings + installed size is 6.3Mb ``` -# plotly +# NetFACS
-* Version: 4.10.4 -* GitHub: https://github.com/plotly/plotly.R -* Source code: https://github.com/cran/plotly -* Date/Publication: 2024-01-13 22:40:02 UTC -* Number of recursive dependencies: 148 +* Version: 0.5.0 +* GitHub: NA +* Source code: https://github.com/cran/NetFACS +* Date/Publication: 2022-12-06 17:32:35 UTC +* Number of recursive dependencies: 100 -Run `revdepcheck::cloud_details(, "plotly")` for more info +Run `revdepcheck::cloud_details(, "NetFACS")` for more info
@@ -20059,75 +12038,59 @@ Run `revdepcheck::cloud_details(, "plotly")` for more info * checking examples ... ERROR ``` - Running examples in ‘plotly-Ex.R’ failed + Running examples in ‘NetFACS-Ex.R’ failed The error most likely occurred in: - > ### Name: style - > ### Title: Modify trace(s) - > ### Aliases: style + > ### Name: network_conditional + > ### Title: Create a network based on conditional probabilities of dyads of + > ### elements + > ### Aliases: network_conditional > > ### ** Examples > - > ## Don't show: - ... - + # this clobbers the previously supplied marker.line.color - + style(p, marker.line = list(width = 2.5), marker.size = 10) - + ## Don't show: - + }) # examplesIf - > (p <- ggplotly(qplot(data = mtcars, wt, mpg, geom = c("point", "smooth")))) - Warning: `qplot()` was deprecated in ggplot2 3.4.0. - `geom_smooth()` using method = 'loess' and formula = 'y ~ x' - Error in pm[[2]] : subscript out of bounds - Calls: ... eval -> eval -> ggplotly -> ggplotly.ggplot -> gg2list - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library("testthat") - > library("plotly") - Loading required package: ggplot2 - - Attaching package: 'plotly' - - The following object is masked from 'package:ggplot2': ... - • plotly-subplot/subplot-bump-axis-annotation.svg - • plotly-subplot/subplot-bump-axis-image.svg - • plotly-subplot/subplot-bump-axis-shape-shared.svg - • plotly-subplot/subplot-bump-axis-shape.svg - • plotly-subplot/subplot-reposition-annotation.svg - • plotly-subplot/subplot-reposition-image.svg - • plotly-subplot/subplot-reposition-shape-fixed.svg - • plotly-subplot/subplot-reposition-shape.svg - Error: Test failures - Execution halted + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Error in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + invalid font type + Calls: ... drawDetails -> drawDetails.text -> grid.Call.graphics + Execution halted ``` -## In both - -* checking installed package size ... NOTE +* checking running R code from vignettes ... ERROR ``` - installed size is 7.1Mb - sub-directories of 1Mb or more: - R 1.0Mb - htmlwidgets 4.0Mb + Errors in running code in vignettes: + when running code in ‘netfacs_tutorial.Rmd’ + ... + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + + When sourcing ‘netfacs_tutorial.R’: + Error: invalid font type + Execution halted + + ‘netfacs_tutorial.Rmd’ using ‘UTF-8’... failed ``` -# pmartR +# NHSRplotthedots
-* Version: 2.4.5 -* GitHub: https://github.com/pmartR/pmartR -* Source code: https://github.com/cran/pmartR -* Date/Publication: 2024-05-21 15:50:02 UTC -* Number of recursive dependencies: 148 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/NHSRplotthedots +* Date/Publication: 2021-11-03 20:20:10 UTC +* Number of recursive dependencies: 87 -Run `revdepcheck::cloud_details(, "pmartR")` for more info +Run `revdepcheck::cloud_details(, "NHSRplotthedots")` for more info
@@ -20135,221 +12098,209 @@ Run `revdepcheck::cloud_details(, "pmartR")` for more info * checking tests ... ERROR ``` + Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(pmartR) + > library(NHSRplotthedots) > - > test_check("pmartR") - [ FAIL 1 | WARN 1 | SKIP 11 | PASS 2375 ] + > test_check("NHSRplotthedots") + [ FAIL 1 | WARN 733 | SKIP 3 | PASS 431 ] - ══ Skipped tests (11) ══════════════════════════════════════════════════════════ ... - • plots/plot-spansres-color-high-color-low.svg - • plots/plot-spansres.svg - • plots/plot-statres-anova-volcano.svg - • plots/plot-statres-anova.svg - • plots/plot-statres-combined-volcano.svg - • plots/plot-statres-combined.svg - • plots/plot-statres-gtest.svg - • plots/plot-totalcountfilt.svg + + `actual$type` is absent + `expected$type` is a character vector ('type') + + `actual$text` is absent + `expected$text` is a character vector ('text') + + [ FAIL 1 | WARN 733 | SKIP 3 | PASS 431 ] Error: Test failures Execution halted ``` ## In both -* checking installed package size ... NOTE +* checking dependencies in R code ... NOTE ``` - installed size is 10.8Mb - sub-directories of 1Mb or more: - R 1.5Mb - help 1.5Mb - libs 6.7Mb + Namespaces in Imports field not imported from: + ‘NHSRdatasets’ ‘grid’ ‘utils’ + All declared Imports should be used. ``` -# pmxTools +# nichetools
-* Version: 1.3 -* GitHub: https://github.com/kestrel99/pmxTools -* Source code: https://github.com/cran/pmxTools -* Date/Publication: 2023-02-21 16:00:08 UTC -* Number of recursive dependencies: 85 +* Version: 0.3.2 +* GitHub: https://github.com/benjaminhlina/nichetools +* Source code: https://github.com/cran/nichetools +* Date/Publication: 2024-09-30 21:20:02 UTC +* Number of recursive dependencies: 118 -Run `revdepcheck::cloud_details(, "pmxTools")` for more info +Run `revdepcheck::cloud_details(, "nichetools")` for more info
## Newly broken -* checking tests ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(pmxTools) - Loading required package: patchwork - > - > test_check("pmxTools") - [ FAIL 1 | WARN 1 | SKIP 12 | PASS 110 ] - - ... - 24. └─handlers[[1L]](cnd) - 25. └─cli::cli_abort(...) - 26. └─rlang::abort(...) - - [ FAIL 1 | WARN 1 | SKIP 12 | PASS 110 ] - Deleting unused snapshots: - • plot/conditioned-distplot.svg - • plot/perc.svg - Error: Test failures - Execution halted + Errors in running code in vignettes: + when running code in ‘using-nichetools-with-the-package-SIBER.Rmd’ + ... + + option = "A", alpha = 0.75) + + > ggplot() + stat_pointinterval(data = bays_95_overlap, + + aes(x = group_1, y = prop_overlap, point_fill = group_2), + + interval_colour = "gre ..." ... [TRUNCATED] + + When sourcing ‘using-nichetools-with-the-package-SIBER.R’: + Error: unused argument (theme = list(list("black", 0.681818181818182, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.681818181818182, 1, TRUE), list("", "plain", "black", 15, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.681818181818182, 0.681818181818182, 1, 1, "", 5.27189705271897, 2.04545454545455, 19, TRUE), 7.5, c(7.5, 7.5, 7.5, 7.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, + NULL, c(3.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NU + Execution halted + + ‘using-nichetools-with-the-package-SIBER.Rmd’ using ‘UTF-8’... failed + ‘using-nichetools-with-the-package-nicheROVER.Rmd’ using ‘UTF-8’... OK ``` -## In both - -* checking Rd cross-references ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - Package unavailable to check Rd xrefs: ‘DiagrammeR’ + Error(s) in re-building vignettes: + --- re-building ‘using-nichetools-with-the-package-SIBER.Rmd’ using rmarkdown ``` -# posterior +# NIMAA
-* Version: 1.6.0 -* GitHub: https://github.com/stan-dev/posterior -* Source code: https://github.com/cran/posterior -* Date/Publication: 2024-07-03 23:00:02 UTC -* Number of recursive dependencies: 119 +* Version: 0.2.1 +* GitHub: https://github.com/jafarilab/NIMAA +* Source code: https://github.com/cran/NIMAA +* Date/Publication: 2022-04-11 14:12:45 UTC +* Number of recursive dependencies: 180 -Run `revdepcheck::cloud_details(, "posterior")` for more info +Run `revdepcheck::cloud_details(, "NIMAA")` for more info
## Newly broken -* checking re-building of vignette outputs ... NOTE +* checking examples ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘pareto_diagnostics.Rmd’ using rmarkdown - --- finished re-building ‘pareto_diagnostics.Rmd’ - - --- re-building ‘posterior.Rmd’ using rmarkdown - --- finished re-building ‘posterior.Rmd’ - - --- re-building ‘rvar.Rmd’ using rmarkdown + Running examples in ‘NIMAA-Ex.R’ failed + The error most likely occurred in: - Quitting from lines 530-533 [mixture] (rvar.Rmd) + > ### Name: extractSubMatrix + > ### Title: Extract the non-missing submatrices from a given matrix. + > ### Aliases: extractSubMatrix + > + > ### ** Examples + > + > # load part of the beatAML data ... - NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("grey92", NA, NULL, NULL, TRUE), list(), NULL, NULL, NULL, list("white", NULL, NULL, NULL, FALSE, - "white", TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("grey85", - NA, NULL, NULL, TRUE), NULL, NULL, "on", "inside", list(NULL, NULL, "grey10", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) - --- failed re-building ‘rvar.Rmd’ - - SUMMARY: processing the following file failed: - ‘rvar.Rmd’ - - Error: Vignette re-building failed. + + row.vars = "inhibitor") + binmatnest.temperature + 13.21221 + Size of Square: 66 rows x 66 columns + Size of Rectangular_row: 6 rows x 105 columns + Size of Rectangular_col: 99 rows x 2 columns + Size of Rectangular_element_max: 59 rows x 79 columns + Error in pm[[2]] : subscript out of bounds + Calls: extractSubMatrix ... plotSubmatrix -> print -> -> ggplotly.ggplot -> gg2list Execution halted ``` -## In both +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(NIMAA) + Warning message: + In check_dep_version() : ABI version mismatch: + lme4 was built with Matrix ABI version 1 + Current Matrix ABI version is 0 + Please re-install lme4 from source or restore original 'Matrix' package + ... + 1. └─NIMAA::extractSubMatrix(...) at test-extract-nonmissing-submatrix.R:5:3 + 2. └─NIMAA:::plotSubmatrix(...) + 3. ├─base::print(plotly::ggplotly(p)) + 4. ├─plotly::ggplotly(p) + 5. └─plotly:::ggplotly.ggplot(p) + 6. └─plotly::gg2list(...) + + [ FAIL 1 | WARN 8 | SKIP 0 | PASS 7 ] + Error: Test failures + Execution halted + ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘rvar.Rmd’ + when running code in ‘NIMAA-vignette.Rmd’ ... - > y - rvar<4000>[3] mean ± sd: - [1] 3.00 ± 1.00 2.02 ± 0.99 0.96 ± 0.99 - > X + y + > beatAML_incidence_matrix <- plotIncMatrix(x = beatAML_data, + + index_nominal = c(2, 1), index_numeric = 3, print_skim = FALSE, + + plot_weigh .... [TRUNCATED] - When sourcing ‘rvar.R’: - Error: Cannot broadcast array of shape [4000,3,1] to array of shape [4000,4,3]: - All dimensions must be 1 or equal. + Na/missing values Proportion: 0.2603 + + When sourcing ‘NIMAA-vignette.R’: + Error: subscript out of bounds Execution halted - ‘pareto_diagnostics.Rmd’ using ‘UTF-8’... OK - ‘posterior.Rmd’ using ‘UTF-8’... OK - ‘rvar.Rmd’ using ‘UTF-8’... failed + ‘NIMAA-vignette.Rmd’ using ‘UTF-8’... failed ``` -# PPQplan - -
- -* Version: 1.1.0 -* GitHub: https://github.com/allenzhuaz/PPQplan -* Source code: https://github.com/cran/PPQplan -* Date/Publication: 2020-10-08 04:30:06 UTC -* Number of recursive dependencies: 119 - -Run `revdepcheck::cloud_details(, "PPQplan")` for more info - -
- -## Newly broken - * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘PPQnote.Rmd’ using rmarkdown - --- finished re-building ‘PPQnote.Rmd’ - - --- re-building ‘PPQplan-vignette.Rmd’ using rmarkdown - ``` - -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘PPQplan-vignette.Rmd’ ... + --- re-building ‘NIMAA-vignette.Rmd’ using rmarkdown - > devtools::load_all() + Quitting from lines 49-57 [plotIncMatrix function] (NIMAA-vignette.Rmd) + Error: processing vignette 'NIMAA-vignette.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘NIMAA-vignette.Rmd’ - When sourcing ‘PPQplan-vignette.R’: - Error: Could not find a root 'DESCRIPTION' file that starts with '^Package' in - '/tmp/RtmpeoIsxA/file11156538c652/vignettes'. - ℹ Are you in your project directory and does your project have a 'DESCRIPTION' - file? - Execution halted + SUMMARY: processing the following file failed: + ‘NIMAA-vignette.Rmd’ - ‘PPQnote.Rmd’ using ‘UTF-8’... OK - ‘PPQplan-vignette.Rmd’ using ‘UTF-8’... failed + Error: Vignette re-building failed. + Execution halted ``` +## In both + * checking installed package size ... NOTE ``` - installed size is 12.1Mb + installed size is 6.5Mb sub-directories of 1Mb or more: - doc 12.0Mb + data 2.0Mb + doc 4.0Mb ``` -* checking LazyData ... NOTE +* checking data for non-ASCII characters ... NOTE ``` - 'LazyData' is specified without a 'data' directory + Note: found 24 marked UTF-8 strings ``` -# ppseq +# nuts
-* Version: 0.2.5 -* GitHub: https://github.com/zabore/ppseq -* Source code: https://github.com/cran/ppseq -* Date/Publication: 2024-09-04 22:20:02 UTC -* Number of recursive dependencies: 104 +* Version: 1.1.0 +* GitHub: https://github.com/ropensci/nuts +* Source code: https://github.com/cran/nuts +* Date/Publication: 2024-07-13 10:50:02 UTC +* Number of recursive dependencies: 167 -Run `revdepcheck::cloud_details(, "ppseq")` for more info +Run `revdepcheck::cloud_details(, "nuts")` for more info
@@ -20358,50 +12309,66 @@ Run `revdepcheck::cloud_details(, "ppseq")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘one_sample_expansion.Rmd’ + when running code in ‘nuts.Rmd’ ... - - - - - > ptest <- plot(one_sample_cal_tbl, type1_range = c(0.05, - + 0.1), minimum_power = 0.7, plotly = TRUE) - ... + > no_changes <- unique(c(no_changes$from_code, no_changes$to_code)) - > ptest <- plot(two_sample_cal_tbl, type1_range = c(0.05, - + 0.1), minimum_power = 0.7, plotly = TRUE) + > gg_2006 = ggplot() + geom_sf(data = no_2006, aes(fill = values), + + color = "grey", linewidth = 0.5) + geom_sf(data = filter(no_2006, + + NUT .... [TRUNCATED] - When sourcing ‘two_sample_randomized.R’: - Error: subscript out of bounds + When sourcing ‘nuts.R’: + Error: unused arguments (high = "#132B43", low = "#56B1F7") Execution halted - ‘one_sample_expansion.Rmd’ using ‘UTF-8’... failed - ‘two_sample_randomized.Rmd’ using ‘UTF-8’... failed + ‘nuts.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘one_sample_expansion.Rmd’ using rmarkdown - - Quitting from lines 183-188 [unnamed-chunk-13] (one_sample_expansion.Rmd) - Error: processing vignette 'one_sample_expansion.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘one_sample_expansion.Rmd’ + --- re-building ‘nuts.Rmd’ using knitr + ``` + +# nzelect + +
+ +* Version: 0.4.0 +* GitHub: NA +* Source code: https://github.com/cran/nzelect +* Date/Publication: 2017-10-02 20:35:23 UTC +* Number of recursive dependencies: 82 + +Run `revdepcheck::cloud_details(, "nzelect")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘nzelect-Ex.R’ failed + The error most likely occurred in: - --- re-building ‘two_sample_randomized.Rmd’ using rmarkdown + > ### Name: polls + > ### Title: New Zealand Opinion Polls + > ### Aliases: polls + > ### Keywords: datasets + > + > ### ** Examples + > ... - Quitting from lines 179-184 [unnamed-chunk-13] (two_sample_randomized.Rmd) - Error: processing vignette 'two_sample_randomized.Rmd' failed with diagnostics: - subscript out of bounds - --- failed re-building ‘two_sample_randomized.Rmd’ - - SUMMARY: processing the following files failed: - ‘one_sample_expansion.Rmd’ ‘two_sample_randomized.Rmd’ - - Error: Vignette re-building failed. + ℹ This can happen when ggplot fails to infer the correct grouping structure in + the data. + ℹ Did you forget to specify a `group` aesthetic or to convert a numerical + variable into a factor? + Warning: Removed 159 rows containing missing values or values outside the scale range + (`geom_line()`). + Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : + invalid line type: must be length 2, 4, 6 or 8 + Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics Execution halted ``` @@ -20409,22 +12376,27 @@ Run `revdepcheck::cloud_details(, "ppseq")` for more info * checking installed package size ... NOTE ``` - installed size is 11.0Mb + installed size is 5.3Mb sub-directories of 1Mb or more: - doc 10.5Mb + data 5.0Mb + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 6409 marked UTF-8 strings ``` -# PPtreeregViz +# oddsratio
-* Version: 2.0.5 -* GitHub: https://github.com/sunsmiling/PPtreeregViz -* Source code: https://github.com/cran/PPtreeregViz -* Date/Publication: 2022-12-23 19:20:05 UTC -* Number of recursive dependencies: 125 +* Version: 2.0.1 +* GitHub: https://github.com/pat-s/oddsratio +* Source code: https://github.com/cran/oddsratio +* Date/Publication: 2020-05-24 22:00:02 UTC +* Number of recursive dependencies: 62 -Run `revdepcheck::cloud_details(, "PPtreeregViz")` for more info +Run `revdepcheck::cloud_details(, "oddsratio")` for more info
@@ -20432,67 +12404,95 @@ Run `revdepcheck::cloud_details(, "PPtreeregViz")` for more info * checking examples ... ERROR ``` - Running examples in ‘PPtreeregViz-Ex.R’ failed + Running examples in ‘oddsratio-Ex.R’ failed The error most likely occurred in: - > ### Name: PPregNodeViz - > ### Title: Node visualization - > ### Aliases: PPregNodeViz - > ### Keywords: tree + > ### Name: insert_or + > ### Title: Insert odds ratios of GAM(M)s into smoothing function + > ### Aliases: insert_or > > ### ** Examples > - > data(dataXY) - > Model <- PPTreereg(Y~., data = dataXY, DEPTH = 2) - > PPregNodeViz(Model,node.id=1) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: PPregNodeViz ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > library(oddsratio) + ... + 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) + 6. └─ggplot2:::new_layer_names(object, names(plot$layers)) + 7. └─vctrs::vec_as_names(names, repair = "check_unique") + 8. └─vctrs (local) ``() + 9. └─vctrs:::validate_unique(names = names, arg = arg, call = call) + 10. └─vctrs:::stop_names_cannot_be_empty(names, call = call) + 11. └─vctrs:::stop_names(...) + 12. └─vctrs:::stop_vctrs(...) + 13. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘PPtreeregViz.Rmd’ + when running code in ‘oddsratio.Rmd’ ... + + pred = "x2", values = c(0.4, 0.6)) - > plot(Tree.Imp) - - > plot(Tree.Imp, marginal = TRUE, num_var = 5) - - > PPregNodeViz(Model, node.id = 1) + > insert_or(plot, or_object2, or_yloc = 2.1, values_yloc = 2, + + line_col = "green4", text_col = "black", rect_col = "green4", + + rect_alpha = .... [TRUNCATED] - When sourcing ‘PPtreeregViz.R’: - Error: argument is of length zero + When sourcing ‘oddsratio.R’: + Error: Names can't be empty. + ✖ Empty name found at location 1. Execution halted - ‘PPtreeregViz.Rmd’ using ‘UTF-8’... failed + ‘oddsratio.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘PPtreeregViz.Rmd’ using rmarkdown + --- re-building ‘oddsratio.Rmd’ using rmarkdown ``` ## In both -* checking C++ specification ... NOTE +* checking Rd cross-references ... NOTE ``` - Specified C++11: please drop specification unless essential + Package unavailable to check Rd xrefs: ‘gam’ ``` -# precintcon +# OenoKPM
-* Version: 2.3.0 -* GitHub: https://github.com/lucasvenez/precintcon -* Source code: https://github.com/cran/precintcon -* Date/Publication: 2016-07-17 13:49:19 -* Number of recursive dependencies: 28 +* Version: 2.4.1 +* GitHub: NA +* Source code: https://github.com/cran/OenoKPM +* Date/Publication: 2024-04-08 19:20:10 UTC +* Number of recursive dependencies: 74 -Run `revdepcheck::cloud_details(, "precintcon")` for more info +Run `revdepcheck::cloud_details(, "OenoKPM")` for more info + +
+ +## Newly broken + +* checking whether package ‘OenoKPM’ can be installed ... WARNING + ``` + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘OenoKPM’ + See ‘/tmp/workdir/OenoKPM/new/OenoKPM.Rcheck/00install.out’ for details. + ``` + +# ofpetrial + +
+ +* Version: 0.1.2 +* GitHub: https://github.com/DIFM-Brain/ofpetrial +* Source code: https://github.com/cran/ofpetrial +* Date/Publication: 2024-12-11 23:00:02 UTC +* Number of recursive dependencies: 140 + +Run `revdepcheck::cloud_details(, "ofpetrial")` for more info
@@ -20500,90 +12500,142 @@ Run `revdepcheck::cloud_details(, "precintcon")` for more info * checking examples ... ERROR ``` - Running examples in ‘precintcon-Ex.R’ failed + Running examples in ‘ofpetrial-Ex.R’ failed The error most likely occurred in: - > ### Name: pplot.deciles - > ### Title: Plot deciles - > ### Aliases: pplot.deciles precintcon.plot.deciles - > ### Keywords: deciles precipitation + > ### Name: check_ortho_with_chars + > ### Title: Check the orthogonality with field/topographic characteristics + > ### Aliases: check_ortho_with_chars > > ### ** Examples > + > data(td_single_input) ... - 9. │ └─layout$setup(data, plot$data, plot$plot_env) - 10. │ └─ggplot2 (local) setup(..., self = self) - 11. │ └─base::lapply(...) - 12. │ └─ggplot2 (local) FUN(X[[i]], ...) - 13. │ └─ggplot2::map_data(...) - 14. │ └─vctrs::vec_slice(data, facet_vals$.index) - 15. └─vctrs:::stop_scalar_type(``(``), "x", ``) - 16. └─vctrs:::stop_vctrs(...) - 17. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) + 30. └─plt$build() + 31. └─private$addLimits(margThemed) + 32. └─ggplot2::scale_x_continuous(limits = limits, oob = scales::squish) + 33. └─ggplot2::continuous_scale(...) + 34. └─ggplot2:::check_continuous_limits(limits, call = call) + 35. └─ggplot2:::check_numeric(limits, arg = arg, call = call, allow_na = TRUE) + 36. └─ggplot2:::check_object(x, is.numeric, what, ..., arg = arg, call = call) + 37. └─ggplot2:::stop_input_type(...) + 38. └─rlang::abort(message, ..., call = call, arg = arg) Execution halted ``` -# precrec +# OmicNavigator
-* Version: 0.14.4 -* GitHub: https://github.com/evalclass/precrec -* Source code: https://github.com/cran/precrec -* Date/Publication: 2023-10-11 22:10:02 UTC -* Number of recursive dependencies: 71 +* Version: 1.13.13 +* GitHub: https://github.com/abbvie-external/OmicNavigator +* Source code: https://github.com/cran/OmicNavigator +* Date/Publication: 2023-08-25 20:40:02 UTC +* Number of recursive dependencies: 88 -Run `revdepcheck::cloud_details(, "precrec")` for more info +Run `revdepcheck::cloud_details(, "OmicNavigator")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘introduction.Rmd’ - ... - > autoplot(mscurves) - Warning in ggplot2::fortify(object, raw_curves = raw_curves, reduce_points = reduce_points) : - Arguments in `...` must be used. - ✖ Problematic argument: - • raw_curves = raw_curves - ℹ Did you misspell an argument name? + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. + Complete output: + > # Test files in inst/tinytest/ + > if (requireNamespace("tinytest", quietly = TRUE)) { + + suppressMessages(tinytest::test_package("OmicNavigator")) + + } + + testAdd.R..................... 0 tests + testAdd.R..................... 0 tests + ... + testPlot.R.................... 140 tests OK + testPlot.R.................... 140 tests OK + testPlot.R.................... 141 tests OK + testPlot.R.................... 141 tests OK + testPlot.R.................... 141 tests OK + testPlot.R.................... 142 tests OK + testPlot.R.................... 142 tests OK + testPlot.R.................... 143 tests OK Error in pm[[2]] : subscript out of bounds + Calls: suppressMessages ... plotStudy -> f -> -> ggplotly.ggplot -> gg2list + Execution halted + ``` + +## In both + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘OmicNavigatorAPI.Rnw’ using Sweave + OmicNavigator R package version: 1.13.13 + The app is not installed. Install it with installApp() + Installing study "ABC" in /tmp/RtmpvCA7DM/file22cf185b60ba + Exporting study "ABC" as an R package + Note: No maintainer email was specified. Using the placeholder: Unknown + Calculating pairwise overlaps. This may take a while... + Exported study to /tmp/RtmpvCA7DM/ONstudyABC + Success! + ... + l.14 ^^M + + ! ==> Fatal error occurred, no output PDF file produced! + --- failed re-building ‘OmicNavigatorUsersGuide.Rnw’ - When sourcing ‘introduction.R’: - Error: object is not a unit - Execution halted + SUMMARY: processing the following files failed: + ‘OmicNavigatorAPI.Rnw’ ‘OmicNavigatorUsersGuide.Rnw’ - ‘introduction.Rmd’ using ‘UTF-8’... failed + Error: Vignette re-building failed. + Execution halted ``` -* checking re-building of vignette outputs ... NOTE +# onemap + +
+ +* Version: 3.2.0 +* GitHub: https://github.com/Cristianetaniguti/onemap +* Source code: https://github.com/cran/onemap +* Date/Publication: 2025-01-10 16:20:05 UTC +* Number of recursive dependencies: 174 + +Run `revdepcheck::cloud_details(, "onemap")` for more info + +
+ +## Newly broken + +* checking whether package ‘onemap’ can be installed ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘introduction.Rmd’ using rmarkdown + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘onemap’ + See ‘/tmp/workdir/onemap/new/onemap.Rcheck/00install.out’ for details. ``` ## In both * checking installed package size ... NOTE ``` - installed size is 6.6Mb + installed size is 9.6Mb sub-directories of 1Mb or more: - libs 4.3Mb + R 1.5Mb + doc 2.2Mb + libs 4.6Mb ``` -# priorsense +# OneSampleLogRankTest
-* Version: 1.0.2 +* Version: 0.9.2 * GitHub: NA -* Source code: https://github.com/cran/priorsense -* Date/Publication: 2024-07-16 10:30:02 UTC -* Number of recursive dependencies: 113 +* Source code: https://github.com/cran/OneSampleLogRankTest +* Date/Publication: 2024-02-03 12:30:15 UTC +* Number of recursive dependencies: 110 -Run `revdepcheck::cloud_details(, "priorsense")` for more info +Run `revdepcheck::cloud_details(, "OneSampleLogRankTest")` for more info
@@ -20591,121 +12643,132 @@ Run `revdepcheck::cloud_details(, "priorsense")` for more info * checking examples ... ERROR ``` - Running examples in ‘priorsense-Ex.R’ failed + Running examples in ‘OneSampleLogRankTest-Ex.R’ failed The error most likely occurred in: - > ### Name: powerscale_plots - > ### Title: Diagnostic plots for power-scaling sensitivity - > ### Aliases: powerscale_plots powerscale_plot_dens powerscale_plot_ecdf - > ### powerscale_plot_ecdf.powerscaled_sequence powerscale_plot_quantities - > ### powerscale_plot_quantities.powerscaled_sequence + > ### Name: plotKM + > ### Title: Plot Kaplan-Meier Curve against Population + > ### Aliases: plotKM > > ### ** Examples > - > ex <- example_powerscale_model() + > # load data + ... + > data(dataSurv_small) + > data(dataPop_2018_2021) > - > powerscale_plot_dens(ex$draws) - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, - Calls: ... -> -> compute_geom_2 -> + > plotKM(dataSurv_small, dataPop_2018_2021, type = "exact") + Warning: Ignoring unknown labels: + • `fill = ""` + • `linetype = "1"` + Error in theme + adjust : non-numeric argument to binary operator + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘powerscaling.Rmd’ + when running code in ‘oneSampleLogRankTest.Rmd’ ... - - 1 mu 0.435 0.644 prior-data conflict - 2 sigma 0.361 0.677 prior-data conflict - > powerscale_plot_dens(fit, variable = "mu", facet_rows = "variable") - When sourcing ‘powerscaling.R’: - Error: unused argument (theme = list(list("black", 0.545454545454545, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.545454545454545, 1, TRUE), list("sans", "plain", "black", 12, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.545454545454545, 0.545454545454545, 1, 1, "sans", 4.21751764217518, 1.63636363636364, 19, TRUE), 6, c(6, 6, 6, 6), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, - NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NU + > plotKM(dataSurv, dataPop_2018_2021_race_sex_eth, type = "approximate") + Warning: Ignoring unknown labels: + • `fill = ""` + • `linetype = "1"` + + When sourcing ‘oneSampleLogRankTest.R’: + Error: non-numeric argument to binary operator Execution halted - ‘powerscaling.Rmd’ using ‘UTF-8’... failed + ‘oneSampleLogRankTest.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘powerscaling.Rmd’ using rmarkdown + --- re-building ‘oneSampleLogRankTest.Rmd’ using rmarkdown - Quitting from lines 124-125 [unnamed-chunk-7] (powerscaling.Rmd) - Error: processing vignette 'powerscaling.Rmd' failed with diagnostics: - unused argument (theme = list(list("black", 0.545454545454545, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.545454545454545, 1, TRUE), list("sans", "plain", "black", 12, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.545454545454545, 0.545454545454545, 1, 1, "sans", 4.21751764217518, 1.63636363636364, 19, TRUE), 6, c(6, 6, 6, 6), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, - NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.4, 0), - NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.4), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.4, 0, 2.4), NULL, TRUE), list("grey20", 0.3, NULL, NULL, FALSE, "grey20", FALSE), NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, 0.4, NULL, NULL, FALSE, NULL, FALSE), - NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, list(), NULL, 2, NULL, NULL, list(), 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 13, 0, NULL, NULL, NULL, NULL, NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list(), list(), 1.5, NULL, NULL, list(), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, - NULL, NULL, FALSE, list(), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 6, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 6, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(6, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list(), NULL, NULL, "on", "outside", list(NULL, NULL, "grey10", 0.9, NULL, NULL, NULL, NULL, c(4.8, 4.8, 4.8, 4.8), NULL, FALSE), NULL, NULL, - NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 3, 3, list(), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, 0.5, 0.5, 0, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), 0.666666666666667, 0.333333333333333)) - --- failed re-building ‘powerscaling.Rmd’ + Quitting from lines 74-77 [unnamed-chunk-3] (oneSampleLogRankTest.Rmd) + Error: processing vignette 'oneSampleLogRankTest.Rmd' failed with diagnostics: + non-numeric argument to binary operator + --- failed re-building ‘oneSampleLogRankTest.Rmd’ SUMMARY: processing the following file failed: - ‘powerscaling.Rmd’ + ‘oneSampleLogRankTest.Rmd’ Error: Vignette re-building failed. Execution halted ``` -# probably +# ordbetareg
-* Version: 1.0.3 -* GitHub: https://github.com/tidymodels/probably -* Source code: https://github.com/cran/probably -* Date/Publication: 2024-02-23 03:20:02 UTC -* Number of recursive dependencies: 132 +* Version: 0.7.2 +* GitHub: https://github.com/saudiwin/ordbetareg_pack +* Source code: https://github.com/cran/ordbetareg +* Date/Publication: 2023-08-10 07:30:02 UTC +* Number of recursive dependencies: 177 -Run `revdepcheck::cloud_details(, "probably")` for more info +Run `revdepcheck::cloud_details(, "ordbetareg")` for more info
## Newly broken -* checking tests ... ERROR +* checking examples ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files + Running examples in ‘ordbetareg-Ex.R’ failed + The error most likely occurred in: + + > ### Name: pp_check_ordbeta + > ### Title: Accurate Posterior Predictive Plots for Ordbetareg Models + > ### Aliases: pp_check_ordbeta + > + > ### ** Examples + > + > ... - - `actual$ymin` is absent - `expected$ymin` is a character vector ('lower') - - `actual$ymax` is absent - `expected$ymax` is a character vector ('upper') - - [ FAIL 2 | WARN 0 | SKIP 46 | PASS 466 ] - Error: Test failures - Execution halted + 16. │ └─ggplot2 (local) setup_params(...) + 17. │ └─ggplot2:::make_summary_fun(...) + 18. │ └─rlang::as_function(fun.data) + 19. │ └─base::get(x, envir = env, mode = "function") + 20. └─base::.handleSimpleError(...) + 21. └─rlang (local) h(simpleError(msg, call)) + 22. └─handlers[[1L]](cnd) + 23. └─cli::cli_abort(...) + 24. └─rlang::abort(...) + Execution halted ``` -# processmapR +## In both + +* checking installed package size ... NOTE + ``` + installed size is 8.1Mb + sub-directories of 1Mb or more: + data 7.5Mb + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 36 marked UTF-8 strings + ``` + +# pafr
-* Version: 0.5.5 -* GitHub: https://github.com/bupaverse/processmapr -* Source code: https://github.com/cran/processmapR -* Date/Publication: 2024-08-30 13:10:02 UTC -* Number of recursive dependencies: 118 +* Version: 0.0.2 +* GitHub: https://github.com/dwinter/pafr +* Source code: https://github.com/cran/pafr +* Date/Publication: 2020-12-08 10:20:12 UTC +* Number of recursive dependencies: 113 -Run `revdepcheck::cloud_details(, "processmapR")` for more info +Run `revdepcheck::cloud_details(, "pafr")` for more info
@@ -20717,36 +12780,43 @@ Run `revdepcheck::cloud_details(, "processmapR")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(processmapR) - - Attaching package: 'processmapR' - - The following object is masked from 'package:stats': + > library(pafr) + Loading required package: ggplot2 + > + > test_check("pafr") + [ FAIL 6 | WARN 2 | SKIP 0 | PASS 70 ] ... - 10. └─processmapR:::return_plotly(p, plotly) - 11. ├─plotly::ggplotly(p) - 12. └─plotly:::ggplotly.ggplot(p) - 13. └─plotly::gg2list(...) - ── Failure ('test_trace_explorer.R:240:3'): test trace_explorer on eventlog with param `plotly` ── - `chart` inherits from 'gg'/'ggplot' not 'plotly'. + ── Failure ('test_plot.r:11:5'): dotplot works produces a plot ───────────────── + unname(labs["xintercept"]) not equal to "xintercept". + target is NULL, current is character + ── Failure ('test_plot.r:12:5'): dotplot works produces a plot ───────────────── + unname(labs["yintercept"]) not equal to "yintercept". + target is NULL, current is character - [ FAIL 6 | WARN 0 | SKIP 10 | PASS 107 ] + [ FAIL 6 | WARN 2 | SKIP 0 | PASS 70 ] Error: Test failures Execution halted ``` -# projpred +## In both + +* checking LazyData ... NOTE + ``` + 'LazyData' is specified without a 'data' directory + ``` + +# pathfindR
-* Version: 2.8.0 -* GitHub: https://github.com/stan-dev/projpred -* Source code: https://github.com/cran/projpred -* Date/Publication: 2023-12-15 00:00:02 UTC -* Number of recursive dependencies: 157 +* Version: 2.4.1 +* GitHub: https://github.com/egeulgen/pathfindR +* Source code: https://github.com/cran/pathfindR +* Date/Publication: 2024-05-04 15:30:05 UTC +* Number of recursive dependencies: 148 -Run `revdepcheck::cloud_details(, "projpred")` for more info +Run `revdepcheck::cloud_details(, "pathfindR")` for more info
@@ -20754,95 +12824,90 @@ Run `revdepcheck::cloud_details(, "projpred")` for more info * checking examples ... ERROR ``` - Running examples in ‘projpred-Ex.R’ failed + Running examples in ‘pathfindR-Ex.R’ failed The error most likely occurred in: - > ### Name: as.matrix.projection - > ### Title: Extract projected parameter draws and coerce to matrix - > ### Aliases: as.matrix.projection + > ### Name: UpSet_plot + > ### Title: Create UpSet Plot of Enriched Terms + > ### Aliases: UpSet_plot > > ### ** Examples > - > ## Don't show: - ... - 2 X1 1.70 0.155 1.40 1.97 - 3 X3 0.924 0.266 0.560 1.45 - 4 X5 -1.21 0.111 -1.53 -0.602 - 5 sigma 2.01 0.183 1.83 2.35 - > if (requireNamespace("bayesplot", quietly = TRUE)) { - + print(bayesplot::mcmc_intervals(prj_mat)) - + } - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘projpred.Rmd’ - ... - - - > bayesplot_theme_set(ggplot2::theme_bw()) - - > mcmc_intervals(prj_mat) + ggplot2::coord_cartesian(xlim = c(-1.5, - + 1.6)) - - When sourcing ‘projpred.R’: - Error: argument is of length zero + > UpSet_plot(example_pathfindR_output) + Error in identicalUnits(x) : object is not a unit + Calls: ... render_comb_axis -> gtable_col -> %||% -> unit.c -> identicalUnits Execution halted - - ‘latent.Rmd’ using ‘UTF-8’... OK - ‘projpred.Rmd’ using ‘UTF-8’... failed ``` -## In both - * checking tests ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. + Running ‘testthat-active_snw.R’ + Running ‘testthat-clustering.R’ + Running ‘testthat-comparison.R’ + Running ‘testthat-core.R’ + Running ‘testthat-data_generation.R’ + Running ‘testthat-enrichment.R’ + Running ‘testthat-scoring.R’ + Running the tests in ‘tests/testthat-scoring.R’ failed. Complete output: > library(testthat) - > library(projpred) - This is projpred version 2.8.0. NOTE: In projpred 2.7.0, the default search method was set to "forward" (for all kinds of models). - > - > test_check("projpred") - Warning in check_dep_version() : - ABI version mismatch: - ... - 41. │ └─methods (local) ``(...) - 42. │ └─methods::new(def, ...) - 43. │ ├─methods::initialize(value, ...) - 44. │ └─methods::initialize(value, ...) - 45. │ └─.Object$initialize(...) - 46. │ └─lme4 (local) initializePtr() - 47. └─base::.handleSimpleError(...) - 48. └─testthat (local) h(simpleError(msg, call)) - 49. └─rlang::abort(...) + ... + ── Failure ('test-scoring.R:113:9'): `plot_scores()` -- creates term score heatmap ggplot object with correct labels ── + g$labels$x not identical to "Sample". + target is NULL, current is character + ── Failure ('test-scoring.R:114:9'): `plot_scores()` -- creates term score heatmap ggplot object with correct labels ── + g$labels$y not identical to "Term". + target is NULL, current is character + + [ FAIL 8 | WARN 0 | SKIP 0 | PASS 37 ] + Error: Test failures Execution halted ``` -* checking installed package size ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - installed size is 5.5Mb - sub-directories of 1Mb or more: - doc 1.4Mb - libs 3.1Mb + Error(s) in re-building vignettes: + --- re-building ‘comparing_results.Rmd’ using rmarkdown ``` -# psborrow +## In both + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘intro_vignette.Rmd’ + ... + ## Performing Active Subnetwork Search and Enrichment + Killed + Killed + Killed + Killed + Killed + + ... + When sourcing ‘visualization_vignette.R’: + Error: object is not a unit + Execution halted + + ‘comparing_results.Rmd’ using ‘UTF-8’... OK + ‘intro_vignette.Rmd’ using ‘UTF-8’... failed + ‘manual_execution.Rmd’ using ‘UTF-8’... failed + ‘non_hs_analysis.Rmd’ using ‘UTF-8’... failed + ‘obtain_data.Rmd’ using ‘UTF-8’... failed + ‘visualization_vignette.Rmd’ using ‘UTF-8’... failed + ``` + +# pathviewr
-* Version: 0.2.1 -* GitHub: NA -* Source code: https://github.com/cran/psborrow -* Date/Publication: 2023-03-03 10:30:07 UTC -* Number of recursive dependencies: 108 +* Version: 1.1.7 +* GitHub: https://github.com/ropensci/pathviewr +* Source code: https://github.com/cran/pathviewr +* Date/Publication: 2023-03-08 08:10:05 UTC +* Number of recursive dependencies: 189 -Run `revdepcheck::cloud_details(, "psborrow")` for more info +Run `revdepcheck::cloud_details(, "pathviewr")` for more info
@@ -20854,36 +12919,36 @@ Run `revdepcheck::cloud_details(, "psborrow")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(psborrow) + > library(pathviewr) + > #library(vdiffr) > - > test_check("psborrow") - [ FAIL 10 | WARN 0 | SKIP 1 | PASS 142 ] - - ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ - ... - `expected` is a character vector ('ref') - ── Failure ('test-plots.R:126:5'): Ensure output is producing a ggplot2 object with appropriate parameters ── - p1$labels$yintercept (`actual`) not equal to "ref" (`expected`). + > test_check("pathviewr") + [ FAIL 2 | WARN 1 | SKIP 0 | PASS 286 ] - `actual` is NULL - `expected` is a character vector ('ref') + ... + ── Error ('test-plot_by_subject.R:168:3'): elev views wrangled correctly via tidyverse ── + Error in `expect_match(elev_all_plots[[3]][[4]][["labels"]][["x"]], "position_height")`: is.character(act$val) is not TRUE + Backtrace: + ▆ + 1. └─testthat::expect_match(...) at test-plot_by_subject.R:168:3 + 2. └─base::stopifnot(is.character(act$val)) - [ FAIL 10 | WARN 0 | SKIP 1 | PASS 142 ] + [ FAIL 2 | WARN 1 | SKIP 0 | PASS 286 ] Error: Test failures Execution halted ``` -# pubh +# pdxTrees
-* Version: 1.3.7 -* GitHub: https://github.com/josie-athens/pubh -* Source code: https://github.com/cran/pubh -* Date/Publication: 2024-08-17 02:20:02 UTC -* Number of recursive dependencies: 187 +* Version: 0.4.0 +* GitHub: https://github.com/mcconvil/pdxTrees +* Source code: https://github.com/cran/pdxTrees +* Date/Publication: 2020-08-17 14:00:02 UTC +* Number of recursive dependencies: 105 -Run `revdepcheck::cloud_details(, "pubh")` for more info +Run `revdepcheck::cloud_details(, "pdxTrees")` for more info
@@ -20892,69 +12957,46 @@ Run `revdepcheck::cloud_details(, "pubh")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘introduction.Rmd’ + when running code in ‘pdxTrees-vignette.Rmd’ ... - ─────────────────────────────────────────────────────────────── - R2 = 0.123 - - Column names: Parameter, Coefficient, Pr(>|t|) - - > multiple(model_bwt, ~race)$df + + y = Pollution_Removal_value, color = Mature_Size)) + geom_point(size = 2, + + .... [TRUNCATED] - ... - > gf_labs(gf_facet_wrap(gf_errorbar(gf_point(estimate_means(model_norm, - + c("race", "smoke")), Mean ~ race), CI_low + CI_high ~ race, - + widt .... [TRUNCATED] + > berkeley_graph + transition_states(states = Mature_Size, + + transition_length = 10, state_length = 8) + enter_grow() + + + exit_shrink() - When sourcing ‘regression.R’: - Error: argument is of length zero + When sourcing ‘pdxTrees-vignette.R’: + Error: argument "theme" is missing, with no default Execution halted - ‘introduction.Rmd’ using ‘UTF-8’... failed - ‘regression.Rmd’ using ‘UTF-8’... failed + ‘pdxTrees-vignette.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘introduction.Rmd’ using rmarkdown + --- re-building ‘pdxTrees-vignette.Rmd’ using rmarkdown ``` ## In both -* checking examples ... ERROR +* checking LazyData ... NOTE ``` - Running examples in ‘pubh-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Kirkwood - > ### Title: Body weight and plasma volume. - > ### Aliases: Kirkwood - > ### Keywords: datasets - > - > ### ** Examples - > - > data(Kirkwood) - > - > Kirkwood |> - + gf_point(volume ~ weight) |> - + gf_lm(col = "indianred3", interval = "confidence", fill = "indianred3") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: gf_lm ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + 'LazyData' is specified without a 'data' directory ``` -# PUPMSI +# penAFT
-* Version: 0.1.0 +* Version: 0.3.0 * GitHub: NA -* Source code: https://github.com/cran/PUPMSI -* Date/Publication: 2022-05-31 10:50:04 UTC -* Number of recursive dependencies: 32 +* Source code: https://github.com/cran/penAFT +* Date/Publication: 2023-04-18 03:10:02 UTC +* Number of recursive dependencies: 31 -Run `revdepcheck::cloud_details(, "PUPMSI")` for more info +Run `revdepcheck::cloud_details(, "penAFT")` for more info
@@ -20962,158 +13004,212 @@ Run `revdepcheck::cloud_details(, "PUPMSI")` for more info * checking examples ... ERROR ``` - Running examples in ‘PUPMSI-Ex.R’ failed + Running examples in ‘penAFT-Ex.R’ failed The error most likely occurred in: - > ### Name: BradleyMSI - > ### Title: Bradley Moisture Sorption Isotherm - > ### Aliases: BradleyMSI + > ### Name: penAFT.trace + > ### Title: Print trace plot for the regularized Gehan estimator fit using + > ### 'penAFT' or 'penAFT.cv' + > ### Aliases: penAFT.trace > > ### ** Examples > - > WaterAct <- c(0.1145,0.2274,0.3265,0.4291,0.6342,0.7385,0.8274,0.9573) ... - Adsorption 0.002148893 0.001891231 4.617743e-06 0.04298251 7.517135e-18 - Desorption 0.004371350 0.003905913 1.910870e-05 0.10015162 3.122502e-17 - Constants of Bradley Sorption Model - Isotherm k1 k2 - Adsorption 1.752876e-10 3.525154 - Desorption 3.920525e-12 8.480898 - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: BradleyMSI -> BradleyMSIPlot + CV through: ### ### ### 60 % + CV through: ### ### ### ### 80 % + CV through: ### ### ### ### ### 100 % + > + > # -- print plot + > penAFT.trace(fit.cv) + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` -# qacBase +# personalized
-* Version: 1.0.3 -* GitHub: https://github.com/rkabacoff/qacBase -* Source code: https://github.com/cran/qacBase -* Date/Publication: 2022-02-09 22:20:02 UTC -* Number of recursive dependencies: 99 +* Version: 0.2.7 +* GitHub: https://github.com/jaredhuling/personalized +* Source code: https://github.com/cran/personalized +* Date/Publication: 2022-06-27 20:20:03 UTC +* Number of recursive dependencies: 93 -Run `revdepcheck::cloud_details(, "qacBase")` for more info +Run `revdepcheck::cloud_details(, "personalized")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘qacBase-Ex.R’ failed - The error most likely occurred in: - - > ### Name: scatter - > ### Title: Scatterplot - > ### Aliases: scatter - > - > ### ** Examples - > - > scatter(cars74, hp, mpg) - > scatter(cars74, wt, hp) - > p <- scatter(ggplot2::mpg, displ, hwy, - + margin="histogram", - + title="Engine Displacement vs. Highway Mileage") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: scatter ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > Sys.setenv("R_TESTS" = "") + > library(testthat) + > library(personalized) + Loading required package: glmnet + Loading required package: Matrix + Loaded glmnet 4.1-8 + Loading required package: mgcv + ... + 4. └─personalized:::plot.subgroup_validated(subgrp.val, type = "stability") + 5. ├─plotly::subplot(...) + 6. │ └─plotly:::dots2plots(...) + 7. ├─plotly::ggplotly(p.primary, tooltip = paste0("tooltip", 1:4)) + 8. └─plotly:::ggplotly.ggplot(...) + 9. └─plotly::gg2list(...) + + [ FAIL 1 | WARN 2 | SKIP 0 | PASS 215 ] + Error: Test failures + Execution halted ``` -# qPCRhelper +# PieGlyph
-* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/qPCRhelper -* Date/Publication: 2023-02-23 14:00:08 UTC -* Number of recursive dependencies: 88 +* Version: 1.0.0 +* GitHub: https://github.com/rishvish/PieGlyph +* Source code: https://github.com/cran/PieGlyph +* Date/Publication: 2024-06-28 12:00:02 UTC +* Number of recursive dependencies: 90 -Run `revdepcheck::cloud_details(, "qPCRhelper")` for more info +Run `revdepcheck::cloud_details(, "PieGlyph")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘PieGlyph’ can be installed ... ERROR ``` - Running examples in ‘qPCRhelper-Ex.R’ failed - The error most likely occurred in: - - > ### Name: qPCRhelper - > ### Title: qPCRhelper - > ### Aliases: qPCRhelper - > - > ### ** Examples - > - > ## Create sample table with expected 'Sample', 'Group', and gene Ct columns - ... - 11. │ └─ggplot2:::`+.gg`(...) - 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. │ ├─ggplot2::ggplot_add(object, p, objectname) - 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 16. └─base::.handleSimpleError(...) - 17. └─purrr (local) h(simpleError(msg, call)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) - Execution halted + Installation failed. + See ‘/tmp/workdir/PieGlyph/new/PieGlyph.Rcheck/00install.out’ for details. ``` +## Newly fixed + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘qPCRhelper.Rmd’ + when running code in ‘time-series-example.Rmd’ ... - + ref.gene = "GAPDH", ref.group = "Control") - Warning in (function (mapping = NULL, data = NULL, geom = "boxplot", position = "dodge2", : - Ignoring unknown aesthetics: fill + 135 92 1506 720 323 16155 0.1073748 10 0 1980.167 + 136 100 1360 646 310 16585 0.1116954 4 0 1980.250 + 137 95 1453 765 424 18117 0.1106382 8 0 1980.333 + 138 114 1522 820 403 17552 0.1118552 8 0 1980.417 - When sourcing ‘qPCRhelper.R’: - Error: ℹ In index: 1. - ℹ With name: log2RelExp. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero + > knitr::include_graphics("../man/figures/scatterpie-1.png") + + ... + before plotting. Execution halted - ‘qPCRhelper.Rmd’ using ‘UTF-8’... failed + ‘PieGlyph.Rmd’ using ‘UTF-8’... OK + ‘interactive-pie-glyphs.Rmd’ using ‘UTF-8’... OK + ‘multinomial-classification-example.Rmd’ using ‘UTF-8’... OK + ‘pie-lollipop-example.Rmd’ using ‘UTF-8’... OK + ‘spatial-example.Rmd’ using ‘UTF-8’... OK + ‘time-series-example.Rmd’ using ‘UTF-8’... failed + ‘unusual-situations.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +## Installation + +### Devel + +``` +* installing *source* package ‘PieGlyph’ ... +** package ‘PieGlyph’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error in get(x, envir = ns, inherits = FALSE) : + object 'is.waive' not found +Error: unable to load R code in package ‘PieGlyph’ +Execution halted +ERROR: lazy loading failed for package ‘PieGlyph’ +* removing ‘/tmp/workdir/PieGlyph/new/PieGlyph.Rcheck/PieGlyph’ + + +``` +### CRAN + +``` +* installing *source* package ‘PieGlyph’ ... +** package ‘PieGlyph’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +** help +*** installing help indices +*** copying figures +** building package indices +** installing vignettes +** testing if installed package can be loaded from temporary location +** testing if installed package can be loaded from final location +** testing if installed package keeps a record of temporary installation path +* DONE (PieGlyph) + + +``` +# Plasmidprofiler + +
+ +* Version: 0.1.6 +* GitHub: NA +* Source code: https://github.com/cran/Plasmidprofiler +* Date/Publication: 2017-01-06 01:10:47 +* Number of recursive dependencies: 90 + +Run `revdepcheck::cloud_details(, "Plasmidprofiler")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘qPCRhelper.Rmd’ using rmarkdown - - Quitting from lines 18-29 [setup] (qPCRhelper.Rmd) - Error: processing vignette 'qPCRhelper.Rmd' failed with diagnostics: - ℹ In index: 1. - ℹ With name: log2RelExp. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - --- failed re-building ‘qPCRhelper.Rmd’ - - SUMMARY: processing the following file failed: - ‘qPCRhelper.Rmd’ + Running examples in ‘Plasmidprofiler-Ex.R’ failed + The error most likely occurred in: - Error: Vignette re-building failed. + > ### Name: main + > ### Title: Main: Run everything + > ### Aliases: main + > + > ### ** Examples + > + > main(blastdata, + ... + Saving 12 x 7 in image + Warning: Vectorized input to `element_text()` is not officially supported. + ℹ Results may be unexpected or may change in future versions of ggplot2. + Warning in geom_tile(aes(x = Plasmid, y = Sample, label = AMR_gene, fill = Inc_group, : + Ignoring unknown aesthetics: label and text + Warning: Use of `report$Sureness` is discouraged. + ℹ Use `Sureness` instead. + Error in pm[[2]] : subscript out of bounds + Calls: main ... -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -# r2dii.plot +# plinkQC
-* Version: 0.4.0 -* GitHub: https://github.com/RMI-PACTA/r2dii.plot -* Source code: https://github.com/cran/r2dii.plot -* Date/Publication: 2024-02-29 16:40:02 UTC -* Number of recursive dependencies: 91 +* Version: 0.3.4 +* GitHub: https://github.com/meyer-lab-cshl/plinkQC +* Source code: https://github.com/cran/plinkQC +* Date/Publication: 2021-07-15 15:40:02 UTC +* Number of recursive dependencies: 87 -Run `revdepcheck::cloud_details(, "r2dii.plot")` for more info +Run `revdepcheck::cloud_details(, "plinkQC")` for more info
@@ -21121,153 +13217,94 @@ Run `revdepcheck::cloud_details(, "r2dii.plot")` for more info * checking tests ... ERROR ``` - Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(r2dii.plot) + > library(plinkQC) > - > test_check("r2dii.plot") - Scale for colour is already present. - Adding another scale for colour, which will replace the existing scale. - ... - `expected` is a character vector ('year') - ── Failure ('test-plot_trajectory.R:41:3'): outputs default axis labels ──────── - p$labels$y (`actual`) not equal to "value" (`expected`). + > test_check("plinkQC") + [ FAIL 1 | WARN 9 | SKIP 0 | PASS 71 ] - `actual` is NULL - `expected` is a character vector ('value') + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + 12. └─ggplot2:::ggplot_gtable.ggplot_built(ggplot_build(x)) + 13. └─plot$guides$assemble(theme) + 14. └─ggplot2 (local) assemble(..., self = self) + 15. └─self$package_box(grobs[[i]], position, theme + adjust) + 16. └─ggplot2 (local) package_box(...) + 17. └─theme$legend.box.just %||% ... - [ FAIL 2 | WARN 2 | SKIP 40 | PASS 122 ] + [ FAIL 1 | WARN 9 | SKIP 0 | PASS 71 ] Error: Test failures Execution halted ``` -# r2spss +# plotDK
-* Version: 0.3.2 -* GitHub: https://github.com/aalfons/r2spss -* Source code: https://github.com/cran/r2spss -* Date/Publication: 2022-05-25 11:00:08 UTC -* Number of recursive dependencies: 64 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/plotDK +* Date/Publication: 2021-10-01 08:00:02 UTC +* Number of recursive dependencies: 85 -Run `revdepcheck::cloud_details(, "r2spss")` for more info +Run `revdepcheck::cloud_details(, "plotDK")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘r2spss-Ex.R’ failed - The error most likely occurred in: - - > ### Name: ANOVA - > ### Title: One-way and Two-way ANOVA - > ### Aliases: ANOVA to_SPSS.ANOVA_SPSS print.ANOVA_SPSS plot.ANOVA_SPSS - > ### Keywords: htest - > - > ### ** Examples - > - ... - \arrayrulecolor{darkgraySPSS}\hline - Total & 495.474 & 416 & & & \\ - \arrayrulecolor{black}\hline - \noalign{\smallskip} - \end{NiceTabular} - - > plot(oneway) # create profile plot - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘r2spss-intro.Rnw’ - ... - Valid N (listwise) & 417 & & & & \\ - \hline - \noalign{\smallskip} - \end{tabular} - - > histogram(Eredivisie, "logMarketValue") - - When sourcing 'r2spss-intro.R': - Error: argument is of length zero - Execution halted - - ‘r2spss-intro.Rnw’ using ‘UTF-8’... failed + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(plotDK) + > + > test_check("plotDK") + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] + + ══ Failed tests ════════════════════════════════════════════════════════════════ + ... + Error in `expect_setequal(c("x", "y", "group", "subgroup", "text", "fill"), + names(labels))`: `object` and `expected` must both be vectors + Backtrace: + ▆ + 1. └─testthat::expect_setequal(c("x", "y", "group", "subgroup", "text", "fill"), names(labels)) at test-plotDK.R:67:5 + 2. └─rlang::abort("`object` and `expected` must both be vectors") + + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 46 ] + Error: Test failures + Execution halted ``` ## In both -* checking re-building of vignette outputs ... NOTE +* checking dependencies in R code ... NOTE ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘r2spss-intro.Rnw’ using knitr - - Quitting from lines 327-328 [unnamed-chunk-8] (r2spss-intro.Rnw) - Error: processing vignette 'r2spss-intro.Rnw' failed with diagnostics: - argument is of length zero - --- failed re-building ‘r2spss-intro.Rnw’ - - SUMMARY: processing the following file failed: - ‘r2spss-intro.Rnw’ - - Error: Vignette re-building failed. - Execution halted + Namespace in Imports field not imported from: ‘mapproj’ + All declared Imports should be used. ``` -# radiant.basics - -
- -* Version: 1.6.6 -* GitHub: https://github.com/radiant-rstats/radiant.basics -* Source code: https://github.com/cran/radiant.basics -* Date/Publication: 2024-05-15 04:30:07 UTC -* Number of recursive dependencies: 152 - -Run `revdepcheck::cloud_details(, "radiant.basics")` for more info - -
- -## Newly broken - -* checking examples ... ERROR +* checking data for non-ASCII characters ... NOTE ``` - Running examples in ‘radiant.basics-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot.clt - > ### Title: Plot method for the Central Limit Theorem simulation - > ### Aliases: plot.clt - > - > ### ** Examples - > - > clt("Uniform", 100, 100, unif_min = 10, unif_max = 20) %>% plot() - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Note: found 12992 marked UTF-8 strings ``` -# radiant.data +# PlotFTIR
-* Version: 1.6.6 -* GitHub: https://github.com/radiant-rstats/radiant.data -* Source code: https://github.com/cran/radiant.data -* Date/Publication: 2024-05-14 23:30:02 UTC -* Number of recursive dependencies: 155 +* Version: 1.0.0 +* GitHub: https://github.com/NRCan/PlotFTIR +* Source code: https://github.com/cran/PlotFTIR +* Date/Publication: 2024-11-13 14:20:06 UTC +* Number of recursive dependencies: 112 -Run `revdepcheck::cloud_details(, "radiant.data")` for more info +Run `revdepcheck::cloud_details(, "PlotFTIR")` for more info
@@ -21275,73 +13312,84 @@ Run `revdepcheck::cloud_details(, "radiant.data")` for more info * checking examples ... ERROR ``` - Running examples in ‘radiant.data-Ex.R’ failed + Running examples in ‘PlotFTIR-Ex.R’ failed The error most likely occurred in: - > ### Name: visualize - > ### Title: Visualize data using ggplot2 - > ### Aliases: visualize + > ### Name: add_wavenumber_marker + > ### Title: Add a Marker at a Wavenumber + > ### Aliases: add_wavenumber_marker > > ### ** Examples > - > visualize(diamonds, "price:cut", type = "dist", fillcol = "red") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: visualize ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > if (requireNamespace("ggplot2", quietly = TRUE)) { + ... + 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) + 6. └─ggplot2:::new_layer_names(object, names(plot$layers)) + 7. └─vctrs::vec_as_names(names, repair = "check_unique") + 8. └─vctrs (local) ``() + 9. └─vctrs:::validate_unique(names = names, arg = arg, call = call) + 10. └─vctrs:::stop_names_cannot_be_empty(names, call = call) + 11. └─vctrs:::stop_names(...) + 12. └─vctrs:::stop_vctrs(...) + 13. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ``` -# radiant.model - -
- -* Version: 1.6.6 -* GitHub: https://github.com/radiant-rstats/radiant.model -* Source code: https://github.com/cran/radiant.model -* Date/Publication: 2024-05-15 09:10:08 UTC -* Number of recursive dependencies: 176 - -Run `revdepcheck::cloud_details(, "radiant.model")` for more info - -
- -## Newly broken +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html + ... + 8. └─vctrs (local) ``() + 9. └─vctrs:::validate_unique(names = names, arg = arg, call = call) + 10. └─vctrs:::stop_names_cannot_be_empty(names, call = call) + 11. └─vctrs:::stop_names(...) + 12. └─vctrs:::stop_vctrs(...) + 13. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) + + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 422 ] + Error: Test failures + Execution halted + ``` -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘radiant.model-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘plotting_ftir_spectra.Rmd’ + ... + > zoom_in_on_range(plot_ftir(spectra), c(3600, 2600)) - > ### Name: plot.simulater - > ### Title: Plot method for the simulater function - > ### Aliases: plot.simulater - > - > ### ** Examples - > - > simdat <- simulater( - ... - + const = "cost 3", - + norm = "demand 2000 1000", - + discrete = "price 5 8 .3 .7", - + form = "profit = demand * (price - cost)", - + seed = 1234 - + ) - > plot(simdat, bins = 25) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > add_wavenumber_marker(plot_ftir(spectra), wavenumber = 1495, + + text = "C-C Aromatic", line_aesthetics = list(linetype = "dashed"), + + label .... [TRUNCATED] + + When sourcing ‘plotting_ftir_spectra.R’: + Error: Names can't be empty. + ✖ Empty name found at location 1. Execution halted + + ‘plotting_ftir_spectra.Rmd’ using ‘UTF-8’... failed ``` -# Radviz +# plothelper
-* Version: 0.9.3 -* GitHub: https://github.com/yannabraham/Radviz -* Source code: https://github.com/cran/Radviz -* Date/Publication: 2022-03-25 18:10:02 UTC -* Number of recursive dependencies: 64 +* Version: 0.1.9 +* GitHub: https://github.com/githubwwwjjj/plothelper +* Source code: https://github.com/cran/plothelper +* Date/Publication: 2020-05-08 08:40:10 UTC +* Number of recursive dependencies: 44 -Run `revdepcheck::cloud_details(, "Radviz")` for more info +Run `revdepcheck::cloud_details(, "plothelper")` for more info
@@ -21349,68 +13397,47 @@ Run `revdepcheck::cloud_details(, "Radviz")` for more info * checking examples ... ERROR ``` - Running examples in ‘Radviz-Ex.R’ failed + Running examples in ‘plothelper-Ex.R’ failed The error most likely occurred in: - > ### Name: Radviz - > ### Title: Radviz Projection of Multidimensional Data - > ### Aliases: Radviz + > ### Name: sunshinexy + > ### Title: Generating Lines Which Link One Points to Many + > ### Aliases: sunshinexy > > ### ** Examples > - > data(iris) - > das <- c('Sepal.Length','Sepal.Width','Petal.Length','Petal.Width') - > S <- make.S(das) - > rv <- do.radviz(iris,S) - > plot(rv,anchors.only=FALSE) - Error in plot.radviz(rv, anchors.only = FALSE) : - 'language' object cannot be coerced to type 'double' - Calls: plot -> plot.radviz - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘multivariate_analysis.Rmd’ - ... - - > classic.S <- make.S(get.optim(classic.optim)) - - > btcells.rv <- do.radviz(btcells.df, classic.S) - - > plot(btcells.rv) + geom_point(aes(color = Treatment)) - + > library(ggplot2) ... - [1] 15792 18 - - > ct.rv - - When sourcing ‘single_cell_projections.R’: - Error: 'language' object cannot be coerced to type 'double' + > pq=data.frame(cbind(p, q)) + > dat=sunshinexy(outer=pq, n=20, delete_n=5, distance=TRUE) + > ggplot()+coord_fixed()+theme_void()+ + + geom_point(data=pq, aes(p, q), size=4)+ + + geom_line(show.legend=FALSE, data=dat, aes(x, y, group=g, color=distance), size=2)+ + + scale_color_continuous(low="blue", high="red") + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "blue", high = "red") + Calls: scale_color_continuous Execution halted - - ‘multivariate_analysis.Rmd’ using ‘UTF-8’... failed - ‘single_cell_projections.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking LazyData ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘multivariate_analysis.Rmd’ using rmarkdown + 'LazyData' is specified without a 'data' directory ``` -# randomForestExplainer +# plotly
-* Version: 0.10.1 -* GitHub: https://github.com/ModelOriented/randomForestExplainer -* Source code: https://github.com/cran/randomForestExplainer -* Date/Publication: 2020-07-11 20:30:02 UTC -* Number of recursive dependencies: 105 +* Version: 4.10.4 +* GitHub: https://github.com/plotly/plotly.R +* Source code: https://github.com/cran/plotly +* Date/Publication: 2024-01-13 22:40:02 UTC +* Number of recursive dependencies: 137 -Run `revdepcheck::cloud_details(, "randomForestExplainer")` for more info +Run `revdepcheck::cloud_details(, "plotly")` for more info
@@ -21418,26 +13445,26 @@ Run `revdepcheck::cloud_details(, "randomForestExplainer")` for more info * checking examples ... ERROR ``` - Running examples in ‘randomForestExplainer-Ex.R’ failed + Running examples in ‘plotly-Ex.R’ failed The error most likely occurred in: - > ### Name: plot_min_depth_interactions - > ### Title: Plot the top mean conditional minimal depth - > ### Aliases: plot_min_depth_interactions + > ### Name: style + > ### Title: Modify trace(s) + > ### Aliases: style > > ### ** Examples > - > forest <- randomForest::randomForest(Species ~ ., data = iris, ntree = 100) + > ## Don't show: ... - The first warning was: - ℹ In argument: `Petal.Width = min(Petal.Width, na.rm = TRUE)`. - ℹ In group 1: `tree = 1` and `split var = "Petal.Length"`. - Caused by warning in `min()`: - ! no non-missing arguments to min; returning Inf - ℹ Run `dplyr::last_dplyr_warnings()` to see the 203 remaining warnings. - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics + + # this clobbers the previously supplied marker.line.color + + style(p, marker.line = list(width = 2.5), marker.size = 10) + + ## Don't show: + + }) # examplesIf + > (p <- ggplotly(qplot(data = mtcars, wt, mpg, geom = c("point", "smooth")))) + Warning: `qplot()` was deprecated in ggplot2 3.4.0. + `geom_smooth()` using method = 'loess' and formula = 'y ~ x' + Error in pm[[2]] : subscript out of bounds + Calls: ... eval -> eval -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` @@ -21446,69 +13473,47 @@ Run `revdepcheck::cloud_details(, "randomForestExplainer")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(randomForestExplainer) - > - > test_check("randomForestExplainer") - [ FAIL 6 | WARN 70 | SKIP 0 | PASS 55 ] + > library("testthat") + > library("plotly") + Loading required package: ggplot2 - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - 24. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE) - 25. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) - 26. └─grid:::drawGrob(x) - 27. ├─grid::drawDetails(x, recording = FALSE) - 28. └─grid:::drawDetails.segments(x, recording = FALSE) - 29. └─grid:::grid.Call.graphics(...) + Attaching package: 'plotly' - [ FAIL 6 | WARN 70 | SKIP 0 | PASS 55 ] + The following object is masked from 'package:ggplot2': + ... + • plotly-subplot/subplot-bump-axis-annotation.svg + • plotly-subplot/subplot-bump-axis-image.svg + • plotly-subplot/subplot-bump-axis-shape-shared.svg + • plotly-subplot/subplot-bump-axis-shape.svg + • plotly-subplot/subplot-reposition-annotation.svg + • plotly-subplot/subplot-reposition-image.svg + • plotly-subplot/subplot-reposition-shape-fixed.svg + • plotly-subplot/subplot-reposition-shape.svg Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘randomForestExplainer.Rmd’ - ... - 3 3.308 - 23 2.600 - 33 1.288 - 8 3.512 - - > plot_min_depth_interactions(interactions_frame) - - When sourcing ‘randomForestExplainer.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘randomForestExplainer.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘randomForestExplainer.Rmd’ using rmarkdown - ``` - ## In both -* checking LazyData ... NOTE +* checking installed package size ... NOTE ``` - 'LazyData' is specified without a 'data' directory + installed size is 7.1Mb + sub-directories of 1Mb or more: + R 1.0Mb + htmlwidgets 4.0Mb ``` -# rassta +# plotthis
-* Version: 1.0.6 -* GitHub: https://github.com/bafuentes/rassta -* Source code: https://github.com/cran/rassta -* Date/Publication: 2024-08-19 06:20:13 UTC -* Number of recursive dependencies: 121 +* Version: 0.5.0 +* GitHub: https://github.com/pwwang/plotthis +* Source code: https://github.com/cran/plotthis +* Date/Publication: 2025-01-09 06:10:02 UTC +* Number of recursive dependencies: 181 -Run `revdepcheck::cloud_details(, "rassta")` for more info +Run `revdepcheck::cloud_details(, "plotthis")` for more info
@@ -21516,90 +13521,90 @@ Run `revdepcheck::cloud_details(, "rassta")` for more info * checking examples ... ERROR ``` - Running examples in ‘rassta-Ex.R’ failed + Running examples in ‘plotthis-Ex.R’ failed The error most likely occurred in: - > ### Name: select_functions - > ### Title: Select Constrained Univariate Distribution Functions - > ### Aliases: select_functions + > ### Name: PrepareUpsetData + > ### Title: Upset Plot + > ### Aliases: PrepareUpsetData UpsetPlot > > ### ** Examples > - > require(terra) - ... - > tvars <- terra::rast(tf) - > # Single-layer SpatRaster of topographic classification units - > ## 5 classification units - > tcf <- list.files(path = p, pattern = "topography.tif", full.names = TRUE) - > tcu <- terra::rast(tcf) - > # Automatic selection of distribution functions - > tdif <- select_functions(cu.rast = tcu, var.rast = tvars, fun = mean) - Error in pm[[2]] : subscript out of bounds - Calls: select_functions -> -> ggplotly.ggplot -> gg2list + > data <- list( + + A = 1:5, + + B = 2:6, + + C = 3:7, + + D = 4:8 + + ) + > UpsetPlot(data) + Error in as.unit(e2) : object is not coercible to a unit + Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit Execution halted ``` +# pmartR + +
+ +* Version: 2.4.6 +* GitHub: https://github.com/pmartR/pmartR +* Source code: https://github.com/cran/pmartR +* Date/Publication: 2024-10-14 21:10:02 UTC +* Number of recursive dependencies: 147 + +Run `revdepcheck::cloud_details(, "pmartR")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: + > library(testthat) + > library(pmartR) > - > if ( requireNamespace("tinytest", quietly=TRUE) ){ - + tinytest::test_package("rassta") - + } - - Attaching package: 'rassta' + > test_check("pmartR") + [ FAIL 1 | WARN 1 | SKIP 11 | PASS 2376 ] + ══ Skipped tests (11) ══════════════════════════════════════════════════════════ ... - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests - test_select_functions.R....... 0 tests Error in pm[[2]] : subscript out of bounds - Calls: ... select_functions -> -> ggplotly.ggplot -> gg2list + • plots/plot-spansres-color-high-color-low.svg + • plots/plot-spansres.svg + • plots/plot-statres-anova-volcano.svg + • plots/plot-statres-anova.svg + • plots/plot-statres-combined-volcano.svg + • plots/plot-statres-combined.svg + • plots/plot-statres-gtest.svg + • plots/plot-totalcountfilt.svg + Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR +## In both + +* checking installed package size ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘signature.Rmd’ - ... - > clim.var <- rast(vardir) - - > clim.cu <- rast(paste(d, "/climate.tif", sep = "")) - - > clim.difun <- select_functions(cu.rast = clim.cu, - + var.rast = clim.var, mode = "auto") - - ... - When sourcing ‘signature.R’: - Error: subscript out of bounds - Execution halted - - ‘classunits.Rmd’ using ‘UTF-8’... OK - ‘modeling.Rmd’ using ‘UTF-8’... OK - ‘sampling.Rmd’ using ‘UTF-8’... OK - ‘signature.Rmd’ using ‘UTF-8’... failed - ‘similarity.Rmd’ using ‘UTF-8’... OK - ‘stratunits.Rmd’ using ‘UTF-8’... OK + installed size is 10.8Mb + sub-directories of 1Mb or more: + R 1.5Mb + help 1.5Mb + libs 6.7Mb ``` -# rater +# pmxTools
-* Version: 1.3.1 -* GitHub: https://github.com/jeffreypullin/rater -* Source code: https://github.com/cran/rater -* Date/Publication: 2023-09-11 17:40:02 UTC -* Number of recursive dependencies: 92 +* Version: 1.3 +* GitHub: https://github.com/kestrel99/pmxTools +* Source code: https://github.com/cran/pmxTools +* Date/Publication: 2023-02-21 16:00:08 UTC +* Number of recursive dependencies: 84 -Run `revdepcheck::cloud_details(, "rater")` for more info +Run `revdepcheck::cloud_details(, "pmxTools")` for more info
@@ -21611,187 +13616,263 @@ Run `revdepcheck::cloud_details(, "rater")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(rater) - * The rater package uses `Stan` to fit bayesian models. - * If you are working on a local, multicore CPU with excess RAM please call: - * options(mc.cores = parallel::detectCores()) - * This will allow Stan to run inference on multiple cores in parallel. + > library(pmxTools) + Loading required package: patchwork > - ... - ── Failure ('test_plotting.R:65:3'): plot_theta_points output has correct type ── - get_geoms(ds_plot) (`actual`) not equal to c("GeomPoint", "GeomErrorbar") (`expected`). + > test_check("pmxTools") + [ FAIL 1 | WARN 1 | SKIP 12 | PASS 110 ] - `names(actual)` is a character vector ('geom_point', 'geom_errorbar') - `names(expected)` is absent + ... + 24. └─handlers[[1L]](cnd) + 25. └─cli::cli_abort(...) + 26. └─rlang::abort(...) - [ FAIL 4 | WARN 0 | SKIP 6 | PASS 375 ] + [ FAIL 1 | WARN 1 | SKIP 12 | PASS 110 ] + Deleting unused snapshots: + • plot/conditioned-distplot.svg + • plot/perc.svg Error: Test failures - In addition: There were 14 warnings (use warnings() to see them) Execution halted ``` ## In both -* checking installed package size ... NOTE - ``` - installed size is 128.0Mb - sub-directories of 1Mb or more: - libs 127.3Mb - ``` - -* checking for GNU extensions in Makefiles ... NOTE +* checking Rd cross-references ... NOTE ``` - GNU make is a SystemRequirements. + Package unavailable to check Rd xrefs: ‘DiagrammeR’ ``` -# RBesT +# PopED
-* Version: 1.7-3 -* GitHub: https://github.com/Novartis/RBesT -* Source code: https://github.com/cran/RBesT -* Date/Publication: 2024-01-08 15:20:02 UTC -* Number of recursive dependencies: 143 +* Version: 0.7.0 +* GitHub: https://github.com/andrewhooker/PopED +* Source code: https://github.com/cran/PopED +* Date/Publication: 2024-10-07 19:30:02 UTC +* Number of recursive dependencies: 140 -Run `revdepcheck::cloud_details(, "RBesT")` for more info +Run `revdepcheck::cloud_details(, "PopED")` for more info
## Newly broken -* checking examples ... ERROR +* checking installed package size ... NOTE ``` - Running examples in ‘RBesT-Ex.R’ failed - The error most likely occurred in: - - > ### Name: forest_plot - > ### Title: Forest Plot - > ### Aliases: forest_plot - > - > ### ** Examples - > - > # we consider the example AS MAP analysis - ... - Please consider increasing the MCMC simulation size. - - AS> ## Recover user set sampling defaults - AS> options(.user_mc_options) - > - > # default forest plot for a gMAP analysis - > forest_plot(map_AS) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: forest_plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + installed size is 5.5Mb + sub-directories of 1Mb or more: + R 1.5Mb + doc 1.4Mb + test 1.1Mb ``` +# posterior + +
+ +* Version: 1.6.0 +* GitHub: https://github.com/stan-dev/posterior +* Source code: https://github.com/cran/posterior +* Date/Publication: 2024-07-03 23:00:02 UTC +* Number of recursive dependencies: 118 + +Run `revdepcheck::cloud_details(, "posterior")` for more info + +
+ +## Newly broken + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘introduction.Rmd’ + when running code in ‘rvar.Rmd’ ... - MAP Prior MCMC sample - mean sd 2.5% 50% 97.5% - 0.2580 0.0842 0.1120 0.2510 0.4590 - - > pl <- plot(map_mcmc) + > ggplot() + ggdist::stat_slab(aes(xdist = mixture)) - When sourcing ‘introduction.R’: - Error: argument is of length zero + When sourcing ‘rvar.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 1st layer. + Caused by error in `use_defaults()`: + ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, Execution halted - ‘introduction.Rmd’ using ‘UTF-8’... failed + ‘pareto_diagnostics.Rmd’ using ‘UTF-8’... OK + ‘posterior.Rmd’ using ‘UTF-8’... OK + ‘rvar.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘introduction.Rmd’ using rmarkdown - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH - Warning in hook_png(..., cmd = "pngquant", post_process = function(x) { : - cannot find pngquant; please install and put it in PATH + --- re-building ‘pareto_diagnostics.Rmd’ using rmarkdown + --- finished re-building ‘pareto_diagnostics.Rmd’ + + --- re-building ‘posterior.Rmd’ using rmarkdown + --- finished re-building ‘posterior.Rmd’ - Quitting from lines 104-126 [unnamed-chunk-4] (introduction.Rmd) - Error: processing vignette 'introduction.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘introduction.Rmd’ + --- re-building ‘rvar.Rmd’ using rmarkdown + + Quitting from lines 530-533 [mixture] (rvar.Rmd) + ... + NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("#EBEBEBFF", NA, NULL, NULL, TRUE), list(), NULL, NULL, NULL, list("white", NULL, NULL, + NULL, FALSE, "white", TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, NULL, NULL, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, + NULL, list("#D9D9D9FF", NA, NULL, NULL, TRUE), NULL, NULL, "on", "inside", list(NULL, NULL, "#1A1A1AFF", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) + --- failed re-building ‘rvar.Rmd’ SUMMARY: processing the following file failed: - ‘introduction.Rmd’ + ‘rvar.Rmd’ Error: Vignette re-building failed. Execution halted ``` +# PPQplan + +
+ +* Version: 1.1.0 +* GitHub: https://github.com/allenzhuaz/PPQplan +* Source code: https://github.com/cran/PPQplan +* Date/Publication: 2020-10-08 04:30:06 UTC +* Number of recursive dependencies: 118 + +Run `revdepcheck::cloud_details(, "PPQplan")` for more info + +
+ +## Newly broken + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘PPQnote.Rmd’ using rmarkdown + --- finished re-building ‘PPQnote.Rmd’ + + --- re-building ‘PPQplan-vignette.Rmd’ using rmarkdown + ``` + ## In both +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘PPQplan-vignette.Rmd’ + ... + + > devtools::load_all() + + When sourcing ‘PPQplan-vignette.R’: + Error: Could not find a root 'DESCRIPTION' file that starts with '^Package' in + '/tmp/RtmpiIeOeo/file13dd4fab8118/vignettes'. + ℹ Are you in your project directory and does your project have a 'DESCRIPTION' + file? + Execution halted + + ‘PPQnote.Rmd’ using ‘UTF-8’... OK + ‘PPQplan-vignette.Rmd’ using ‘UTF-8’... failed + ``` + * checking installed package size ... NOTE ``` - installed size is 97.6Mb + installed size is 12.1Mb sub-directories of 1Mb or more: - libs 95.7Mb + doc 12.0Mb ``` -* checking for GNU extensions in Makefiles ... NOTE +* checking LazyData ... NOTE ``` - GNU make is a SystemRequirements. + 'LazyData' is specified without a 'data' directory ``` -# rddensity +# ppseq
-* Version: 2.5 -* GitHub: NA -* Source code: https://github.com/cran/rddensity -* Date/Publication: 2024-01-22 21:10:07 UTC -* Number of recursive dependencies: 29 +* Version: 0.2.5 +* GitHub: https://github.com/zabore/ppseq +* Source code: https://github.com/cran/ppseq +* Date/Publication: 2024-09-04 22:20:02 UTC +* Number of recursive dependencies: 103 -Run `revdepcheck::cloud_details(, "rddensity")` for more info +Run `revdepcheck::cloud_details(, "ppseq")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘rddensity-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘one_sample_expansion.Rmd’ + ... + + + + + > ptest <- plot(one_sample_cal_tbl, type1_range = c(0.05, + + 0.1), minimum_power = 0.7, plotly = TRUE) + + ... + + > ptest <- plot(two_sample_cal_tbl, type1_range = c(0.05, + + 0.1), minimum_power = 0.7, plotly = TRUE) + + When sourcing ‘two_sample_randomized.R’: + Error: subscript out of bounds + Execution halted + + ‘one_sample_expansion.Rmd’ using ‘UTF-8’... failed + ‘two_sample_randomized.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + ... + --- re-building ‘one_sample_expansion.Rmd’ using rmarkdown + + Quitting from lines 183-188 [unnamed-chunk-13] (one_sample_expansion.Rmd) + Error: processing vignette 'one_sample_expansion.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘one_sample_expansion.Rmd’ - > ### Name: rddensity - > ### Title: Manipulation Testing Using Local Polynomial Density Estimation - > ### Aliases: rddensity - > - > ### ** Examples - > - > ### Continuous Density + --- re-building ‘two_sample_randomized.Rmd’ using rmarkdown ... - sum densities 0.6532 3.9572 0.0042 + Quitting from lines 179-184 [unnamed-chunk-13] (two_sample_randomized.Rmd) + Error: processing vignette 'two_sample_randomized.Rmd' failed with diagnostics: + subscript out of bounds + --- failed re-building ‘two_sample_randomized.Rmd’ - > - > ### Plotting using rdplotdensity() - > # 1. From -2 to 2 with 25 evaluation points at each side - > plot1 <- rdplotdensity(rdd, x, plotRange = c(-2, 2), plotN = 25) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: rdplotdensity ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + SUMMARY: processing the following files failed: + ‘one_sample_expansion.Rmd’ ‘two_sample_randomized.Rmd’ + + Error: Vignette re-building failed. Execution halted ``` -# RecordTest +## In both + +* checking installed package size ... NOTE + ``` + installed size is 11.0Mb + sub-directories of 1Mb or more: + doc 10.5Mb + ``` + +# precintcon
-* Version: 2.2.0 -* GitHub: https://github.com/JorgeCastilloMateo/RecordTest -* Source code: https://github.com/cran/RecordTest -* Date/Publication: 2023-08-07 20:20:08 UTC -* Number of recursive dependencies: 88 +* Version: 2.3.0 +* GitHub: https://github.com/lucasvenez/precintcon +* Source code: https://github.com/cran/precintcon +* Date/Publication: 2016-07-17 13:49:19 +* Number of recursive dependencies: 28 -Run `revdepcheck::cloud_details(, "RecordTest")` for more info +Run `revdepcheck::cloud_details(, "precintcon")` for more info
@@ -21799,59 +13880,40 @@ Run `revdepcheck::cloud_details(, "RecordTest")` for more info * checking examples ... ERROR ``` - Running examples in ‘RecordTest-Ex.R’ failed + Running examples in ‘precintcon-Ex.R’ failed The error most likely occurred in: - > ### Name: N.plot - > ### Title: Number of Records Plot - > ### Aliases: N.plot + > ### Name: pplot.deciles + > ### Title: Plot deciles + > ### Aliases: pplot.deciles precintcon.plot.deciles + > ### Keywords: deciles precipitation > > ### ** Examples > - > # Plot at Zaragoza, with linear weights and error bar as RIs aesthetic - > N.plot(ZaragozaSeries, weights = function(t) t-1, conf.aes = "errorbar") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘RecordTest.Rmd’ - ... - + R_lower = Olympic_records_200m$value, Trows = 27) - - > records(or200m, type = "points", alpha = c(1, 0, 1, - + 0)) + ggplot2::ylab("seconds") - - > N.plot(or200m, record = c(0, 1, 0, 0)) - - When sourcing ‘RecordTest.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + ... + 9. │ └─layout$setup(data, plot$data, plot$plot_env) + 10. │ └─ggplot2 (local) setup(..., self = self) + 11. │ └─base::lapply(...) + 12. │ └─ggplot2 (local) FUN(X[[i]], ...) + 13. │ └─ggplot2::map_data(...) + 14. │ └─vctrs::vec_slice(data, facet_vals$.index) + 15. └─vctrs:::stop_scalar_type(``(``), "x", ``) + 16. └─vctrs:::stop_vctrs(...) + 17. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted - - ‘RecordTest.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘RecordTest.Rmd’ using rmarkdown ``` -# reda +# predictMe
-* Version: 0.5.4 -* GitHub: https://github.com/wenjie2wang/reda -* Source code: https://github.com/cran/reda -* Date/Publication: 2022-07-08 21:50:02 UTC -* Number of recursive dependencies: 53 +* Version: 0.1 +* GitHub: https://github.com/mmiche/predictMe +* Source code: https://github.com/cran/predictMe +* Date/Publication: 2022-05-24 09:40:02 UTC +* Number of recursive dependencies: 56 -Run `revdepcheck::cloud_details(, "reda")` for more info +Run `revdepcheck::cloud_details(, "predictMe")` for more info
@@ -21859,101 +13921,77 @@ Run `revdepcheck::cloud_details(, "reda")` for more info * checking examples ... ERROR ``` - Running examples in ‘reda-Ex.R’ failed + Running examples in ‘predictMe-Ex.R’ failed The error most likely occurred in: - > ### Name: mcf - > ### Title: Mean Cumulative Function (MCF) - > ### Aliases: mcf mcf,formula-method mcf,rateReg-method + > ### Name: makeTablePlot + > ### Title: Tabularize the essential result of the predictMe package. + > ### Aliases: makeTablePlot > > ### ** Examples > - > library(reda) + > # Simulate data set with continuous outcome (use all default values) ... - > - > ## Example 2. the simulated data - > simuMcf <- mcf(Recur(time, ID, event) ~ group + gender, - + data = simuDat, ID %in% 1 : 50) - > plot(simuMcf, conf.int = TRUE, lty = 1 : 4, - + legendName = "Treatment & Gender") - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + + fitted=lmRes$fitted.values) + > # Apply function binBinary + > x100c <- binContinuous(x=lmDf, measColumn = 1, binWidth = 20) + > # Apply function makeDiffPlot, using columns 1 and 2 from x100c[["xTrans"]] + > # The first of columns 1 and 2 contains the measured outcome values. + > tp <- makeTablePlot(x100c[["xTrans"]][,1:2], measColumn = 1, plot = TRUE) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#132B43", low = "#56B1F7") + Calls: makeTablePlot -> Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘reda-intro.Rmd’ + when running code in ‘predictMe.Rmd’ ... - + data = simuDat, subset = ID %in% seq_len(50)) - - > plot(valveMcf0, conf.int = TRUE, mark.time = TRUE, - + addOrigin = TRUE, col = 2) + ggplot2::xlab("Days") + ggplot2::theme_bw() + 4 4 4 68.05227 63.98939 4.0628725 4 0 + 5 3 3 52.96387 53.83204 -0.8681698 5 0 + 6 2 2 36.07562 28.75503 7.3205928 6 0 - > plot(simuMcf, conf.int = TRUE, lty = 1:4, legendName = "Treatment & Gender") + > outLs <- makeTablePlot(x100c[["xTrans"]][, 1:2], measColumn = 1, + + plot = TRUE) - When sourcing ‘reda-intro.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘predictMe.R’: + Error: unused arguments (high = "#132B43", low = "#56B1F7") Execution halted - ‘reda-Recur.Rmd’ using ‘UTF-8’... OK - ‘reda-intro.Rmd’ using ‘UTF-8’... failed - ‘reda-simulate.Rmd’ using ‘UTF-8’... OK + ‘predictMe.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘reda-Recur.Rmd’ using rmarkdown - --- finished re-building ‘reda-Recur.Rmd’ - - --- re-building ‘reda-intro.Rmd’ using rmarkdown - - Quitting from lines 123-129 [plot-sampleMcf] (reda-intro.Rmd) - Error: processing vignette 'reda-intro.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - ... - --- failed re-building ‘reda-intro.Rmd’ + --- re-building ‘predictMe.Rmd’ using rmarkdown - --- re-building ‘reda-simulate.Rmd’ using rmarkdown - --- finished re-building ‘reda-simulate.Rmd’ + Quitting from lines 95-99 [unnamed-chunk-4] (predictMe.Rmd) + Error: processing vignette 'predictMe.Rmd' failed with diagnostics: + unused arguments (high = "#132B43", low = "#56B1F7") + --- failed re-building ‘predictMe.Rmd’ SUMMARY: processing the following file failed: - ‘reda-intro.Rmd’ + ‘predictMe.Rmd’ Error: Vignette re-building failed. Execution halted ``` -## In both - -* checking C++ specification ... NOTE - ``` - Specified C++11: please drop specification unless essential - ``` - -* checking installed package size ... NOTE - ``` - installed size is 8.1Mb - sub-directories of 1Mb or more: - doc 3.3Mb - libs 4.1Mb - ``` - -# redist +# prevR
-* Version: 4.2.0 -* GitHub: https://github.com/alarm-redist/redist -* Source code: https://github.com/cran/redist -* Date/Publication: 2024-01-13 13:20:02 UTC -* Number of recursive dependencies: 132 +* Version: 5.0.0 +* GitHub: https://github.com/larmarange/prevR +* Source code: https://github.com/cran/prevR +* Date/Publication: 2023-05-15 18:50:03 UTC +* Number of recursive dependencies: 82 -Run `revdepcheck::cloud_details(, "redist")` for more info +Run `revdepcheck::cloud_details(, "prevR")` for more info
@@ -21962,164 +14000,303 @@ Run `revdepcheck::cloud_details(, "redist")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘redist.Rmd’ + when running code in ‘intro_prevR.Rmd’ ... - # ℹ 991 more rows + 224228.1 523628.1 1251165.0 1669034.2 - > library(patchwork) + > plot(dhs, axes = TRUE) - > hist(plan_sum, max_dev) + hist(iowa_plans, comp) + - + plot_layout(guides = "collect") + > qa <- quick.prevR(fdhs, return.results = TRUE, return.plot = TRUE, + + plot.results = FALSE, progression = FALSE) - When sourcing ‘redist.R’: - Error: object is not a unit + When sourcing ‘intro_prevR.R’: + Error: unused arguments (low = "grey50", high = "grey50") Execution halted - ‘common_args.Rmd’ using ‘UTF-8’... OK - ‘flip.Rmd’ using ‘UTF-8’... OK - ‘map-preproc.Rmd’ using ‘UTF-8’... OK - ‘redist.Rmd’ using ‘UTF-8’... failed + ‘intro_prevR.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘common_args.Rmd’ using rmarkdown + --- re-building ‘intro_prevR.Rmd’ using rmarkdown ``` ## In both * checking installed package size ... NOTE ``` - installed size is 29.5Mb + installed size is 8.4Mb sub-directories of 1Mb or more: - data 1.2Mb - libs 25.5Mb + data 7.5Mb ``` -# registr +# priorsense
-* Version: 2.1.0 +* Version: 1.0.4 * GitHub: NA -* Source code: https://github.com/cran/registr -* Date/Publication: 2022-10-02 21:40:02 UTC -* Number of recursive dependencies: 87 +* Source code: https://github.com/cran/priorsense +* Date/Publication: 2024-11-01 12:30:02 UTC +* Number of recursive dependencies: 112 -Run `revdepcheck::cloud_details(, "registr")` for more info +Run `revdepcheck::cloud_details(, "priorsense")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘priorsense-Ex.R’ failed + The error most likely occurred in: + + > ### Name: powerscale_plots + > ### Title: Diagnostic plots for power-scaling sensitivity + > ### Aliases: powerscale_plots powerscale_plot_dens powerscale_plot_ecdf + > ### powerscale_plot_ecdf.powerscaled_sequence powerscale_plot_quantities + > ### powerscale_plot_quantities.powerscaled_sequence + > + > ### ** Examples + > + > ex <- example_powerscale_model() + > + > powerscale_plot_dens(ex$draws) + Error in use_defaults(..., self = self) : + unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NU + Calls: ... -> -> compute_geom_2 -> + Execution halted + ``` + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘incomplete_curves.Rmd’ + when running code in ‘powerscaling.Rmd’ ... - + ggplot(reg4_joint$Y, aes(x = t_hat, y = value, group = id)) + - + geom_line(alpha = 0.3) + xlab("t [registered]") + .... [TRUNCATED] - - > if (have_ggplot2) { - + plot(reg4_joint$fpca_obj) - + } + + 1 mu 0.433 0.641 prior-data conflict + 2 sigma 0.360 0.674 prior-data conflict - ... - > if (have_ggplot2 && requireNamespace("cowplot", quietly = TRUE)) { - + registr:::plot.fpca(bfpca_object) - + } + > powerscale_plot_dens(fit, variable = "mu", facet_rows = "variable") - When sourcing ‘registr.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘powerscaling.R’: + Error: unused argument (theme = list(list("black", 0.545454545454545, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.545454545454545, 1, TRUE), list("sans", "plain", "black", 12, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.545454545454545, 0.545454545454545, 1, 1, "sans", 4.21751764217518, 1.63636363636364, 19, TRUE), 6, c(6, 6, 6, 6), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, + NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, Execution halted - ‘incomplete_curves.Rmd’ using ‘UTF-8’... failed - ‘registr.Rmd’ using ‘UTF-8’... failed + ‘powerscaling.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘incomplete_curves.Rmd’ using rmarkdown + ... + --- re-building ‘powerscaling.Rmd’ using rmarkdown + + Quitting from lines 124-125 [unnamed-chunk-7] (powerscaling.Rmd) + Error: processing vignette 'powerscaling.Rmd' failed with diagnostics: + unused argument (theme = list(list("black", 0.545454545454545, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.545454545454545, 1, TRUE), list("sans", "plain", "black", 12, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.545454545454545, 0.545454545454545, 1, 1, "sans", 4.21751764217518, 1.63636363636364, 19, TRUE), 6, c(6, 6, 6, 6), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, + NULL, c(3, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 3, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 3), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.4, + 0), NULL, TRUE), NULL, list(), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.4), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.4, 0, 2.4), NULL, TRUE), list("#333333FF", 0.3, NULL, NULL, FALSE, "#333333FF", FALSE), NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, 0.4, NULL, NULL, FALSE, NULL, + FALSE), NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, list(), NULL, 2, NULL, NULL, list(), 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 13, 0, NULL, NULL, NULL, NULL, NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list(), list(), 1.5, NULL, NULL, list(), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, + ... + NULL, NULL, NULL, FALSE, NULL, NULL, list(), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 6, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 6, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(6, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list(), NULL, NULL, "on", "outside", list(NULL, NULL, "#1A1A1AFF", 0.9, NULL, NULL, NULL, NULL, c(4.8, 4.8, 4.8, 4.8), + NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 3, 3, list(), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, FALSE, NULL, TRUE), list(NULL, NULL, NULL, NULL, 0.5, 0.5, 0, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), 0.666666666666667, + 0.333333333333333)) + --- failed re-building ‘powerscaling.Rmd’ + + SUMMARY: processing the following file failed: + ‘powerscaling.Rmd’ + + Error: Vignette re-building failed. + Execution halted ``` -## In both +# probably + +
+ +* Version: 1.0.3 +* GitHub: https://github.com/tidymodels/probably +* Source code: https://github.com/cran/probably +* Date/Publication: 2024-02-23 03:20:02 UTC +* Number of recursive dependencies: 131 + +Run `revdepcheck::cloud_details(, "probably")` for more info + +
+ +## Newly broken * checking examples ... ERROR ``` - Running examples in ‘registr-Ex.R’ failed + Running examples in ‘probably-Ex.R’ failed The error most likely occurred in: - > ### Name: fpca_gauss - > ### Title: Functional principal components analysis via variational EM - > ### Aliases: fpca_gauss + > ### Name: cal_plot_breaks + > ### Title: Probability calibration plots via binning + > ### Aliases: cal_plot_breaks cal_plot_breaks.data.frame + > ### cal_plot_breaks.tune_results cal_plot_breaks.grouped_df > > ### ** Examples > - > data(growth_incomplete) ... > - > # estimate 2 FPCs - > fpca_obj = fpca_gauss(Y = growth_incomplete, npc = 2) - Warning in (function (npc, npc_varExplained = NULL, Kt, maxiter, print.iter, : - fpca_gauss convergence not reached. Try increasing maxiter. - > plot(fpca_obj) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > # The grouping can be faceted in ggplot2 + > combined %>% + + cal_plot_logistic(Class, .pred_good, .by = source) + + + facet_wrap(~source) + + + theme(legend.position = "") + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` +* checking tests ... ERROR + ``` + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files + ... + + `actual$ymin` is absent + `expected$ymin` is a character vector ('lower') + + `actual$ymax` is absent + `expected$ymax` is a character vector ('upper') + + [ FAIL 2 | WARN 0 | SKIP 46 | PASS 466 ] + Error: Test failures + Execution halted + ``` + +# processmapR + +
+ +* Version: 0.5.6 +* GitHub: https://github.com/bupaverse/processmapr +* Source code: https://github.com/cran/processmapR +* Date/Publication: 2024-12-03 12:50:02 UTC +* Number of recursive dependencies: 117 + +Run `revdepcheck::cloud_details(, "processmapR")` for more info + +
+ +## Newly broken + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(registr) - Warning message: - In check_dep_version() : ABI version mismatch: - lme4 was built with Matrix ABI version 1 - Current Matrix ABI version is 0 - Please re-install lme4 from source or restore original 'Matrix' package + > library(processmapR) + + Attaching package: 'processmapR' + + The following object is masked from 'package:stats': + ... - 12. └─methods (local) ``(...) - 13. └─methods::new(def, ...) - 14. ├─methods::initialize(value, ...) - 15. └─methods::initialize(value, ...) - 16. └─.Object$initialize(...) - 17. └─lme4 (local) initializePtr() + 10. └─processmapR:::return_plotly(p, plotly) + 11. ├─plotly::ggplotly(p) + 12. └─plotly:::ggplotly.ggplot(p) + 13. └─plotly::gg2list(...) + ── Failure ('test_trace_explorer.R:240:3'): test trace_explorer on eventlog with param `plotly` ── + `chart` inherits from 'gg'/'ggplot' not 'plotly'. - [ FAIL 13 | WARN 6 | SKIP 6 | PASS 166 ] + [ FAIL 6 | WARN 0 | SKIP 11 | PASS 105 ] Error: Test failures Execution halted ``` -* checking C++ specification ... NOTE +# profoc + +
+ +* Version: 1.3.3 +* GitHub: https://github.com/BerriJ/profoc +* Source code: https://github.com/cran/profoc +* Date/Publication: 2024-09-21 22:10:02 UTC +* Number of recursive dependencies: 72 + +Run `revdepcheck::cloud_details(, "profoc")` for more info + +
+ +## Newly broken + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘profoc.Rmd’ + ... + 9 1 D1 0.09 -1.01 + 10 1 D1 0.1 -0.922 + # ℹ 3,158 more rows + + > ggplot(tidy(combination$predictions), aes(x = t, y = prediction, + + group = p, colour = p)) + geom_line() + scale_color_continuous(low = "#FFDD0 ..." ... [TRUNCATED] + + When sourcing ‘profoc.R’: + Error: unused arguments (low = "#FFDD00", high = "#0057B7") + Execution halted + + ‘class.Rmd’ using ‘UTF-8’... OK + ‘production.Rmd’ using ‘UTF-8’... OK + ‘profoc.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE ``` - Specified C++11: please drop specification unless essential + Error(s) in re-building vignettes: + --- re-building ‘class.Rmd’ using rmarkdown + 0% 10 20 30 40 50 60 70 80 90 100% + [----|----|----|----|----|----|----|----|----|----| + **************************************************| + --- finished re-building ‘class.Rmd’ + + --- re-building ‘production.Rmd’ using rmarkdown + 0% 10 20 30 40 50 60 70 80 90 100% + [----|----|----|----|----|----|----|----|----|----| + **************************************************| + --- finished re-building ‘production.Rmd’ + + --- re-building ‘profoc.Rmd’ using rmarkdown ``` +## In both + * checking installed package size ... NOTE ``` - installed size is 5.3Mb + installed size is 20.5Mb sub-directories of 1Mb or more: - doc 1.8Mb - libs 3.1Mb + doc 1.4Mb + libs 18.3Mb ``` -# reliabilitydiag +# promor
* Version: 0.2.1 -* GitHub: https://github.com/aijordan/reliabilitydiag -* Source code: https://github.com/cran/reliabilitydiag -* Date/Publication: 2022-06-29 00:20:06 UTC -* Number of recursive dependencies: 73 +* GitHub: https://github.com/caranathunge/promor +* Source code: https://github.com/cran/promor +* Date/Publication: 2023-07-17 22:30:02 UTC +* Number of recursive dependencies: 164 -Run `revdepcheck::cloud_details(, "reliabilitydiag")` for more info +Run `revdepcheck::cloud_details(, "promor")` for more info
@@ -22127,38 +14304,60 @@ Run `revdepcheck::cloud_details(, "reliabilitydiag")` for more info * checking examples ... ERROR ``` - Running examples in ‘reliabilitydiag-Ex.R’ failed + Running examples in ‘promor-Ex.R’ failed The error most likely occurred in: - > ### Name: c.reliabilitydiag - > ### Title: Combining reliability diagram objects - > ### Aliases: c.reliabilitydiag + > ### Name: volcano_plot + > ### Title: Volcano plot + > ### Aliases: volcano_plot > > ### ** Examples > - > data("precip_Niamey_2016", package = "reliabilitydiag") > - > X <- precip_Niamey_2016[c("EMOS", "ENS")] - > Y <- precip_Niamey_2016$obs - > r0 <- reliabilitydiag0(Y) - > r1 <- c(r0, X, EPC = precip_Niamey_2016$EPC, region.level = NA) - > r1 - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > ## Create a volcano plot with default settings. + > volcano_plot(ecoli_fit_df) + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% + Execution halted + ``` + +## In both + +* checking running R code from vignettes ... ERROR + ``` + Errors in running code in vignettes: + when running code in ‘intro_to_promor.Rmd’ + ... + + > knitr::include_graphics("../man/figures/promor_ProtAnalysisFlowChart_small.png") + + When sourcing ‘intro_to_promor.R’: + Error: Cannot find the file(s): "../man/figures/promor_ProtAnalysisFlowChart_small.png" Execution halted + + ‘intro_to_promor.Rmd’ using ‘UTF-8’... failed + ``` + +* checking installed package size ... NOTE + ``` + installed size is 5.2Mb + sub-directories of 1Mb or more: + data 2.5Mb + help 1.6Mb ``` -# relliptical +# protag
-* Version: 1.3.0 +* Version: 1.0.0 * GitHub: NA -* Source code: https://github.com/cran/relliptical -* Date/Publication: 2024-02-07 12:50:02 UTC -* Number of recursive dependencies: 73 +* Source code: https://github.com/cran/protag +* Date/Publication: 2019-08-09 10:10:02 UTC +* Number of recursive dependencies: 48 -Run `revdepcheck::cloud_details(, "relliptical")` for more info +Run `revdepcheck::cloud_details(, "protag")` for more info
@@ -22166,222 +14365,200 @@ Run `revdepcheck::cloud_details(, "relliptical")` for more info * checking examples ... ERROR ``` - Running examples in ‘relliptical-Ex.R’ failed + Running examples in ‘protag-Ex.R’ failed The error most likely occurred in: - > ### Name: rtelliptical - > ### Title: Sampling Random Numbers from Truncated Multivariate Elliptical - > ### Distributions - > ### Aliases: rtelliptical + > ### Name: tag.search + > ### Title: tag.search + > ### Aliases: tag.search > > ### ** Examples > + > search.result <- tag.search(myoglobin, delta = c(14, 28), error.Da.pair = .3) ... - > Sigma = matrix(c(1,-0.5,-0.5,1), 2, 2) - > lower = c(-2, -2) - > upper = c(3, 2) - > sample4 = rtelliptical(2000, mu, Sigma, lower, upper, gFun=function(t){t^(-1/2)*exp(-2*t^(1/4))}) - > f1 = ggplot(data.frame(sample4), aes(x=X1,y=X2)) + geom_point(size=0.50) + - + labs(x=expression(X[1]), y=expression(X[2]), subtitle="Kotz(2,1/4,1/2)") + theme_bw() - > ggMarginal(f1, type="histogram", fill="grey") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggMarginal ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + [1] "Found both paired peaks (mass differentiate by expected delta) and matched peaks (of the same mass)." + + > tag.spectra.listplot(search.result) + + Great plot! + + Error in switch(direction, vertical = c("left", "top"), horizontal = c("center", : + EXPR must be a length 1 vector + Calls: ... -> assemble -> -> package_box -> %||% Execution halted ``` ## In both -* checking installed package size ... NOTE +* checking dependencies in R code ... NOTE ``` - installed size is 6.6Mb - sub-directories of 1Mb or more: - libs 6.5Mb + Namespaces in Imports field not imported from: + ‘RColorBrewer’ ‘grDevices’ + All declared Imports should be used. ``` -# reportRmd +# psborrow
-* Version: 0.1.0 +* Version: 0.2.1 * GitHub: NA -* Source code: https://github.com/cran/reportRmd -* Date/Publication: 2023-11-16 17:00:03 UTC -* Number of recursive dependencies: 112 +* Source code: https://github.com/cran/psborrow +* Date/Publication: 2023-03-03 10:30:07 UTC +* Number of recursive dependencies: 107 -Run `revdepcheck::cloud_details(, "reportRmd")` for more info +Run `revdepcheck::cloud_details(, "psborrow")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘reportRmd-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotuv - > ### Title: Plot multiple bivariate relationships in a single plot - > ### Aliases: plotuv - > ### Keywords: plot - > - > ### ** Examples - > + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(psborrow) + > + > test_check("psborrow") + [ FAIL 10 | WARN 0 | SKIP 1 | PASS 142 ] + + ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ ... - > plotuv(data=pembrolizumab, response='cbr', - + covs=c('age','sex','l_size','baseline_ctdna'),showN=TRUE) - Warning: `stat(count)` was deprecated in ggplot2 3.4.0. - ℹ Please use `after_stat(count)` instead. - ℹ The deprecated feature was likely used in the reportRmd package. - Please report the issue to the authors. - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.segments -> grid.Call.graphics - Execution halted + `expected` is a character vector ('ref') + ── Failure ('test-plots.R:126:5'): Ensure output is producing a ggplot2 object with appropriate parameters ── + p1$labels$yintercept (`actual`) not equal to "ref" (`expected`). + + `actual` is NULL + `expected` is a character vector ('ref') + + [ FAIL 10 | WARN 0 | SKIP 1 | PASS 142 ] + Error: Test failures + Execution halted ``` +# psc + +
+ +* Version: 1.1.0 +* GitHub: https://github.com/richJJackson/psc +* Source code: https://github.com/cran/psc +* Date/Publication: 2024-12-12 21:30:02 UTC +* Number of recursive dependencies: 175 + +Run `revdepcheck::cloud_details(, "psc")` for more info + +
+ +## Newly broken + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘reportRmd.Rmd’ + when running code in ‘psc-vignette.Rmd’ ... - > ctDNA <- clear_labels(ctDNA) + beta 0.3524 0.1178 0.5659 0.0012 0.9988 + DIC 280.8252 273.6059 292.8416 NA NA - > plotuv(data = pembrolizumab, response = "orr", covs = c("age", - + "cohort", "pdl1", "change_ctdna_group")) - Boxplots not shown for categories with fewer than 20 observations. - Boxplots not shown for categories with fewer than 20 observations. + > plot(surv.psc) + Warning: Ignoring unknown labels: + • `linetype = "1"` - When sourcing ‘reportRmd.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘psc-vignette.R’: + Error: non-numeric argument to binary operator Execution halted - ‘reportRmd.Rmd’ using ‘UTF-8’... failed + ‘psc-vignette.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘reportRmd.Rmd’ using rmarkdown - - Quitting from lines 380-383 [unnamed-chunk-30] (reportRmd.Rmd) - Error: processing vignette 'reportRmd.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘reportRmd.Rmd’ - - SUMMARY: processing the following file failed: - ‘reportRmd.Rmd’ - - Error: Vignette re-building failed. - Execution halted + --- re-building ‘psc-vignette.Rmd’ using rmarkdown ``` -# reservr +# PSCBS
-* Version: 0.0.3 -* GitHub: https://github.com/AshesITR/reservr -* Source code: https://github.com/cran/reservr -* Date/Publication: 2024-06-24 16:40:02 UTC -* Number of recursive dependencies: 134 +* Version: 0.67.0 +* GitHub: https://github.com/HenrikBengtsson/PSCBS +* Source code: https://github.com/cran/PSCBS +* Date/Publication: 2024-02-17 19:10:02 UTC +* Number of recursive dependencies: 44 -Run `revdepcheck::cloud_details(, "reservr")` for more info +Run `revdepcheck::cloud_details(, "PSCBS")` for more info
## Newly broken -* checking examples ... ERROR +* checking installed package size ... NOTE ``` - Running examples in ‘reservr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: blended_transition - > ### Title: Transition functions for blended distributions - > ### Aliases: blended_transition blended_transition_inv - > - > ### ** Examples - > - > library(ggplot2) - ... - + theme_bw() %+% - + theme( - + legend.position = "bottom", legend.box = "horizontal" - + ) %+% - + guides(color = guide_legend(direction = "horizontal", title = ""), linetype = guide_none()) %+% - + scale_linetype_manual(values = c("TRUE" = 1, "FALSE" = 3)) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + installed size is 5.4Mb + sub-directories of 1Mb or more: + R 1.5Mb + data-ex 2.6Mb ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘distributions.Rmd’ using rmarkdown - - Quitting from lines 170-227 [unnamed-chunk-10] (distributions.Rmd) - Error: processing vignette 'distributions.Rmd' failed with diagnostics: - object is not a unit - --- failed re-building ‘distributions.Rmd’ - - --- re-building ‘jss_paper.Rmd’ using rmarkdown - ``` +# PupilPre -## In both +
+ +* Version: 0.6.2 +* GitHub: NA +* Source code: https://github.com/cran/PupilPre +* Date/Publication: 2020-03-10 05:20:02 UTC +* Number of recursive dependencies: 72 + +Run `revdepcheck::cloud_details(, "PupilPre")` for more info + +
+ +## Newly broken * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘distributions.Rmd’ + when running code in ‘PupilPre_Plotting.Rmd’ ... - > attr(trunc_fit$logLik, "nobs") - [1] 62 - - > plot_distributions(true = norm, fit1 = norm, fit2 = norm2, - + fit3 = dist_normal(3), .x = seq(-2, 7, 0.01), with_params = list(true = list(mean .... [TRUNCATED] - - ... - - > dist$sample(1) + > gridExtra::grid.arrange(ppl_plot_avg(data = dat, xlim = c(0, + + 2000), Column = "Pupil", Condition1 = NULL, Condition2 = NULL, + + Cond1Label .... [TRUNCATED] + Grand average calculated using Event means. + Grand average calculated using Event means. - When sourcing ‘jss_paper.R’: - Error: invalid arguments + When sourcing ‘PupilPre_Plotting.R’: + Error: invalid line type Execution halted - ‘distributions.Rmd’ using ‘UTF-8’... failed - ‘jss_paper.Rmd’ using ‘UTF-8’... failed - ‘tensorflow.Rmd’ using ‘UTF-8’... OK - ``` - -* checking installed package size ... NOTE - ``` - installed size is 15.8Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 1.2Mb - libs 12.8Mb + ‘PupilPre_Basic_Preprocessing.Rmd’ using ‘UTF-8’... OK + ‘PupilPre_Cleanup.Rmd’ using ‘UTF-8’... OK + ‘PupilPre_Interpolation_and_Filtering.Rmd’ using ‘UTF-8’... OK + ‘PupilPre_Message_Alignment.Rmd’ using ‘UTF-8’... OK + ‘PupilPre_Plotting.Rmd’ using ‘UTF-8’... failed ``` -* checking for GNU extensions in Makefiles ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - GNU make is a SystemRequirements. + Error(s) in re-building vignettes: + --- re-building ‘PupilPre_Basic_Preprocessing.Rmd’ using rmarkdown ``` -# RestoreNet +# qlifetable
-* Version: 1.0.1 +* Version: 0.0.2-5 * GitHub: NA -* Source code: https://github.com/cran/RestoreNet -* Date/Publication: 2024-02-15 11:00:02 UTC -* Number of recursive dependencies: 53 +* Source code: https://github.com/cran/qlifetable +* Date/Publication: 2024-06-28 07:30:07 UTC +* Number of recursive dependencies: 29 -Run `revdepcheck::cloud_details(, "RestoreNet")` for more info +Run `revdepcheck::cloud_details(, "qlifetable")` for more info
@@ -22389,149 +14566,89 @@ Run `revdepcheck::cloud_details(, "RestoreNet")` for more info * checking examples ... ERROR ``` - Running examples in ‘RestoreNet-Ex.R’ failed + Running examples in ‘qlifetable-Ex.R’ failed The error most likely occurred in: - > ### Name: get.scatterpie - > ### Title: Clonal pie-chart - > ### Aliases: get.scatterpie + > ### Name: plot.qlifetable + > ### Title: Graphical representation in a 4x4 raster of a qlifetable data + > ### frame. + > ### Aliases: plot.qlifetable > > ### ** Examples > - > rcts <- c("A->1", "B->1", "C->1", "D->1", - ... - computing A^-1... - computing rho... - computing Chi2... - computing KLdiv... - computing BhattDist... - > - > get.scatterpie(re.res, txt = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: get.scatterpie ... ggplot_add.layer_scatterpie -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > dates.b <- c("1920-05-13", "1999-04-12", "2019-01-01") + > dates.e <- c("2002-03-23", "2009-04-12", "2019-01-01") + > x <- quarterly_variables(dates.b, dates.e) + > out <- time_exposed_outs(x) + > p <- plot(out, show.plot = FALSE) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#BEBEBEFF", low = "#BEBEBE66") + Calls: plot -> plot.qlifetable -> Execution halted ``` ## In both -* checking re-building of vignette outputs ... WARNING +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘RestoreNet.ltx’ using tex - Error: processing vignette 'RestoreNet.ltx' failed with diagnostics: - Running 'texi2dvi' on 'RestoreNet.ltx' failed. - LaTeX errors: - ! LaTeX Error: File `realboxes.sty' not found. - - Type X to quit or to proceed, - or enter new name. (Default extension: sty) - ... - l.12 \usepackage - {amssymb}^^M - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘RestoreNet.ltx’ - - SUMMARY: processing the following file failed: - ‘RestoreNet.ltx’ - - Error: Vignette re-building failed. - Execution halted + installed size is 5.4Mb + sub-directories of 1Mb or more: + data 5.0Mb ``` -# rfPermute +# quantities
-* Version: 2.5.2 -* GitHub: https://github.com/EricArcher/rfPermute -* Source code: https://github.com/cran/rfPermute -* Date/Publication: 2023-08-23 17:40:02 UTC -* Number of recursive dependencies: 76 +* Version: 0.2.3 +* GitHub: https://github.com/r-quantities/quantities +* Source code: https://github.com/cran/quantities +* Date/Publication: 2025-01-18 21:20:02 UTC +* Number of recursive dependencies: 75 -Run `revdepcheck::cloud_details(, "rfPermute")` for more info +Run `revdepcheck::cloud_details(, "quantities")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘rfPermute-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘introduction.Rmd’ + ... + 3.5.0. - > ### Name: plotTrace - > ### Title: Plot Trace - > ### Aliases: plotTrace - > - > ### ** Examples - > - > library(randomForest) - ... - randomForest 4.7-1.1 - Type rfNews() to see new features/changes/bug fixes. - > data(mtcars) - > - > rf <- randomForest(factor(am) ~ ., mtcars) - > plotTrace(rf) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: plotTrace ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > p0 + geom_errors() + + When sourcing ‘introduction.R’: + Error: Problem while converting geom to grob. + ℹ Error occurred in the 2nd layer. + Caused by error in `draw_panel()`: + ! unused argument (height = NULL) Execution halted + + ‘introduction.Rmd’ using ‘UTF-8’... failed + ‘parsing.Rmd’ using ‘UTF-8’... OK ``` -# RKorAPClient - -
- -* Version: 0.8.1 -* GitHub: https://github.com/KorAP/RKorAPClient -* Source code: https://github.com/cran/RKorAPClient -* Date/Publication: 2024-05-02 11:42:54 UTC -* Number of recursive dependencies: 124 - -Run `revdepcheck::cloud_details(, "RKorAPClient")` for more info - -
- -## Newly broken - -* checking tests ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library("testthat") - > library("RKorAPClient") - > - > test_check("RKorAPClient") - - apiUrl: https://korap.ids-mannheim.de/api/v1.0/ - [ FAIL 1 | WARN 0 | SKIP 30 | PASS 25 ] - ... - 'test-demos.R:129:3', 'test-textMetadata.R:2:3', 'test-textMetadata.R:9:3' - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-misc.R:224:5'): geom_freq_by_year_ci works correctly ───────── - gpt[["labels"]][["url"]] not equal to "webUIRequestUrl". - target is NULL, current is character - - [ FAIL 1 | WARN 0 | SKIP 30 | PASS 25 ] - Error: Test failures - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘introduction.Rmd’ using rmarkdown ``` -# roahd +# QurvE
-* Version: 1.4.3 -* GitHub: https://github.com/astamm/roahd -* Source code: https://github.com/cran/roahd -* Date/Publication: 2021-11-04 00:10:02 UTC -* Number of recursive dependencies: 88 +* Version: 1.1.1 +* GitHub: https://github.com/NicWir/QurvE +* Source code: https://github.com/cran/QurvE +* Date/Publication: 2024-01-26 12:40:14 UTC +* Number of recursive dependencies: 152 -Run `revdepcheck::cloud_details(, "roahd")` for more info +Run `revdepcheck::cloud_details(, "QurvE")` for more info
@@ -22539,26 +14656,26 @@ Run `revdepcheck::cloud_details(, "roahd")` for more info * checking examples ... ERROR ``` - Running examples in ‘roahd-Ex.R’ failed + Running examples in ‘QurvE-Ex.R’ failed The error most likely occurred in: - > ### Name: plot.depthgram - > ### Title: Specialized method to plot 'depthgram' objects - > ### Aliases: plot.depthgram - > - > ### ** Examples + > ### Name: plot.grid + > ### Title: Plot a matrix of growth curve panels + > ### Aliases: plot.grid > - > N <- 50 - ... - + N, - + centerline = sin(2 * pi * grid), - + Cov = Cov - + ) - > names <- paste0("id_", 1:nrow(Data[[1]])) - > DG <- depthgram(Data, marginal_outliers = TRUE, ids = names) - > plot(DG) - Error in pm[[2]] : subscript out of bounds - Calls: plot ... plotly_build -> ggplotly -> ggplotly.ggplot -> gg2list + > ### ** Examples + > + > # Create random growth data set + ... + > plot.grid(res, param = "mu.spline") + Warning in fortify(data, ...) : + Arguments in `...` must be used. + ✖ Problematic argument: + • col = "black" + ℹ Did you misspell an argument name? + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "#00441B", high = "#E5F5E0") + Calls: plot.grid -> Execution halted ``` @@ -22566,23 +14683,65 @@ Run `revdepcheck::cloud_details(, "roahd")` for more info * checking installed package size ... NOTE ``` - installed size is 7.4Mb + installed size is 5.9Mb sub-directories of 1Mb or more: - data 5.0Mb - doc 1.7Mb + R 1.5Mb + doc 2.1Mb + shiny_app 1.2Mb ``` -# robCompositions +# r2dii.plot
-* Version: 2.4.1 -* GitHub: NA -* Source code: https://github.com/cran/robCompositions -* Date/Publication: 2023-08-25 15:30:06 UTC -* Number of recursive dependencies: 148 +* Version: 0.4.0 +* GitHub: https://github.com/RMI-PACTA/r2dii.plot +* Source code: https://github.com/cran/r2dii.plot +* Date/Publication: 2024-02-29 16:40:02 UTC +* Number of recursive dependencies: 90 + +Run `revdepcheck::cloud_details(, "r2dii.plot")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR + ``` + Running ‘spelling.R’ + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(r2dii.plot) + > + > test_check("r2dii.plot") + Scale for colour is already present. + Adding another scale for colour, which will replace the existing scale. + ... + `expected` is a character vector ('year') + ── Failure ('test-plot_trajectory.R:41:3'): outputs default axis labels ──────── + p$labels$y (`actual`) not equal to "value" (`expected`). + + `actual` is NULL + `expected` is a character vector ('value') + + [ FAIL 2 | WARN 2 | SKIP 40 | PASS 122 ] + Error: Test failures + Execution halted + ``` + +# Radviz + +
+ +* Version: 0.9.3 +* GitHub: https://github.com/yannabraham/Radviz +* Source code: https://github.com/cran/Radviz +* Date/Publication: 2022-03-25 18:10:02 UTC +* Number of recursive dependencies: 64 -Run `revdepcheck::cloud_details(, "robCompositions")` for more info +Run `revdepcheck::cloud_details(, "Radviz")` for more info
@@ -22590,80 +14749,68 @@ Run `revdepcheck::cloud_details(, "robCompositions")` for more info * checking examples ... ERROR ``` - Running examples in ‘robCompositions-Ex.R’ failed + Running examples in ‘Radviz-Ex.R’ failed The error most likely occurred in: - > ### Name: biplot.pcaCoDa - > ### Title: Biplot method - > ### Aliases: biplot.pcaCoDa - > ### Keywords: aplot + > ### Name: Radviz + > ### Title: Radviz Projection of Multidimensional Data + > ### Aliases: Radviz > > ### ** Examples > - ... - > ## with labels for the scores: - > data(arcticLake) - > rownames(arcticLake) <- paste(sample(letters[1:26], nrow(arcticLake), replace=TRUE), - + 1:nrow(arcticLake), sep="") - > pc <- pcaCoDa(arcticLake, method="classical") - > plot(pc, xlabs=rownames(arcticLake), which = 2) - > plot(pc, xlabs=rownames(arcticLake), which = 3) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > data(iris) + > das <- c('Sepal.Length','Sepal.Width','Petal.Length','Petal.Width') + > S <- make.S(das) + > rv <- do.radviz(iris,S) + > plot(rv,anchors.only=FALSE) + Error in plot.radviz(rv, anchors.only = FALSE) : + 'language' object cannot be coerced to type 'double' + Calls: plot -> plot.radviz Execution halted ``` -## In both - -* checking installed package size ... NOTE - ``` - installed size is 24.6Mb - sub-directories of 1Mb or more: - data 2.0Mb - libs 21.3Mb - ``` - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 1 marked UTF-8 string - ``` - -* checking re-building of vignette outputs ... NOTE +* checking running R code from vignettes ... ERROR ``` - Error(s) in re-building vignettes: - --- re-building ‘imputation.Rnw’ using knitr - Error: processing vignette 'imputation.Rnw' failed with diagnostics: - Running 'texi2dvi' on 'imputation.tex' failed. - LaTeX errors: - ! LaTeX Error: File `scrartcl.cls' not found. + Errors in running code in vignettes: + when running code in ‘multivariate_analysis.Rmd’ + ... - Type X to quit or to proceed, - or enter new name. (Default extension: cls) + > classic.S <- make.S(get.optim(classic.optim)) + + > btcells.rv <- do.radviz(btcells.df, classic.S) + + > plot(btcells.rv) + geom_point(aes(color = Treatment)) ... - l.3 \usepackage - [pdftex]{hyperref}^^M - ! ==> Fatal error occurred, no output PDF file produced! - --- failed re-building ‘robCompositions-overview.Rnw’ + [1] 15792 18 - SUMMARY: processing the following files failed: - ‘imputation.Rnw’ ‘robCompositions-overview.Rnw’ + > ct.rv - Error: Vignette re-building failed. + When sourcing ‘single_cell_projections.R’: + Error: 'language' object cannot be coerced to type 'double' Execution halted + + ‘multivariate_analysis.Rmd’ using ‘UTF-8’... failed + ‘single_cell_projections.Rmd’ using ‘UTF-8’... failed ``` -# romic +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘multivariate_analysis.Rmd’ using rmarkdown + ``` + +# rassta
-* Version: 1.1.3 -* GitHub: NA -* Source code: https://github.com/cran/romic -* Date/Publication: 2023-09-21 05:40:02 UTC -* Number of recursive dependencies: 113 +* Version: 1.0.6 +* GitHub: https://github.com/bafuentes/rassta +* Source code: https://github.com/cran/rassta +* Date/Publication: 2024-08-19 06:20:13 UTC +* Number of recursive dependencies: 108 -Run `revdepcheck::cloud_details(, "romic")` for more info +Run `revdepcheck::cloud_details(, "rassta")` for more info
@@ -22671,113 +14818,109 @@ Run `revdepcheck::cloud_details(, "romic")` for more info * checking examples ... ERROR ``` - Running examples in ‘romic-Ex.R’ failed + Running examples in ‘rassta-Ex.R’ failed The error most likely occurred in: - > ### Name: plot_bivariate - > ### Title: Bivariate Plot - > ### Aliases: plot_bivariate + > ### Name: select_functions + > ### Title: Select Constrained Univariate Distribution Functions + > ### Aliases: select_functions > > ### ** Examples > - > library(dplyr) + > require(terra) ... - > brauer_augmented <- brauer_2008_tidy %>% - + add_pcs(npcs = 5) %>% - + tomic_to("triple_omic") - 40 features dropped due to missing values - > - > tomic_table <- brauer_augmented$samples - > plot_bivariate(tomic_table, "PC1", "PC2", "nutrient", "nutrient", 0.5, 10) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_bivariate ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > tvars <- terra::rast(tf) + > # Single-layer SpatRaster of topographic classification units + > ## 5 classification units + > tcf <- list.files(path = p, pattern = "topography.tif", full.names = TRUE) + > tcu <- terra::rast(tcf) + > # Automatic selection of distribution functions + > tdif <- select_functions(cu.rast = tcu, var.rast = tvars, fun = mean) + Error in pm[[2]] : subscript out of bounds + Calls: select_functions -> -> ggplotly.ggplot -> gg2list Execution halted ``` * checking tests ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html - ... - 1. └─romic::plot_bivariate(...) at test-module_ggbiv.R:8:3 - 2. └─ggplot2:::`+.gg`(ggplot(tomic_table, running_aes), plot_call) - 3. └─ggplot2:::add_ggplot(e1, e2, e2name) - 4. ├─ggplot2::ggplot_add(object, p, objectname) - 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 6. └─ggplot2:::new_layer_names(object, names(plot$layers)) + > + > if ( requireNamespace("tinytest", quietly=TRUE) ){ + + tinytest::test_package("rassta") + + } - [ FAIL 2 | WARN 0 | SKIP 7 | PASS 64 ] - Error: Test failures + Attaching package: 'rassta' + + ... + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests + test_select_functions.R....... 0 tests Error in pm[[2]] : subscript out of bounds + Calls: ... select_functions -> -> ggplotly.ggplot -> gg2list Execution halted ``` -# roptions +# rasterdiv
-* Version: 1.0.3 -* GitHub: NA -* Source code: https://github.com/cran/roptions -* Date/Publication: 2020-05-11 11:10:06 UTC -* Number of recursive dependencies: 70 +* Version: 0.3.6 +* GitHub: https://github.com/mattmar/rasterdiv +* Source code: https://github.com/cran/rasterdiv +* Date/Publication: 2024-11-06 11:20:03 UTC +* Number of recursive dependencies: 102 -Run `revdepcheck::cloud_details(, "roptions")` for more info +Run `revdepcheck::cloud_details(, "rasterdiv")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘roptions-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘rasterdiv_04_Accumulation_Rao.Rmd’ + ... - > ### Name: box.spread - > ### Title: Box Spread Strategy Function - > ### Aliases: box.spread - > - > ### ** Examples - > - > box.spread(100, 105, 95, 110, 3.2, 2.6, 1.1, 2.4) - ... - 35 5.7 - 36 5.7 - 37 5.7 - 38 5.7 - 39 5.7 - 40 5.7 - 41 5.7 - Error in pm[[2]] : subscript out of bounds - Calls: box.spread -> print -> ggplotly -> ggplotly.ggplot -> gg2list + > grid.arrange(l1, l2, g1, layout_matrix = rbind(c(1, + + 2), c(3, 3))) + + When sourcing ‘rasterdiv_04_Accumulation_Rao.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 5th layer. + Caused by error in `list_sizes()`: + ! `x$label` must be a vector, not an expression vector. Execution halted + + ‘rasterdiv_01_Basics.Rmd’ using ‘UTF-8’... OK + ‘rasterdiv_02_Area_based_Rao.Rmd’ using ‘UTF-8’... OK + ‘rasterdiv_03_Advanced_multidimension_Rao.Rmd’ using ‘UTF-8’... OK + ‘rasterdiv_04_Accumulation_Rao.Rmd’ using ‘UTF-8’... failed ``` -## In both - -* checking LazyData ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - 'LazyData' is specified without a 'data' directory + Error(s) in re-building vignettes: + --- re-building ‘rasterdiv_01_Basics.Rmd’ using rmarkdown ``` -# rSAFE +# rater
-* Version: 0.1.4 -* GitHub: https://github.com/ModelOriented/rSAFE -* Source code: https://github.com/cran/rSAFE -* Date/Publication: 2022-08-13 13:20:02 UTC -* Number of recursive dependencies: 116 +* Version: 1.3.1 +* GitHub: https://github.com/jeffreypullin/rater +* Source code: https://github.com/cran/rater +* Date/Publication: 2023-09-11 17:40:02 UTC +* Number of recursive dependencies: 91 -Run `revdepcheck::cloud_details(, "rSAFE")` for more info +Run `revdepcheck::cloud_details(, "rater")` for more info
@@ -22785,71 +14928,54 @@ Run `revdepcheck::cloud_details(, "rSAFE")` for more info * checking tests ... ERROR ``` - Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(rSAFE) - Welcome to rSAFE (version: 0.1.4). + > library(rater) + * The rater package uses `Stan` to fit bayesian models. + * If you are working on a local, multicore CPU with excess RAM please call: + * options(mc.cores = parallel::detectCores()) + * This will allow Stan to run inference on multiple cores in parallel. > - > test_check("rSAFE") - Single variables processing... ... - 8. └─ggplot2:::add_ggplot(e1, e2, e2name) - 9. ├─ggplot2::ggplot_add(object, p, objectname) - 10. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 11. └─ggplot2:::new_layer_names(object, names(plot$layers)) + ── Failure ('test_plotting.R:65:3'): plot_theta_points output has correct type ── + get_geoms(ds_plot) (`actual`) not equal to c("GeomPoint", "GeomErrorbar") (`expected`). - [ FAIL 1 | WARN 10 | SKIP 0 | PASS 56 ] - Deleting unused snapshots: - • extraction/plot-continuous-variable.svg + `names(actual)` is a character vector ('geom_point', 'geom_errorbar') + `names(expected)` is absent + + [ FAIL 4 | WARN 0 | SKIP 6 | PASS 375 ] Error: Test failures + In addition: There were 12 warnings (use warnings() to see them) Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘example_apartments.Rmd’ - ... - - > plot(safe_extractor, variable = "district") - Warning: The `` argument of `guides()` cannot be `FALSE`. Use "none" instead as - of ggplot2 3.3.4. - ℹ The deprecated feature was likely used in the rSAFE package. - Please report the issue at . - - ... - of ggplot2 3.3.4. - ℹ The deprecated feature was likely used in the rSAFE package. - Please report the issue at . - - When sourcing ‘example_hr.R’: - Error: argument is of length zero - Execution halted - - ‘example_apartments.Rmd’ using ‘UTF-8’... failed - ‘example_hr.Rmd’ using ‘UTF-8’... failed +## In both + +* checking installed package size ... NOTE + ``` + installed size is 124.5Mb + sub-directories of 1Mb or more: + libs 123.7Mb ``` -* checking re-building of vignette outputs ... NOTE +* checking for GNU extensions in Makefiles ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘example_apartments.Rmd’ using rmarkdown + GNU make is a SystemRequirements. ``` -# santaR +# ratlas
-* Version: 1.2.4 -* GitHub: https://github.com/adwolfer/santaR -* Source code: https://github.com/cran/santaR -* Date/Publication: 2024-03-07 00:30:02 UTC -* Number of recursive dependencies: 93 +* Version: 0.1.0 +* GitHub: https://github.com/atlas-aai/ratlas +* Source code: https://github.com/cran/ratlas +* Date/Publication: 2024-11-06 16:20:02 UTC +* Number of recursive dependencies: 138 -Run `revdepcheck::cloud_details(, "santaR")` for more info +Run `revdepcheck::cloud_details(, "ratlas")` for more info
@@ -22857,130 +14983,81 @@ Run `revdepcheck::cloud_details(, "santaR")` for more info * checking tests ... ERROR ``` + Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(santaR) - - This is santaR version 1.2.4 - + > library(ratlas) + NOTE: Either Arial Narrow or Montserrat fonts are required to use these themes. + Please use ratlas::import_montserrat() to install Montserrat and + if Arial Narrow is not on your system, please see https://bit.ly/arialnarrow > - > test_check("santaR") - ... - 1/1 mismatches - [1] 11 - 10 == 1 - ── Failure ('test_dfSearch-plot_nbTP_histogram.R:69:3'): change dfCuttOff ────── - length(result_nbTPHisto) not equal to length(ggplot2::ggplot()). - 1/1 mismatches - [1] 11 - 10 == 1 - - [ FAIL 8 | WARN 4 | SKIP 0 | PASS 681 ] + ... + • okabeito-color-scales/okabeito-fill.svg + • okabeito-color-scales/okabeito-lighten.svg + • stat-bin/bins30-bound0.svg + • stat-bin/no-color-hist.svg + • stat-bin/one-bin.svg + • stat-bin/trimmed-hist-bound0.svg + • stat-bin/trimmed-hist-center0.svg + • themes/theme-atlas.svg Error: Test failures Execution halted ``` +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘plotting.Rmd’ using rmarkdown + ``` + ## In both * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘getting-started.Rmd’ + when running code in ‘plotting.Rmd’ ... + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database + Warning in grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + font family 'Arial Narrow' not found in PostScript font database - > knitr::include_graphics("../man/figures/santaR-approach.jpg") - - When sourcing ‘getting-started.R’: - Error: Cannot find the file(s): "../man/figures/santaR-approach.jpg" - Execution halted - when running code in ‘selecting-optimal-df.Rmd’ ... - Execution halted - ‘advanced-command-line-functions.Rmd’ using ‘UTF-8’... OK - ‘automated-command-line.Rmd’ using ‘UTF-8’... OK - ‘getting-started.Rmd’ using ‘UTF-8’... failed - ‘plotting-options.Rmd’ using ‘UTF-8’... OK - ‘prepare-input-data.Rmd’ using ‘UTF-8’... OK - ‘selecting-optimal-df.Rmd’ using ‘UTF-8’... failed - ‘theoretical-background.Rmd’ using ‘UTF-8’... OK - ‘santaR-GUI.pdf.asis’ using ‘UTF-8’... OK - ``` - -# saros - -
- -* Version: 1.2.0 -* GitHub: https://github.com/NIFU-NO/saros -* Source code: https://github.com/cran/saros -* Date/Publication: 2024-09-03 07:40:02 UTC -* Number of recursive dependencies: 118 - -Run `revdepcheck::cloud_details(, "saros")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘saros-Ex.R’ failed - The error most likely occurred in: + > include_graphics(c(here("vignettes", "images", "01-new-project.png"), + + here("vignettes", "images", "02-new-directory.png"), here("vignettes", .... [TRUNCATED] - > ### Name: fig_height_h_barchart2 - > ### Title: Estimate figure height for a horizontal bar chart - > ### Aliases: fig_height_h_barchart2 - > - > ### ** Examples - > - > fig_height_h_barchart2(makeme(data=ex_survey, dep=b_1:b_3, indep=x1_sex)) - Warning in fortify(data, ...) : - Arguments in `...` must be used. - ✖ Problematic argument: - • cumulative = TRUE - ℹ Did you misspell an argument name? - Error in if (new_name %in% existing) { : argument is of length zero - Calls: fig_height_h_barchart2 ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + When sourcing ‘report-writing.R’: + Error: Cannot find the file(s): "/tmp/RtmpJmZKYK/file14e857f46991/vignettes/vignettes/images/01-new-project.png"; "/tmp/RtmpJmZKYK/file14e857f46991/vignettes/vignettes/images/02-new-directory.png"; "/tmp/RtmpJmZKYK/file14e857f46991/vignettes/vignettes/images/03-techreport.png"; "/tmp/RtmpJmZKYK/file14e857f46991/vignettes/vignettes/images/04-name-report.png" Execution halted + + ‘plotting.Rmd’ using ‘UTF-8’... failed + ‘report-writing.Rmd’ using ‘UTF-8’... failed ``` -* checking tests ... ERROR +* checking installed package size ... NOTE ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(saros) - > - > testthat::test_check("saros") - Starting 2 test processes - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 194 ] - ... - 9. └─saros:::make_content.cat_plot_html(...) - 10. └─ggplot2:::`+.gg`(...) - 11. └─ggplot2:::add_ggplot(e1, e2, e2name) - 12. ├─ggplot2::ggplot_add(object, p, objectname) - 13. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 14. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 194 ] - Error: Test failures - Execution halted + installed size is 5.1Mb + sub-directories of 1Mb or more: + doc 2.6Mb + rstudio 1.6Mb ``` -# scatterpie +# RavenR
-* Version: 0.2.4 -* GitHub: NA -* Source code: https://github.com/cran/scatterpie -* Date/Publication: 2024-08-28 17:20:02 UTC -* Number of recursive dependencies: 67 +* Version: 2.2.2 +* GitHub: https://github.com/rchlumsk/RavenR +* Source code: https://github.com/cran/RavenR +* Date/Publication: 2024-05-07 03:30:02 UTC +* Number of recursive dependencies: 133 -Run `revdepcheck::cloud_details(, "scatterpie")` for more info +Run `revdepcheck::cloud_details(, "RavenR")` for more info
@@ -22988,323 +15065,219 @@ Run `revdepcheck::cloud_details(, "scatterpie")` for more info * checking examples ... ERROR ``` - Running examples in ‘scatterpie-Ex.R’ failed + Running examples in ‘RavenR-Ex.R’ failed The error most likely occurred in: - > ### Name: geom_scatterpie - > ### Title: geom_scatterpie - > ### Aliases: geom_scatterpie geom_scatterpie2 + > ### Name: rvn_met_recordplot + > ### Title: EC Climate Gauge Record Overlap Visualization + > ### Aliases: rvn_met_recordplot > > ### ** Examples > - > library(ggplot2) + > # load metadata from RavenR sample data ... - > d$C <- abs(rnorm(5, sd=3)) + > # ) + > # metadata = metadata[metadata$start>=2000,] # subset stations with recent data + > # metadata = metadata[1:3,] # take only the first 3 stations for brevity > - > ggplot() + - + geom_scatterpie( - + aes(x=x, y=y), data=d, cols=c("A", "B", "C") - + ) + - + coord_fixed() - Error in if (new_name %in% existing) { : argument is of length zero - Calls: +.gg ... ggplot_add.layer_scatterpie -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘scatterpie.Rmd’ - ... - 5 12.928774 -11.288549 4 0.34754260 3.144288 3.789556 2.295894 - 8 -126.506123 29.230687 5 0.95161857 3.029335 1.048951 2.471943 - 9 -68.685285 6.192712 6 0.04502772 3.203072 2.596539 4.439393 - - > ggplot() + geom_scatterpie(aes(x = long, y = lat, - + group = region), data = d, cols = LETTERS[1:4]) + coord_equal() - - When sourcing ‘scatterpie.R’: - Error: argument is of length zero - Execution halted - - ‘scatterpie.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘scatterpie.Rmd’ using rmarkdown - - Quitting from lines 52-54 [unnamed-chunk-3] (scatterpie.Rmd) - Error: processing vignette 'scatterpie.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘scatterpie.Rmd’ - - SUMMARY: processing the following file failed: - ‘scatterpie.Rmd’ - - Error: Vignette re-building failed. + > # plot line colours by station elevation + > rvn_met_recordplot(metadata=rvn_weathercan_metadata_sample, colorby='elev') + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#56B4E9", low = "#D55E00") + Calls: rvn_met_recordplot -> scale_color_continuous Execution halted ``` -# scdtb +# RCTrep
-* Version: 0.1.0 -* GitHub: https://github.com/mightymetrika/scdtb -* Source code: https://github.com/cran/scdtb -* Date/Publication: 2024-04-30 08:50:02 UTC -* Number of recursive dependencies: 96 +* Version: 1.2.0 +* GitHub: https://github.com/duolajiang/RCTrep +* Source code: https://github.com/cran/RCTrep +* Date/Publication: 2023-11-02 14:40:02 UTC +* Number of recursive dependencies: 172 -Run `revdepcheck::cloud_details(, "scdtb")` for more info +Run `revdepcheck::cloud_details(, "RCTrep")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘RCTrep’ can be installed ... WARNING ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html - ... - ── Failure ('test-mixed_model_analysis.R:119:3'): mixed_model_analysis uses the .participant variable to label data points - when .participant is not NULL ── - res$plot$labels$shape (`actual`) not equal to "factor(part)" (`expected`). - - `actual` is NULL - `expected` is a character vector ('factor(part)') - - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 45 ] - Error: Test failures - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘RCTrep’ + See ‘/tmp/workdir/RCTrep/new/RCTrep.Rcheck/00install.out’ for details. ``` -# scoringutils +# registr
-* Version: 1.2.2 -* GitHub: https://github.com/epiforecasts/scoringutils -* Source code: https://github.com/cran/scoringutils -* Date/Publication: 2023-11-29 15:50:10 UTC -* Number of recursive dependencies: 81 +* Version: 2.1.0 +* GitHub: NA +* Source code: https://github.com/cran/registr +* Date/Publication: 2022-10-02 21:40:02 UTC +* Number of recursive dependencies: 89 -Run `revdepcheck::cloud_details(, "scoringutils")` for more info +Run `revdepcheck::cloud_details(, "registr")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘scoringutils-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘incomplete_curves.Rmd’ + ... + + ggplot(dat, aes(x = index, y = value, group = id)) + geom_line(alpha = 0.2) + + + xlab("t* [observed]") + ylab("Der ..." ... [TRUNCATED] - > ### Name: plot_predictions - > ### Title: Plot Predictions vs True Values - > ### Aliases: plot_predictions - > - > ### ** Examples - > - > library(ggplot2) - ... - + by = c("target_type", "location"), - + range = c(0, 50, 90, 95) - + ) + - + facet_wrap(~ location + target_type, scales = "free_y") + - + aes(fill = model, color = model) - Error in use_defaults(..., self = self) : - unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NU - Calls: ... -> -> compute_geom_2 -> + > if (have_ggplot2) { + + ggplot(dat, aes(x = index, y = id, col = value)) + geom_line(lwd = 2.5) + + + scale_color_continuous("Derivative", .... [TRUNCATED] + + When sourcing ‘incomplete_curves.R’: + Error: unused arguments (high = "midnightblue", low = "lightskyblue1") Execution halted + + ‘incomplete_curves.Rmd’ using ‘UTF-8’... failed + ‘registr.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘metric-details.Rmd’ using rmarkdown - --- finished re-building ‘metric-details.Rmd’ - - --- re-building ‘scoring-forecasts-directly.Rmd’ using rmarkdown - --- finished re-building ‘scoring-forecasts-directly.Rmd’ - - --- re-building ‘scoringutils.Rmd’ using rmarkdown + --- re-building ‘incomplete_curves.Rmd’ using rmarkdown ``` ## In both -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘scoringutils.Rmd’ - ... - The following messages were produced when checking inputs: - 1. 144 values for `prediction` are NA in the data provided and the corresponding rows were removed. This may indicate a problem if unexpected. - - > example_quantile %>% make_NA(what = "truth", target_end_date >= - + "2021-07-15", target_end_date < "2021-05-22") %>% make_NA(what = "forecast", .... [TRUNCATED] + Running examples in ‘registr-Ex.R’ failed + The error most likely occurred in: - When sourcing ‘scoringutils.R’: - Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL + > ### Name: gfpca_twoStep + > ### Title: Generalized functional principal component analysis + > ### Aliases: gfpca_twoStep + > + > ### ** Examples + > + > data(growth_incomplete) + > + > # estimate 2 FPCs + > fpca_obj = gfpca_twoStep(Y = growth_incomplete, npc = 2, family = "gaussian") + Using the first 2 FPCs which explain 73.8% of the (approximated) total variance. + Error in initializePtr() : + function 'cholmod_factor_ldetA' not provided by package 'Matrix' + Calls: gfpca_twoStep ... initialize -> -> initializePtr -> .Call Execution halted - - ‘metric-details.Rmd’ using ‘UTF-8’... OK - ‘scoring-forecasts-directly.Rmd’ using ‘UTF-8’... OK - ‘scoringutils.Rmd’ using ‘UTF-8’... failed ``` -# scUtils - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/scUtils -* Date/Publication: 2020-06-25 16:20:02 UTC -* Number of recursive dependencies: 52 - -Run `revdepcheck::cloud_details(, "scUtils")` for more info - -
- -## Newly broken - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > library(scUtils) - > - > test_check("scUtils") - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 32 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-plots.R:59:3'): all kinds of colnames are allowed ──────────── - p$labels not equal to list(y = "Dim2", x = "Dim1", colour = "expression"). - Length mismatch: comparison on first 2 components + > library(registr) + Warning message: + In check_dep_version() : ABI version mismatch: + lme4 was built with Matrix ABI version 1 + Current Matrix ABI version is 0 + Please re-install lme4 from source or restore original 'Matrix' package + ... + 12. └─methods (local) ``(...) + 13. └─methods::new(def, ...) + 14. ├─methods::initialize(value, ...) + 15. └─methods::initialize(value, ...) + 16. └─.Object$initialize(...) + 17. └─lme4 (local) initializePtr() - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 32 ] + [ FAIL 13 | WARN 6 | SKIP 6 | PASS 166 ] Error: Test failures Execution halted ``` -## In both +* checking C++ specification ... NOTE + ``` + Specified C++11: please drop specification unless essential + ``` -* checking LazyData ... NOTE +* checking installed package size ... NOTE ``` - 'LazyData' is specified without a 'data' directory + installed size is 5.4Mb + sub-directories of 1Mb or more: + doc 1.8Mb + libs 3.1Mb ``` -# SCVA +# RegrCoeffsExplorer
-* Version: 1.3.1 +* Version: 1.1.0 * GitHub: NA -* Source code: https://github.com/cran/SCVA -* Date/Publication: 2020-01-09 22:50:10 UTC -* Number of recursive dependencies: 80 +* Source code: https://github.com/cran/RegrCoeffsExplorer +* Date/Publication: 2024-11-14 13:50:49 UTC +* Number of recursive dependencies: 107 -Run `revdepcheck::cloud_details(, "SCVA")` for more info +Run `revdepcheck::cloud_details(, "RegrCoeffsExplorer")` for more info
## Newly broken -* checking examples ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Running examples in ‘SCVA-Ex.R’ failed - The error most likely occurred in: - - > ### Name: graphly - > ### Title: Interactive plot of single-case data - > ### Aliases: graphly - > ### Keywords: Single-case design Graph - > - > ### ** Examples - > - > data(AB) - > graphly(design = "AB", data = AB) - Error in pm[[2]] : subscript out of bounds - Calls: graphly -> ggplotly -> ggplotly.ggplot -> gg2list - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘BetaVisualizer.Rmd’ using rmarkdown ``` -# sdmTMB +# regtomean
-* Version: 0.6.0 -* GitHub: https://github.com/pbs-assess/sdmTMB -* Source code: https://github.com/cran/sdmTMB -* Date/Publication: 2024-05-30 00:00:02 UTC -* Number of recursive dependencies: 149 +* Version: 1.2 +* GitHub: NA +* Source code: https://github.com/cran/regtomean +* Date/Publication: 2024-12-17 15:00:02 UTC +* Number of recursive dependencies: 86 -Run `revdepcheck::cloud_details(, "sdmTMB")` for more info +Run `revdepcheck::cloud_details(, "regtomean")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘regtomean’ can be installed ... WARNING ``` - Running examples in ‘sdmTMB-Ex.R’ failed - The error most likely occurred in: - - > ### Name: emmeans.sdmTMB - > ### Title: Estimated marginal means with the 'emmeans' package with - > ### 'sdmTMB' - > ### Aliases: emmeans.sdmTMB - > - > ### ** Examples - > - ... - year2013 - year2017 -0.15358 0.259 959 -0.593 0.9342 - year2015 - year2017 0.03703 0.263 959 0.141 0.9990 - - P value adjustment: tukey method for comparing a family of 4 estimates - - > emmeans::emmip(fit2, year ~ depth_scaled, at = list(depth_scaled = seq(-2.5, - + 2.5, length.out = 50)), CIs = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::set_theme’ by ‘sjPlot::set_theme’ when loading ‘regtomean’ + See ‘/tmp/workdir/regtomean/new/regtomean.Rcheck/00install.out’ for details. ``` ## In both -* checking installed package size ... NOTE +* checking Rd cross-references ... NOTE ``` - installed size is 88.5Mb - sub-directories of 1Mb or more: - libs 86.4Mb + Package unavailable to check Rd xrefs: ‘plyr’ ``` -# SDMtune +# RKorAPClient
-* Version: 1.3.1 -* GitHub: https://github.com/ConsBiol-unibern/SDMtune -* Source code: https://github.com/cran/SDMtune -* Date/Publication: 2023-07-03 12:20:02 UTC -* Number of recursive dependencies: 125 +* Version: 0.9.0 +* GitHub: https://github.com/KorAP/RKorAPClient +* Source code: https://github.com/cran/RKorAPClient +* Date/Publication: 2025-01-10 18:20:08 UTC +* Number of recursive dependencies: 123 -Run `revdepcheck::cloud_details(, "SDMtune")` for more info +Run `revdepcheck::cloud_details(, "RKorAPClient")` for more info
@@ -23315,61 +15288,37 @@ Run `revdepcheck::cloud_details(, "SDMtune")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(SDMtune) - - _____ ____ __ ___ __ - / ___/ / __ \ / |/ // /_ __ __ ____ ___ - \__ \ / / / // /|_/ // __// / / // __ \ / _ \ - ___/ // /_/ // / / // /_ / /_/ // / / // __/ + > library("testthat") + > library("RKorAPClient") + > + > test_check("RKorAPClient") + + apiUrl: https://korap.ids-mannheim.de/api/v1.0/ + Searching "einfache" in "": 129 hits, took ... - `expected` is a character vector ('Var2') - ── Failure ('test-plotCor.R:6:3'): The plot has the correct labels and text size ── - p$labels$y (`actual`) not equal to "Var1" (`expected`). + 'test-textMetadata.R:9:3', 'test-textMetadata.R:15:3' - `actual` is NULL - `expected` is a character vector ('Var1') + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test-misc.R:224:5'): geom_freq_by_year_ci works correctly ───────── + gpt[["labels"]][["url"]] not equal to "webUIRequestUrl". + target is NULL, current is character - [ FAIL 2 | WARN 0 | SKIP 55 | PASS 315 ] + [ FAIL 1 | WARN 0 | SKIP 34 | PASS 29 ] Error: Test failures Execution halted ``` -## In both - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘basic-use.Rmd’ - ... - [1] 0.8336850 0.8672387 - - > folds <- randomFolds(data, k = 4, only_presence = TRUE, - + seed = 25) - - > auc(cv_model) - - When sourcing ‘basic-use.R’: - Error: object 'cv_model' not found - Execution halted - - ‘basic-use.Rmd’ using ‘UTF-8’... failed - ‘hyper-tuning.Rmd’ using ‘UTF-8’... OK - ‘presence-absence.Rmd’ using ‘UTF-8’... OK - ‘var-selection.Rmd’ using ‘UTF-8’... OK - ``` - -# sedproxy +# roahd
-* Version: 0.7.5 -* GitHub: https://github.com/EarthSystemDiagnostics/sedproxy -* Source code: https://github.com/cran/sedproxy -* Date/Publication: 2023-02-26 10:50:02 UTC -* Number of recursive dependencies: 72 +* Version: 1.4.3 +* GitHub: https://github.com/astamm/roahd +* Source code: https://github.com/cran/roahd +* Date/Publication: 2021-11-04 00:10:02 UTC +* Number of recursive dependencies: 87 -Run `revdepcheck::cloud_details(, "sedproxy")` for more info +Run `revdepcheck::cloud_details(, "roahd")` for more info
@@ -23377,107 +15326,91 @@ Run `revdepcheck::cloud_details(, "sedproxy")` for more info * checking examples ... ERROR ``` - Running examples in ‘sedproxy-Ex.R’ failed + Running examples in ‘roahd-Ex.R’ failed The error most likely occurred in: - > ### Name: ClimToProxyClim - > ### Title: Simulate sediment archived proxy records from an input climate - > ### signal. - > ### Aliases: ClimToProxyClim + > ### Name: plot.depthgram + > ### Title: Specialized method to plot 'depthgram' objects + > ### Aliases: plot.depthgram > > ### ** Examples > + > N <- 50 ... - > - > PlotPFMs(PFM$everything, max.replicates = 1, stage.order = "seq") + - + facet_wrap(~stage) - Joining with `by = join_by(stage, scale)` - Scale for alpha is already present. - Adding another scale for alpha, which will replace the existing scale. - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + + N, + + centerline = sin(2 * pi * grid), + + Cov = Cov + + ) + > names <- paste0("id_", 1:nrow(Data[[1]])) + > DG <- depthgram(Data, marginal_outliers = TRUE, ids = names) + > plot(DG) + Error in pm[[2]] : subscript out of bounds + Calls: plot ... plotly_build -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘introduction-to-sedproxy.Rmd’ - ... - Timepoint(s) 1, 101 are in the mixed layer - - > PlotPFMs(PFM) - Joining with `by = join_by(stage, scale)` - Scale for alpha is already present. - Adding another scale for alpha, which will replace the existing scale. - - When sourcing ‘introduction-to-sedproxy.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘effect-of-climate-dependent-flux.Rmd’ using ‘UTF-8’... OK - ‘introduction-to-sedproxy.Rmd’ using ‘UTF-8’... failed - ``` +## In both -* checking re-building of vignette outputs ... NOTE +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘effect-of-climate-dependent-flux.Rmd’ using rmarkdown + installed size is 7.4Mb + sub-directories of 1Mb or more: + data 5.0Mb + doc 1.7Mb ``` -# see +# romic
-* Version: 0.9.0 -* GitHub: https://github.com/easystats/see -* Source code: https://github.com/cran/see -* Date/Publication: 2024-09-06 04:30:02 UTC -* Number of recursive dependencies: 243 +* Version: 1.1.3 +* GitHub: NA +* Source code: https://github.com/cran/romic +* Date/Publication: 2023-09-21 05:40:02 UTC +* Number of recursive dependencies: 112 -Run `revdepcheck::cloud_details(, "see")` for more info +Run `revdepcheck::cloud_details(, "romic")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘see-Ex.R’ failed - The error most likely occurred in: - - > ### Name: geom_binomdensity - > ### Title: Add dot-densities for binary 'y' variables - > ### Aliases: geom_binomdensity - > - > ### ** Examples - > - > ## Don't show: + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html ... - 14. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]]) - 15. │ └─l$compute_geom_2(d, theme = plot$theme) - 16. │ └─ggplot2 (local) compute_geom_2(..., self = self) - 17. │ └─self$geom$use_defaults(...) - 18. └─base::.handleSimpleError(...) - 19. └─rlang (local) h(simpleError(msg, call)) - 20. └─handlers[[1L]](cnd) - 21. └─cli::cli_abort(...) - 22. └─rlang::abort(...) - Execution halted + 3. │ │ └─base::withCallingHandlers(...) + 4. │ ├─plotly::ggplotly(heatmap_plot) %>% plotly::layout(margin = 0) + 5. │ ├─plotly::ggplotly(heatmap_plot) + 6. │ └─plotly:::ggplotly.ggplot(heatmap_plot) + 7. │ └─plotly::gg2list(...) + 8. └─plotly::layout(., margin = 0) + + [ FAIL 1 | WARN 0 | SKIP 7 | PASS 66 ] + Error: Test failures + Execution halted ``` -# seedreg +# roptions
* Version: 1.0.3 * GitHub: NA -* Source code: https://github.com/cran/seedreg -* Date/Publication: 2022-07-07 21:20:02 UTC -* Number of recursive dependencies: 123 +* Source code: https://github.com/cran/roptions +* Date/Publication: 2020-05-11 11:10:06 UTC +* Number of recursive dependencies: 70 -Run `revdepcheck::cloud_details(, "seedreg")` for more info +Run `revdepcheck::cloud_details(, "roptions")` for more info
@@ -23485,231 +15418,174 @@ Run `revdepcheck::cloud_details(, "seedreg")` for more info * checking examples ... ERROR ``` - Running examples in ‘seedreg-Ex.R’ failed + Running examples in ‘roptions-Ex.R’ failed The error most likely occurred in: - > ### Name: lineplot - > ### Title: Graph: line chart - > ### Aliases: lineplot + > ### Name: box.spread + > ### Title: Box Spread Strategy Function + > ### Aliases: box.spread > > ### ** Examples > - > data("substrate") + > box.spread(100, 105, 95, 110, 3.2, 2.6, 1.1, 2.4) ... - 16. │ └─ggplot2 (local) setup_params(...) - 17. │ └─ggplot2:::make_summary_fun(...) - 18. │ └─rlang::as_function(fun.data) - 19. │ └─base::get(x, envir = env, mode = "function") - 20. └─base::.handleSimpleError(...) - 21. └─rlang (local) h(simpleError(msg, call)) - 22. └─handlers[[1L]](cnd) - 23. └─cli::cli_abort(...) - 24. └─rlang::abort(...) + 35 5.7 + 36 5.7 + 37 5.7 + 38 5.7 + 39 5.7 + 40 5.7 + 41 5.7 + Error in pm[[2]] : subscript out of bounds + Calls: box.spread -> print -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -# semfindr +## In both + +* checking LazyData ... NOTE + ``` + 'LazyData' is specified without a 'data' directory + ``` + +# rSAFE
-* Version: 0.1.8 -* GitHub: https://github.com/sfcheung/semfindr -* Source code: https://github.com/cran/semfindr -* Date/Publication: 2024-04-08 13:30:03 UTC -* Number of recursive dependencies: 72 +* Version: 0.1.4 +* GitHub: https://github.com/ModelOriented/rSAFE +* Source code: https://github.com/cran/rSAFE +* Date/Publication: 2022-08-13 13:20:02 UTC +* Number of recursive dependencies: 119 -Run `revdepcheck::cloud_details(, "semfindr")` for more info +Run `revdepcheck::cloud_details(, "rSAFE")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘semfindr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: cfa_dat2 - > ### Title: Sample Data: A CFA Model with an Influential Case - > ### Aliases: cfa_dat2 - > ### Keywords: datasets - > - > ### ** Examples - > - ... - .x5 0.227 0.136 1.675 0.094 - .x6 0.472 0.108 4.378 0.000 - f1 0.073 0.063 1.161 0.245 - f2 0.149 0.078 1.926 0.054 - - > inf_out <- influence_stat(fit) - > gcd_plot(inf_out) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: gcd_plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(semfindr) - > - > test_check("semfindr") - Starting 2 test processes - [ FAIL 2 | WARN 0 | SKIP 13 | PASS 387 ] - - ... - 1. └─semfindr::index_plot(fit_est_change, "gcd") at test-index_plot.R:22:1 - 2. └─ggplot2:::`+.gg`(p, do.call(ggplot2::geom_point, point_aes)) - 3. └─ggplot2:::add_ggplot(e1, e2, e2name) - 4. ├─ggplot2::ggplot_add(object, p, objectname) - 5. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 6. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 2 | WARN 0 | SKIP 13 | PASS 387 ] - Error: Test failures - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘semfindr.Rmd’ + when running code in ‘example_apartments.Rmd’ ... - Note: - - Only the first 10 case(s) is/are displayed. Set ‘first’ to NULL to display all cases. - - Cases sorted by Mahalanobis distance in decreasing order. + > mp_lm2 <- model_performance(explainer_lm2) - > gcd_plot(fit_influence, largest_gcd = 3) + > mp_rf2 <- model_performance(explainer_rf2) - ... - > gcd_plot(fit_influence, largest_gcd = 3) + > plot(mp_lm1, mp_rf1, mp_lm2, mp_rf2, geom = "boxplot") - When sourcing ‘user_id.R’: - Error: argument is of length zero + When sourcing ‘example_apartments.R’: + Error: 'x' and 'units' must have length > 0 Execution halted - ‘casewise_scores.Rmd’ using ‘UTF-8’... OK - ‘selecting_cases.Rmd’ using ‘UTF-8’... OK - ‘semfindr.Rmd’ using ‘UTF-8’... failed - ‘user_id.Rmd’ using ‘UTF-8’... failed + ‘example_apartments.Rmd’ using ‘UTF-8’... failed + ‘example_hr.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘casewise_scores.Rmd’ using rmarkdown + --- re-building ‘example_apartments.Rmd’ using rmarkdown ``` -# sensiPhy +# scoringutils
-* Version: 0.8.5 -* GitHub: https://github.com/paternogbc/sensiPhy -* Source code: https://github.com/cran/sensiPhy -* Date/Publication: 2020-04-02 14:50:02 UTC +* Version: 2.0.0 +* GitHub: https://github.com/epiforecasts/scoringutils +* Source code: https://github.com/cran/scoringutils +* Date/Publication: 2024-10-31 20:40:02 UTC * Number of recursive dependencies: 84 -Run `revdepcheck::cloud_details(, "sensiPhy")` for more info +Run `revdepcheck::cloud_details(, "scoringutils")` for more info
-## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘sensiPhy-Ex.R’ failed - The error most likely occurred in: - - > ### Name: clade_physig - > ### Title: Influential clade detection - Phylogenetic signal - > ### Aliases: clade_physig - > - > ### ** Examples - > - > data(alien) - ... - 4 0.8975481 0.25 - 5 0.8827772 0.40 - - > sensi_plot(clade, "Bovidae") - Warning: Use of `nd$estimate` is discouraged. - ℹ Use `estimate` instead. - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: sensi_plot ... drawDetails -> drawDetails.segments -> grid.Call.graphics - Execution halted - ``` - -## In both +## Newly broken * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘sensiPhy_vignette.Rmd’ + when running code in ‘Deprecated-visualisations.Rmd’ ... + > sum_scores <- range_example %>% as_forecast_quantile() %>% + + score(metrics = list(wis = wis, dispersion = dispersion_quantile)) %>% + + summ .... [TRUNCATED] + + > plot_interval_ranges(sum_scores, x = "model") + facet_wrap(~target_type, + + scales = "free") - When sourcing ‘sensiPhy_vignette.R’: - Error: attempt to use zero-length variable name + When sourcing ‘Deprecated-visualisations.R’: + Error: unused arguments (low = "steelblue", high = "salmon") Execution halted - ‘sensiPhy_vignette.Rmd’ using ‘UTF-8’... failed + ‘Deprecated-functions.Rmd’ using ‘UTF-8’... OK + ‘Deprecated-visualisations.Rmd’ using ‘UTF-8’... failed + ‘scoring-rules.Rmd’ using ‘UTF-8’... OK ``` -# sglg +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + ... + --- re-building ‘Deprecated-functions.Rmd’ using rmarkdown + --- finished re-building ‘Deprecated-functions.Rmd’ + + --- re-building ‘Deprecated-visualisations.Rmd’ using rmarkdown + + Quitting from lines 422-434 [unnamed-chunk-9] (Deprecated-visualisations.Rmd) + Error: processing vignette 'Deprecated-visualisations.Rmd' failed with diagnostics: + unused arguments (low = "steelblue", high = "salmon") + ... + --- failed re-building ‘Deprecated-visualisations.Rmd’ + + --- re-building ‘scoring-rules.Rmd’ using rmarkdown + --- finished re-building ‘scoring-rules.Rmd’ + + SUMMARY: processing the following file failed: + ‘Deprecated-visualisations.Rmd’ + + Error: Vignette re-building failed. + Execution halted + ``` + +# SCOUTer
-* Version: 0.2.2 +* Version: 1.0.0 * GitHub: NA -* Source code: https://github.com/cran/sglg -* Date/Publication: 2022-09-04 03:50:01 UTC -* Number of recursive dependencies: 96 +* Source code: https://github.com/cran/SCOUTer +* Date/Publication: 2020-06-30 09:30:03 UTC +* Number of recursive dependencies: 92 -Run `revdepcheck::cloud_details(, "sglg")` for more info +Run `revdepcheck::cloud_details(, "SCOUTer")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘SCOUTer’ can be installed ... WARNING ``` - Running examples in ‘sglg-Ex.R’ failed - The error most likely occurred in: - - > ### Name: deviance_residuals - > ### Title: Deviance Residuals for a Generalized Log-gamma Regression Model - > ### Aliases: deviance_residuals - > - > ### ** Examples - > - > # Example 1 - > n <- 300 - > error <- rglg(n,0,1,1) - > y <- 0.5 + error - > fit <- glg(y~1,data=as.data.frame(y)) - > deviance_residuals(fit) - Error in pm[[2]] : subscript out of bounds - Calls: deviance_residuals ... dots2plots -> ggplotly -> ggplotly.ggplot -> gg2list - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘SCOUTer’ + See ‘/tmp/workdir/SCOUTer/new/SCOUTer.Rcheck/00install.out’ for details. ``` -# sgsR +# scUtils
-* Version: 1.4.5 -* GitHub: https://github.com/tgoodbody/sgsR -* Source code: https://github.com/cran/sgsR -* Date/Publication: 2024-03-03 15:10:02 UTC -* Number of recursive dependencies: 124 +* Version: 0.1.0 +* GitHub: NA +* Source code: https://github.com/cran/scUtils +* Date/Publication: 2020-06-25 16:20:02 UTC +* Number of recursive dependencies: 51 -Run `revdepcheck::cloud_details(, "sgsR")` for more info +Run `revdepcheck::cloud_details(, "scUtils")` for more info
@@ -23717,40 +15593,43 @@ Run `revdepcheck::cloud_details(, "sgsR")` for more info * checking tests ... ERROR ``` - Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - ... - `expected` is a character vector ('zq90') - ── Failure ('test-utils-plot.R:19:3'): scatter messages ──────────────────────── - o1$labels$x (`actual`) not equal to "pzabove2" (`expected`). + > library(testthat) + > library(scUtils) + > + > test_check("scUtils") + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 32 ] - `actual` is NULL - `expected` is a character vector ('pzabove2') + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test-plots.R:59:3'): all kinds of colnames are allowed ──────────── + p$labels not equal to list(y = "Dim2", x = "Dim1", colour = "expression"). + Length mismatch: comparison on first 2 components - [ FAIL 2 | WARN 115 | SKIP 19 | PASS 508 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 32 ] Error: Test failures Execution halted ``` -# SHAPforxgboost +## In both + +* checking LazyData ... NOTE + ``` + 'LazyData' is specified without a 'data' directory + ``` + +# SCVA
-* Version: 0.1.3 -* GitHub: https://github.com/liuyanguu/SHAPforxgboost -* Source code: https://github.com/cran/SHAPforxgboost -* Date/Publication: 2023-05-29 17:20:07 UTC -* Number of recursive dependencies: 112 +* Version: 1.3.1 +* GitHub: NA +* Source code: https://github.com/cran/SCVA +* Date/Publication: 2020-01-09 22:50:10 UTC +* Number of recursive dependencies: 80 -Run `revdepcheck::cloud_details(, "SHAPforxgboost")` for more info +Run `revdepcheck::cloud_details(, "SCVA")` for more info
@@ -23758,141 +15637,107 @@ Run `revdepcheck::cloud_details(, "SHAPforxgboost")` for more info * checking examples ... ERROR ``` - Running examples in ‘SHAPforxgboost-Ex.R’ failed + Running examples in ‘SCVA-Ex.R’ failed The error most likely occurred in: - > ### Name: scatter.plot.diagonal - > ### Title: Make customized scatter plot with diagonal line and R2 printed. - > ### Aliases: scatter.plot.diagonal + > ### Name: graphly + > ### Title: Interactive plot of single-case data + > ### Aliases: graphly + > ### Keywords: Single-case design Graph > > ### ** Examples > - > scatter.plot.diagonal(data = iris, x = "Sepal.Length", y = "Petal.Length") - [1] "R2 is 0.76 ." - `geom_smooth()` using formula = 'y ~ x' - Error in if (new_name %in% existing) { : argument is of length zero - Calls: scatter.plot.diagonal ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > data(AB) + > graphly(design = "AB", data = AB) + Error in pm[[2]] : subscript out of bounds + Calls: graphly -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted ``` -# ShapleyOutlier +# SDMtune
-* Version: 0.1.1 -* GitHub: NA -* Source code: https://github.com/cran/ShapleyOutlier -* Date/Publication: 2023-02-20 10:30:02 UTC -* Number of recursive dependencies: 77 +* Version: 1.3.2 +* GitHub: https://github.com/ConsBiol-unibern/SDMtune +* Source code: https://github.com/cran/SDMtune +* Date/Publication: 2024-12-16 16:50:06 UTC +* Number of recursive dependencies: 124 -Run `revdepcheck::cloud_details(, "ShapleyOutlier")` for more info +Run `revdepcheck::cloud_details(, "SDMtune")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘ShapleyOutlier-Ex.R’ failed - The error most likely occurred in: - - > ### Name: MOE - > ### Title: Detecting cellwise outliers using Shapley values based on local - > ### outlyingness. - > ### Aliases: MOE - > - > ### ** Examples - > + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(SDMtune) + + _____ ____ __ ___ __ + / ___/ / __ \ / |/ // /_ __ __ ____ ___ + \__ \ / / / // /|_/ // __// / / // __ \ / _ \ + ___/ // /_/ // / / // /_ / /_/ // / / // __/ ... - > mu <- rep(0,p) - > Sigma <- matrix(0.9, p, p); diag(Sigma) = 1 - > Sigma_inv <- solve(Sigma) - > x <- c(0,1,2,2.3,2.5) - > MOE_x <- MOE(x = x, mu = mu, Sigma = Sigma) - > plot(MOE_x) - Error in grid.Call.graphics(C_segments, x$x0, x$y0, x$x1, x$y1, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: plot ... drawDetails -> drawDetails.segments -> grid.Call.graphics - Execution halted + `expected` is a character vector ('Var2') + ── Failure ('test-plotCor.R:6:3'): The plot has the correct labels and text size ── + p$labels$y (`actual`) not equal to "Var1" (`expected`). + + `actual` is NULL + `expected` is a character vector ('Var1') + + [ FAIL 2 | WARN 0 | SKIP 55 | PASS 315 ] + Error: Test failures + Execution halted ``` +## In both + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘ShapleyOutlier_examples.Rmd’ + when running code in ‘basic-use.Rmd’ ... + [1] 0.8299353 0.8646037 - > rownames(phi_SCD) <- paste("Step", 0:(nrow(phi_SCD) - - + 1)) + > folds <- randomFolds(data, k = 4, only_presence = TRUE, + + seed = 25) - > plot(new_shapley(phi = phi_SCD), abbrev.var = FALSE, - + abbrev.obs = FALSE, sort.obs = FALSE, sort.var = FALSE) + > auc(cv_model) - When sourcing ‘ShapleyOutlier_examples.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘basic-use.R’: + Error: object 'cv_model' not found Execution halted - ‘ShapleyOutlier_examples.Rmd’ using ‘UTF-8’... failed + ‘basic-use.Rmd’ using ‘UTF-8’... failed + ‘hyper-tuning.Rmd’ using ‘UTF-8’... OK + ‘presence-absence.Rmd’ using ‘UTF-8’... OK + ‘var-selection.Rmd’ using ‘UTF-8’... OK ``` -* checking re-building of vignette outputs ... NOTE +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘ShapleyOutlier_examples.Rmd’ using rmarkdown + installed size is 5.2Mb + sub-directories of 1Mb or more: + R 3.0Mb + libs 1.0Mb ``` -# shinipsum +# seAMLess
* Version: 0.1.1 -* GitHub: https://github.com/Thinkr-open/shinipsum -* Source code: https://github.com/cran/shinipsum -* Date/Publication: 2024-02-09 15:50:05 UTC -* Number of recursive dependencies: 90 - -Run `revdepcheck::cloud_details(, "shinipsum")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(shinipsum) - > - > test_check("shinipsum") - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 3150 ] - - ══ Failed tests ════════════════════════════════════════════════════════════════ - ... - `a` has length 11, not length 10. - Backtrace: - ▆ - 1. └─base::lapply(...) at test-ggplot.R:3:3 - 2. └─shinipsum (local) FUN(X[[i]], ...) - 3. └─testthat::expect_length(a, expected_length) at test-ggplot.R:8:7 - - [ FAIL 2 | WARN 1 | SKIP 0 | PASS 3150 ] - Error: Test failures - Execution halted - ``` - -# signatureSurvival - -
- -* Version: 1.0.0 -* GitHub: NA -* Source code: https://github.com/cran/signatureSurvival -* Date/Publication: 2023-07-19 11:10:02 UTC -* Number of recursive dependencies: 99 +* GitHub: https://github.com/eonurk/seAMLess +* Source code: https://github.com/cran/seAMLess +* Date/Publication: 2024-11-11 12:50:02 UTC +* Number of recursive dependencies: 51 -Run `revdepcheck::cloud_details(, "signatureSurvival")` for more info +Run `revdepcheck::cloud_details(, "seAMLess")` for more info
@@ -23900,49 +15745,47 @@ Run `revdepcheck::cloud_details(, "signatureSurvival")` for more info * checking examples ... ERROR ``` - Running examples in ‘signatureSurvival-Ex.R’ failed + Running examples in ‘seAMLess-Ex.R’ failed The error most likely occurred in: - > ### Name: MKMplot - > ### Title: Multivariate Kaplan-Meier survival curve plot - > ### Aliases: MKMplot - > ### Keywords: multivariate survival analysis + > ### Name: ternaryPlot + > ### Title: Given the immune compositions (ICs) of bulk-RNA samples, this + > ### function creates a ternary plot similar to ALOT tube from EuroFlow + > ### analysis and Figure 1E of our paper. + > ### Aliases: ternaryPlot > > ### ** Examples - > ... - Loading required package: survival - > require(ggplot2) - Loading required package: ggplot2 - > data(GSE50081) - > MKMplot(data=GSE50081,mol=56,X=c("t.stage","n.stage", "m.stage"),time="month", - + status="status1",sml="none",quant=c("No",-0.2,0.2),plotmethod="ggsurvplot", - + adjx = 5) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: MKMplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + 3. ├─ggtern::ggplot_build(x) + 4. └─ggtern:::ggplot_build.ggplot(x) + 5. └─ggtern:::layers_add_or_remove_mask(plot) + 6. └─ggint$plot_theme(plot) + 7. └─ggplot2:::validate_theme(theme) + 8. └─base::mapply(...) + 9. └─ggplot2 (local) ``(...) + 10. └─cli::cli_abort(...) + 11. └─rlang::abort(...) Execution halted ``` ## In both -* checking installed package size ... NOTE +* checking package dependencies ... NOTE ``` - installed size is 8.2Mb - sub-directories of 1Mb or more: - data 7.5Mb + Package suggested but not available for checking: ‘MuSiC’ ``` -# SimCorrMix +# seedreg
-* Version: 0.1.1 -* GitHub: https://github.com/AFialkowski/SimCorrMix -* Source code: https://github.com/cran/SimCorrMix -* Date/Publication: 2018-07-01 13:31:03 UTC -* Number of recursive dependencies: 77 +* Version: 1.0.3 +* GitHub: NA +* Source code: https://github.com/cran/seedreg +* Date/Publication: 2022-07-07 21:20:02 UTC +* Number of recursive dependencies: 127 -Run `revdepcheck::cloud_details(, "SimCorrMix")` for more info +Run `revdepcheck::cloud_details(, "seedreg")` for more info
@@ -23950,182 +15793,101 @@ Run `revdepcheck::cloud_details(, "SimCorrMix")` for more info * checking examples ... ERROR ``` - Running examples in ‘SimCorrMix-Ex.R’ failed + Running examples in ‘seedreg-Ex.R’ failed The error most likely occurred in: - > ### Name: plot_simpdf_theory - > ### Title: Plot Simulated Probability Density Function and Target PDF by - > ### Distribution Name or Function for Continuous or Count Variables - > ### Aliases: plot_simpdf_theory - > ### Keywords: plot + > ### Name: lineplot + > ### Title: Graph: line chart + > ### Aliases: lineplot > > ### ** Examples + > + > data("substrate") ... - + mix_sixths = c(0, 0)) - Total Simulation time: 0 minutes - > plot_simpdf_theory(Nmix$Y_mix[, 1], - + title = "Mixture of Normal Distributions", - + fx = function(x) 0.4 * dnorm(x, -2, 1) + 0.6 * dnorm(x, 2, 1), - + lower = -5, upper = 5) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘cont_mixture.Rmd’ - ... - > sim_cdf_prob(sim_y = Nmix2$Y_mix[, 1], delta = y_star)$cumulative_prob - [1] 0.9504 - - > plot_simpdf_theory(sim_y = Nmix2$Y_mix[, 1], ylower = -10, - + yupper = 10, title = "PDF of Mixture of Normal Distributions", - + fx = fx, low .... [TRUNCATED] - - ... - - When sourcing ‘workflow.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘cont_mixture.Rmd’ using ‘UTF-8’... failed - ‘corr_mixture.Rmd’ using ‘UTF-8’... OK - ‘method_comp.Rmd’ using ‘UTF-8’... OK - ‘variable_types.Rmd’ using ‘UTF-8’... OK - ‘workflow.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘cont_mixture.Rmd’ using rmarkdown - - Quitting from lines 129-132 [unnamed-chunk-8] (cont_mixture.Rmd) - Error: processing vignette 'cont_mixture.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘cont_mixture.Rmd’ - - --- re-building ‘corr_mixture.Rmd’ using rmarkdown - --- finished re-building ‘corr_mixture.Rmd’ - ... - Quitting from lines 294-308 [unnamed-chunk-17] (workflow.Rmd) - Error: processing vignette 'workflow.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘workflow.Rmd’ - - SUMMARY: processing the following files failed: - ‘cont_mixture.Rmd’ ‘workflow.Rmd’ - - Error: Vignette re-building failed. + 16. │ └─ggplot2 (local) setup_params(...) + 17. │ └─ggplot2:::make_summary_fun(...) + 18. │ └─rlang::as_function(fun.data) + 19. │ └─base::get(x, envir = env, mode = "function") + 20. └─base::.handleSimpleError(...) + 21. └─rlang (local) h(simpleError(msg, call)) + 22. └─handlers[[1L]](cnd) + 23. └─cli::cli_abort(...) + 24. └─rlang::abort(...) Execution halted ``` -## In both +# segen -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘MASS’ ‘grid’ - All declared Imports should be used. - ``` +
-* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘PoisNor’ - ``` +* Version: 1.1.0 +* GitHub: NA +* Source code: https://github.com/cran/segen +* Date/Publication: 2022-08-15 19:30:02 UTC +* Number of recursive dependencies: 109 -* checking LazyData ... NOTE +Run `revdepcheck::cloud_details(, "segen")` for more info + +
+ +## Newly broken + +* checking whether package ‘segen’ can be installed ... WARNING ``` - 'LazyData' is specified without a 'data' directory + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘segen’ + See ‘/tmp/workdir/segen/new/segen.Rcheck/00install.out’ for details. ``` -# SimMultiCorrData +# sglg
* Version: 0.2.2 -* GitHub: https://github.com/AFialkowski/SimMultiCorrData -* Source code: https://github.com/cran/SimMultiCorrData -* Date/Publication: 2018-06-28 17:37:55 UTC -* Number of recursive dependencies: 75 +* GitHub: NA +* Source code: https://github.com/cran/sglg +* Date/Publication: 2022-09-04 03:50:01 UTC +* Number of recursive dependencies: 95 -Run `revdepcheck::cloud_details(, "SimMultiCorrData")` for more info +Run `revdepcheck::cloud_details(, "sglg")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking examples ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘dist_comp.Rmd’ - ... - - > 1 - pnorm(z_prime) - [1] 0.04999249 - - > plot_sim_pdf_theory(sim_y = H_exp$continuous_variable[, - + 1], Dist = "Exponential", params = 0.5) + Running examples in ‘sglg-Ex.R’ failed + The error most likely occurred in: - ... + > ### Name: deviance_residuals + > ### Title: Deviance Residuals for a Generalized Log-gamma Regression Model + > ### Aliases: deviance_residuals + > + > ### ** Examples + > + > # Example 1 + > n <- 300 + > error <- rglg(n,0,1,1) + > y <- 0.5 + error + > fit <- glg(y~1,data=as.data.frame(y)) + > deviance_residuals(fit) + Error in pm[[2]] : subscript out of bounds + Calls: deviance_residuals ... dots2plots -> ggplotly -> ggplotly.ggplot -> gg2list Execution halted - - ‘benefits.Rmd’ using ‘UTF-8’... OK - ‘dist_comp.Rmd’ using ‘UTF-8’... failed - ‘errorloop.Rmd’ using ‘UTF-8’... OK - ‘functions.Rmd’ using ‘UTF-8’... OK - ‘method_comp.Rmd’ using ‘UTF-8’... OK - ‘sixth_validpdf.Rmd’ using ‘UTF-8’... failed - ‘variable_types.Rmd’ using ‘UTF-8’... OK - ‘workflow.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘benefits.Rmd’ using rmarkdown - --- finished re-building ‘benefits.Rmd’ - - --- re-building ‘dist_comp.Rmd’ using rmarkdown - - Quitting from lines 107-109 [unnamed-chunk-11] (dist_comp.Rmd) - Error: processing vignette 'dist_comp.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘dist_comp.Rmd’ - ... - - Quitting from lines 208-214 [unnamed-chunk-15] (sixth_validpdf.Rmd) - Error: processing vignette 'sixth_validpdf.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘sixth_validpdf.Rmd’ - - --- re-building ‘variable_types.Rmd’ using rmarkdown - --- finished re-building ‘variable_types.Rmd’ - - --- re-building ‘workflow.Rmd’ using rmarkdown - ``` - -## In both - -* checking Rd cross-references ... NOTE - ``` - Packages unavailable to check Rd xrefs: ‘BinNonNor’, ‘PoisNor’, ‘PoisBinOrdNor’, ‘PoisBinOrdNonNor’ ``` -# SimNPH +# sgsR
-* Version: 0.5.5 -* GitHub: https://github.com/SimNPH/SimNPH -* Source code: https://github.com/cran/SimNPH -* Date/Publication: 2024-03-04 10:10:02 UTC -* Number of recursive dependencies: 134 +* Version: 1.4.5 +* GitHub: https://github.com/tgoodbody/sgsR +* Source code: https://github.com/cran/sgsR +* Date/Publication: 2024-03-03 15:10:02 UTC +* Number of recursive dependencies: 123 -Run `revdepcheck::cloud_details(, "SimNPH")` for more info +Run `revdepcheck::cloud_details(, "sgsR")` for more info
@@ -24133,40 +15895,40 @@ Run `revdepcheck::cloud_details(, "SimNPH")` for more info * checking tests ... ERROR ``` + Running ‘spelling.R’ Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(SimNPH) - Loading required package: SimDesign - Loading required package: survival - > - > test_check("SimNPH") - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 343 ] + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html ... + `expected` is a character vector ('zq90') + ── Failure ('test-utils-plot.R:19:3'): scatter messages ──────────────────────── + o1$labels$x (`actual`) not equal to "pzabove2" (`expected`). - `names(actual)`: "x" - `names(expected)`: "x" "y" - - `actual$y` is absent - `expected$y` is a character vector ('mpg') + `actual` is NULL + `expected` is a character vector ('pzabove2') - [ FAIL 2 | WARN 0 | SKIP 0 | PASS 343 ] + [ FAIL 2 | WARN 115 | SKIP 19 | PASS 508 ] Error: Test failures Execution halted ``` -# slendr +# SHAPforxgboost
-* Version: 0.9.1 -* GitHub: https://github.com/bodkan/slendr -* Source code: https://github.com/cran/slendr -* Date/Publication: 2024-02-21 23:20:02 UTC -* Number of recursive dependencies: 129 +* Version: 0.1.3 +* GitHub: https://github.com/liuyanguu/SHAPforxgboost +* Source code: https://github.com/cran/SHAPforxgboost +* Date/Publication: 2023-05-29 17:20:07 UTC +* Number of recursive dependencies: 116 -Run `revdepcheck::cloud_details(, "slendr")` for more info +Run `revdepcheck::cloud_details(, "SHAPforxgboost")` for more info
@@ -24174,197 +15936,139 @@ Run `revdepcheck::cloud_details(, "slendr")` for more info * checking examples ... ERROR ``` - Running examples in ‘slendr-Ex.R’ failed + Running examples in ‘SHAPforxgboost-Ex.R’ failed The error most likely occurred in: - > ### Name: area - > ### Title: Calculate the area covered by the given slendr object - > ### Aliases: area + > ### Name: shap.plot.force_plot + > ### Title: Make the SHAP force plot + > ### Aliases: shap.plot.force_plot > > ### ** Examples > - > region_a <- region("A", center = c(20, 50), radius = 20) + > ... - 6. └─ggplot2 (local) setup(..., self = self) - 7. └─self$coord$setup_params(data) - 8. └─ggplot2 (local) setup_params(..., self = self) - 9. └─ggproto_parent(Coord, self)$setup_params(data) - 10. └─ggplot2 (local) setup_params(..., self = self) - 11. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 12. └─ggplot2:::check_logical(expand) - 13. └─ggplot2:::stop_input_type(...) - 14. └─rlang::abort(message, ..., call = call, arg = arg) + > plot_data <- shap.prep.stack.data(shap_contrib = shap_values_iris, + + n_groups = 4) + All the features will be used. + + > shap.plot.force_plot(plot_data) + Data has N = 150 | zoom in length is 50 at location 90. + + Error in upgradeUnit.default(x) : Not a unit object + Calls: ... is.unit -> convertUnit -> upgradeUnit -> upgradeUnit.default Execution halted ``` -## In both +# shapr -* checking running R code from vignettes ... ERROR +
+ +* Version: 1.0.1 +* GitHub: https://github.com/NorskRegnesentral/shapr +* Source code: https://github.com/cran/shapr +* Date/Publication: 2025-01-16 13:00:05 UTC +* Number of recursive dependencies: 167 + +Run `revdepcheck::cloud_details(, "shapr")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘vignette-01-tutorial.Rmd’ - ... - dependencies automatically by running the function `setup_env()`. - - > init_env() - - When sourcing ‘vignette-01-tutorial.R’: - Error: Could not activate slendr's Python environment because it is not - present on your system ('Python-3.12_msprime-1.3.1_tskit-0.5.6_pyslim-1.0.4_tspop-0.0.2'). + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # CRAN OMP THREAD LIMIT + > Sys.setenv("OMP_THREAD_LIMIT" = 1) + > + > library(testthat) + > library(shapr) + + Attaching package: 'shapr' ... - ‘vignette-01-tutorial.Rmd’ using ‘UTF-8’... failed - ‘vignette-02-grid-model.Rmd’ using ‘UTF-8’... failed - ‘vignette-03-interactions.Rmd’ using ‘UTF-8’... failed - ‘vignette-04-nonspatial-models.Rmd’ using ‘UTF-8’... failed - ‘vignette-05-tree-sequences.Rmd’ using ‘UTF-8’... failed - ‘vignette-06-locations.Rmd’ using ‘UTF-8’... failed - ‘vignette-07-backends.Rmd’ using ‘UTF-8’... failed - ‘vignette-08-nonslendr-tskit.Rmd’ using ‘UTF-8’... failed - ‘vignette-09-paper.Rmd’ using ‘UTF-8’... failed - ‘vignette-10-tracts.Rmd’ using ‘UTF-8’... failed + ▆ + 1. ├─vdiffr::expect_doppelganger(...) at test-plot.R:272:3 + 2. │ └─vdiffr (local) writer(fig, testcase, title) + 3. │ └─vdiffr:::print_plot(plot, title) + 4. └─shapr::plot_SV_several_approaches(explanation_list_named) + 5. └─ggplot2::scale_fill_discrete(breaks = breaks, direction = direction) + + [ FAIL 1 | WARN 0 | SKIP 139 | PASS 38 ] + Error: Test failures + Execution halted ``` +## In both + * checking installed package size ... NOTE ``` - installed size is 5.0Mb + installed size is 11.9Mb sub-directories of 1Mb or more: - doc 3.7Mb + doc 4.2Mb + libs 6.4Mb + ``` + +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘devtools’ ``` -# smallsets +# simmr
-* Version: 2.0.0 -* GitHub: https://github.com/lydialucchesi/smallsets -* Source code: https://github.com/cran/smallsets -* Date/Publication: 2023-12-05 00:00:02 UTC -* Number of recursive dependencies: 96 +* Version: 0.5.1.217 +* GitHub: https://github.com/andrewcparnell/simmr +* Source code: https://github.com/cran/simmr +* Date/Publication: 2024-10-16 15:10:02 UTC +* Number of recursive dependencies: 117 -Run `revdepcheck::cloud_details(, "smallsets")` for more info +Run `revdepcheck::cloud_details(, "simmr")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘smallsets-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Smallset_Timeline - > ### Title: Smallset Timeline - > ### Aliases: Smallset_Timeline - > - > ### ** Examples - > - > set.seed(145) - > - > Smallset_Timeline( - + data = s_data, - + code = system.file("s_data_preprocess.R", package = "smallsets") - + ) - Error in as.unit(value) : object is not coercible to a unit - Calls: ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘smallsets.Rmd’ + when running code in ‘simmr.Rmd’ ... - > library(smallsets) - - > set.seed(145) + + source_means = s_means, source_sds = s_sds, correction_means = c_means, + + .... [TRUNCATED] - > Smallset_Timeline(data = s_data, code = system.file("s_data_preprocess.R", - + package = "smallsets")) + > plot(simmr_in_1D) + Warning in geom_errorbar(mapping = mapping, data = data, stat = stat, position = position, : + Ignoring unknown aesthetics: height - When sourcing ‘smallsets.R’: - Error: object is not coercible to a unit + When sourcing ‘simmr.R’: + Error: EXPR must be a length 1 vector Execution halted - ‘smallsets.Rmd’ using ‘UTF-8’... failed + ‘advanced_plotting.Rmd’ using ‘UTF-8’... OK + ‘quick_start.Rmd’ using ‘UTF-8’... OK + ‘simmr.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... - --- re-building ‘smallsets.Rmd’ using rmarkdown - - Quitting from lines 36-42 [timeline1] (smallsets.Rmd) - Error: processing vignette 'smallsets.Rmd' failed with diagnostics: - object is not coercible to a unit - --- failed re-building ‘smallsets.Rmd’ - - SUMMARY: processing the following file failed: - ‘smallsets.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - -## In both - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘gurobi’ - ``` - -# spinifex - -
- -* Version: 0.3.7.0 -* GitHub: https://github.com/nspyrison/spinifex -* Source code: https://github.com/cran/spinifex -* Date/Publication: 2024-01-29 14:40:02 UTC -* Number of recursive dependencies: 165 - -Run `revdepcheck::cloud_details(, "spinifex")` for more info - -
- -## Newly broken - -* checking tests ... ERROR - ``` - Running ‘spelling.R’ - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(spinifex) - Loading required package: tourr - -------------------------------------------------------- - spinifex --- version 0.3.7.0 - Please share bugs, suggestions, and feature requests at: - ... - 2. │ └─base::withCallingHandlers(...) - 3. └─spinifex::play_tour_path(tour_path = tpath, data = dat_std, angle = 1) - 4. └─spinifex (local) render_type(frames = tour_df, ...) - 5. ├─plotly::ggplotly(p = gg, tooltip = "tooltip") - 6. └─plotly:::ggplotly.ggplot(p = gg, tooltip = "tooltip") - 7. └─plotly::gg2list(...) - - [ FAIL 3 | WARN 4 | SKIP 0 | PASS 80 ] - Error: Test failures - Execution halted + --- re-building ‘advanced_plotting.Rmd’ using rmarkdown ``` -# sport +# SimNPH
-* Version: 0.2.1 -* GitHub: https://github.com/gogonzo/sport -* Source code: https://github.com/cran/sport -* Date/Publication: 2024-01-08 23:50:02 UTC -* Number of recursive dependencies: 71 +* Version: 0.5.5 +* GitHub: https://github.com/SimNPH/SimNPH +* Source code: https://github.com/cran/SimNPH +* Date/Publication: 2024-03-04 10:10:02 UTC +* Number of recursive dependencies: 137 -Run `revdepcheck::cloud_details(, "sport")` for more info +Run `revdepcheck::cloud_details(, "SimNPH")` for more info
@@ -24376,39 +16080,36 @@ Run `revdepcheck::cloud_details(, "sport")` for more info Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) + > library(SimNPH) + Loading required package: SimDesign + Loading required package: survival > - > test_check("sport") - Loading required package: sport - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 238 ] + > test_check("SimNPH") + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 343 ] + ... - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test_output.R:30:3'): Scale is labelled 'r' ─────────────────────── - p$labels$y not identical to "r". - target is NULL, current is character + `names(actual)`: "x" + `names(expected)`: "x" "y" - [ FAIL 1 | WARN 0 | SKIP 0 | PASS 238 ] + `actual$y` is absent + `expected$y` is a character vector ('mpg') + + [ FAIL 2 | WARN 0 | SKIP 0 | PASS 343 ] Error: Test failures Execution halted ``` -## In both - -* checking data for non-ASCII characters ... NOTE - ``` - Note: found 7504 marked UTF-8 strings - ``` - -# spotoroo +# sivirep
-* Version: 0.1.4 -* GitHub: https://github.com/TengMCing/spotoroo -* Source code: https://github.com/cran/spotoroo -* Date/Publication: 2023-08-21 05:50:02 UTC +* Version: 1.0.1 +* GitHub: https://github.com/epiverse-trace/sivirep +* Source code: https://github.com/cran/sivirep +* Date/Publication: 2024-12-03 23:10:02 UTC * Number of recursive dependencies: 107 -Run `revdepcheck::cloud_details(, "spotoroo")` for more info +Run `revdepcheck::cloud_details(, "sivirep")` for more info
@@ -24419,70 +16120,81 @@ Run `revdepcheck::cloud_details(, "spotoroo")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(spotoroo) - > - > test_check("spotoroo") - - -------------------------------- SPOTOROO 0.1.4 -------------------------------- - + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... - i Actually got a with text: - argument is of length zero - ── Failure ('test-plot_spotoroo.R:64:3'): plot_spotoroo() works ──────────────── - Expected `plot_spotoroo(result, type = "timeline")` to run without any errors. - i Actually got a with text: - argument is of length zero + Error in `continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, + ...)`: unused arguments (low = "#be0000", high = "#be0000") + Backtrace: + ▆ + 1. └─sivirep::plot_map(data_agrupada = incidencia_mpio, ruta_dir = tempdir()) at test-map.R:165:3 + 2. └─ggplot2::scale_fill_continuous(...) - [ FAIL 2 | WARN 5 | SKIP 0 | PASS 65 ] + [ FAIL 6 | WARN 0 | SKIP 0 | PASS 345 ] Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Clustering-hot-spots.Rmd’ - ... - - ──────────────────────────────────────────────────────────────────────────────── - - > plot_spotoroo(result, type = "def") - - > plot_spotoroo(result, type = "timeline") - - When sourcing ‘Clustering-hot-spots.R’: - Error: argument is of length zero - Execution halted - - ‘Clustering-hot-spots.Rmd’ using ‘UTF-8’... failed - ``` +## In both -* checking re-building of vignette outputs ... NOTE +* checking data for non-ASCII characters ... NOTE ``` - Error(s) in re-building vignettes: - --- re-building ‘Clustering-hot-spots.Rmd’ using rmarkdown + Note: found 8 marked UTF-8 strings ``` -## In both +# skewlmm -* checking dependencies in R code ... NOTE +
+ +* Version: 1.1.2 +* GitHub: https://github.com/fernandalschumacher/skewlmm +* Source code: https://github.com/cran/skewlmm +* Date/Publication: 2024-12-15 00:50:02 UTC +* Number of recursive dependencies: 81 + +Run `revdepcheck::cloud_details(, "skewlmm")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR ``` - Namespace in Imports field not imported from: ‘utils’ - All declared Imports should be used. + Running examples in ‘skewlmm-Ex.R’ failed + The error most likely occurred in: + + > ### Name: plot + > ### Title: Plot a smn.lmm or smsn.lmm object + > ### Aliases: plot.SMN plot.SMSN + > ### Keywords: hplot + > + > ### ** Examples + > + > fm1 = smn.lmm(distance ~ age+Sex, data=nlme::Orthodont, + + groupVar="Subject", distr="t") + > plot(fm1) + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (high = "#132B43", low = "#56B1F7") + Calls: plot -> plot.SMN -> scale_color_continuous + Execution halted ``` -# SqueakR +# smdi
-* Version: 1.3.0 -* GitHub: https://github.com/osimon81/SqueakR -* Source code: https://github.com/cran/SqueakR -* Date/Publication: 2022-06-28 09:20:04 UTC -* Number of recursive dependencies: 145 +* Version: 0.3.1 +* GitHub: NA +* Source code: https://github.com/cran/smdi +* Date/Publication: 2024-10-04 07:10:02 UTC +* Number of recursive dependencies: 220 -Run `revdepcheck::cloud_details(, "SqueakR")` for more info +Run `revdepcheck::cloud_details(, "smdi")` for more info
@@ -24491,7 +16203,7 @@ Run `revdepcheck::cloud_details(, "SqueakR")` for more info * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘SqueakR.Rmd’ using rmarkdown + --- re-building ‘a_data_generation.Rmd’ using rmarkdown ``` ## In both @@ -24499,40 +16211,39 @@ Run `revdepcheck::cloud_details(, "SqueakR")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘SqueakR.Rmd’ + when running code in ‘a_data_generation.Rmd’ ... - $ experimenters : NULL - $ experimental_data: list() + Warning in geom_segment(aes(x = 0, y = max(y2), xend = max(x1), yend = max(y2)), : + All aesthetics have length 1, but the data has 2 rows. + ℹ Please consider using `annotate()` or provide this layer with data containing + a single row. + Warning: Ignoring unknown labels: + • `linetype = "1"` - > my_new_data <- add_timepoint_data(data_path = "../inst/extdata/Example_Mouse_Data.xlsx", - + t1 = 5, t2 = 25) - Adding call features Excel file to workspace... + ... - When sourcing ‘SqueakR.R’: - Error: `path` does not exist: ‘../inst/extdata/Example_Mouse_Data.xlsx’ + When sourcing ‘b_routine_diagnostics.R’: + Error: Cannot find the file(s): "/tmp/Rtmpd7yyCk/file1adfbbc9cd2/vignettes/vignettes/smdi_diagnose_table.png" Execution halted - ‘SqueakR.Rmd’ using ‘UTF-8’... failed - ``` - -* checking installed package size ... NOTE - ``` - installed size is 8.8Mb - sub-directories of 1Mb or more: - doc 8.2Mb + ‘a_data_generation.Rmd’ using ‘UTF-8’... failed + ‘b_routine_diagnostics.Rmd’ using ‘UTF-8’... failed + ‘c_multivariate_missingness.Rmd’ using ‘UTF-8’... OK + ‘d_narfcs_sensitivity_analysis.Rmd’ using ‘UTF-8’... OK + ‘smdi.Rmd’ using ‘UTF-8’... OK ``` -# stability +# soc.ca
-* Version: 0.5.0 -* GitHub: https://github.com/myaseen208/stability -* Source code: https://github.com/cran/stability -* Date/Publication: 2018-10-02 17:50:03 UTC -* Number of recursive dependencies: 47 +* Version: 0.8.0 +* GitHub: https://github.com/Rsoc/soc.ca +* Source code: https://github.com/cran/soc.ca +* Date/Publication: 2021-09-02 22:50:02 UTC +* Number of recursive dependencies: 130 -Run `revdepcheck::cloud_details(, "stability")` for more info +Run `revdepcheck::cloud_details(, "soc.ca")` for more info
@@ -24540,458 +16251,250 @@ Run `revdepcheck::cloud_details(, "stability")` for more info * checking examples ... ERROR ``` - Running examples in ‘stability-Ex.R’ failed + Running examples in ‘soc.ca-Ex.R’ failed The error most likely occurred in: - > ### Name: ammi_biplot - > ### Title: Additive Main Effects and Multiplicative Interaction (AMMI) - > ### Biplot - > ### Aliases: ammi_biplot ammi_biplot.default + > ### Name: map.ind + > ### Title: Map the individuals of a soc.ca analysis + > ### Aliases: map.ind > > ### ** Examples > + > example(soc.ca) ... - > ammi_biplot( - + .data = ge_data - + , .y = Yield - + , .rep = Rep - + , .gen = Gen - + , .env = Env - + ) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ammi_biplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + • `linetype = "Linetype"` + • `size = "Size"` + • `fill = "Fill"` + > map <- map.ind(result, map.title = "The contribution of the individuals with new scale", + + point.color = result$ctr.ind[, 1], point.shape = 18) + > map + scale_color_continuous(low = "white", high = "red") + Error in continuous_scale(aesthetics, palette = NULL, guide = guide, na.value = na.value, : + unused arguments (low = "white", high = "red") + Calls: scale_color_continuous Execution halted ``` -# statgenGWAS +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘FactoMineR’ ‘flextable’ ‘htmlTable’ ‘stringr’ + All declared Imports should be used. + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 938 marked UTF-8 strings + ``` + +# SouthParkRshiny
-* Version: 1.0.9 -* GitHub: https://github.com/Biometris/statgenGWAS -* Source code: https://github.com/cran/statgenGWAS -* Date/Publication: 2022-10-13 15:30:43 UTC -* Number of recursive dependencies: 71 +* Version: 1.0.0 +* GitHub: https://github.com/Amalan-ConStat/SouthParkRshiny +* Source code: https://github.com/cran/SouthParkRshiny +* Date/Publication: 2024-03-09 11:10:08 UTC +* Number of recursive dependencies: 113 -Run `revdepcheck::cloud_details(, "statgenGWAS")` for more info +Run `revdepcheck::cloud_details(, "SouthParkRshiny")` for more info
## Newly broken -* checking tests ... ERROR +* checking whether package ‘SouthParkRshiny’ can be installed ... WARNING ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. - Complete output: - > - > if ( requireNamespace("tinytest", quietly=TRUE) ){ - + tinytest::test_package("statgenGWAS") - + } - - test_GWAS.R................... 0 tests - test_GWAS.R................... 0 tests - ... - conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <86> - 3: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <90> - 4: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for - 5: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <86> - 6: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : - conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <90> - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘SouthParkRshiny’ + See ‘/tmp/workdir/SouthParkRshiny/new/SouthParkRshiny.Rcheck/00install.out’ for details. ``` ## In both -* checking C++ specification ... NOTE +* checking installed package size ... NOTE ``` - Specified C++11: please drop specification unless essential + installed size is 8.6Mb + sub-directories of 1Mb or more: + data 8.0Mb ``` -* checking installed package size ... NOTE +* checking data for non-ASCII characters ... NOTE ``` - installed size is 15.2Mb - sub-directories of 1Mb or more: - data 7.0Mb - libs 7.2Mb + Note: found 1562 marked UTF-8 strings ``` -# statgenHTP +# SPARRAfairness
-* Version: 1.0.6.1 -* GitHub: https://github.com/Biometris/statgenHTP -* Source code: https://github.com/cran/statgenHTP -* Date/Publication: 2023-04-14 08:20:02 UTC -* Number of recursive dependencies: 141 +* Version: 0.0.0.2 +* GitHub: NA +* Source code: https://github.com/cran/SPARRAfairness +* Date/Publication: 2024-11-07 10:30:02 UTC +* Number of recursive dependencies: 64 -Run `revdepcheck::cloud_details(, "statgenHTP")` for more info +Run `revdepcheck::cloud_details(, "SPARRAfairness")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘statgenHTP-Ex.R’ failed - The error most likely occurred in: - - > ### Name: removeSerieOut - > ### Title: Replace outliers for series of observations by NA - > ### Aliases: removeSerieOut - > - > ### ** Examples - > - > ## Run the function to fit P-splines on a subset of genotypes. - ... - 18. │ └─ggplot2:::`+.gg`(...) - 19. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 20. │ ├─ggplot2::ggplot_add(object, p, objectname) - 21. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 22. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 23. └─base::.handleSimpleError(...) - 24. └─purrr (local) h(simpleError(msg, call)) - 25. └─cli::cli_abort(...) - 26. └─rlang::abort(...) - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. - Complete output: - > - > if ( requireNamespace("tinytest", quietly=TRUE) ){ - + tinytest::test_package("statgenHTP") - + } - - test_TP.R..................... 0 tests - test_TP.R..................... 0 tests - ... - test_detectSerieOut.R......... 16 tests 1 fails Error in eval(expr, envir = e) : object 'serieOut1' not found - Calls: ... lapply -> FUN -> eval -> eval -> expect_inherits -> fun - In addition: Warning messages: - 1: 125 failed to parse. - 2: Ignoring unknown labels: - • `colour = ""` - 3: The following genotypes have less than 3 plotIds and are skipped in the outlier detection: - G12 - - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Overview_HTP.Rmd’ + when running code in ‘SPARRAfairness_example.Rmd’ ... - > outVator <- detectSerieOut(corrDat = spatCorrectedVator, - + predDat = predDat, coefDat = coefDat, trait = "EffpsII_corr", - + genotypes = sub .... [TRUNCATED] + > obj_list = list(list(x = score_cutoffs, y = dem_par[1, + + ], ci = q * dem_par[2, ]), list(x = score_cutoffs, y = dem_par[3, + + ], ci = q * d .... [TRUNCATED] - When sourcing ‘Overview_HTP.R’: - Error: ℹ In index: 1. - ℹ With name: y. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero + > groupmetric_2panel(obj_list, labels = c("Urban", "Rural"), + + col = phs_colours(c("phs-blue", "phs-magenta")), ci_col = phs_colours(c("phs-blue" .... [TRUNCATED] + + When sourcing ‘SPARRAfairness_example.R’: + Error: EXPR must be a length 1 vector Execution halted - ‘Overview_HTP.Rmd’ using ‘UTF-8’... failed + ‘SPARRAfairness_example.Rmd’ using ‘UTF-8’... failed ``` -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Overview_HTP.Rmd’ using rmarkdown - ``` +# spinifex -## In both +
-* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘asreml’ - ``` +* Version: 0.3.8 +* GitHub: https://github.com/nspyrison/spinifex +* Source code: https://github.com/cran/spinifex +* Date/Publication: 2025-01-08 22:10:02 UTC +* Number of recursive dependencies: 154 -* checking installed package size ... NOTE +Run `revdepcheck::cloud_details(, "spinifex")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - installed size is 9.0Mb - sub-directories of 1Mb or more: - data 7.5Mb + Running ‘spelling.R’ + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(spinifex) + Loading required package: tourr + -------------------------------------------------------- + spinifex --- version 0.3.8 + Please share bugs, suggestions, and feature requests at: + ... + 2. │ └─base::withCallingHandlers(...) + 3. └─spinifex::play_tour_path(tour_path = tpath, data = dat_std, angle = 1) + 4. └─spinifex (local) render_type(frames = tour_df, ...) + 5. ├─plotly::ggplotly(p = gg, tooltip = "tooltip") + 6. └─plotly:::ggplotly.ggplot(p = gg, tooltip = "tooltip") + 7. └─plotly::gg2list(...) + + [ FAIL 3 | WARN 4 | SKIP 0 | PASS 80 ] + Error: Test failures + Execution halted ``` -# sugrrants +# spooky
-* Version: 0.2.9 -* GitHub: https://github.com/earowang/sugrrants -* Source code: https://github.com/cran/sugrrants -* Date/Publication: 2024-03-12 05:20:03 UTC -* Number of recursive dependencies: 103 +* Version: 1.4.0 +* GitHub: NA +* Source code: https://github.com/cran/spooky +* Date/Publication: 2022-08-13 20:00:02 UTC +* Number of recursive dependencies: 104 -Run `revdepcheck::cloud_details(, "sugrrants")` for more info +Run `revdepcheck::cloud_details(, "spooky")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘sugrrants-Ex.R’ failed - The error most likely occurred in: - - > ### Name: frame_calendar - > ### Title: Rearrange a temporal data frame to a calendar-based data format - > ### using linear algebra - > ### Aliases: frame_calendar prettify - > - > ### ** Examples - > - ... - + frame_calendar(x = Time, y = Hourly_Counts, date = Date, nrow = 4) - > - > # ggplot - > p1 <- calendar_df %>% - + ggplot(aes(x = .Time, y = .Hourly_Counts, group = Date)) + - + geom_line() - > prettify(p1, size = 3, label.padding = unit(0.15, "lines")) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: prettify ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘frame-calendar.Rmd’ - ... - > p1 <- centre_calendar %>% ggplot(aes(x = .Time, y = .Hourly_Counts, - + group = Date)) + geom_line() - - > p1 - - > prettify(p1) - - When sourcing ‘frame-calendar.R’: - Error: argument is of length zero - Execution halted - - ‘frame-calendar.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE +* checking whether package ‘spooky’ can be installed ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘frame-calendar.Rmd’ using rmarkdown + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘spooky’ + See ‘/tmp/workdir/spooky/new/spooky.Rcheck/00install.out’ for details. ``` -# superb +# sport
-* Version: 0.95.15 -* GitHub: https://github.com/dcousin3/superb -* Source code: https://github.com/cran/superb -* Date/Publication: 2024-08-17 19:00:02 UTC -* Number of recursive dependencies: 120 +* Version: 0.2.1 +* GitHub: https://github.com/gogonzo/sport +* Source code: https://github.com/cran/sport +* Date/Publication: 2024-01-08 23:50:02 UTC +* Number of recursive dependencies: 70 -Run `revdepcheck::cloud_details(, "superb")` for more info +Run `revdepcheck::cloud_details(, "sport")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘superb-Ex.R’ failed - The error most likely occurred in: - - > ### Name: GRD - > ### Title: Generate random data - > ### Aliases: GRD - > - > ### ** Examples - > - > # Simplest example using all the default arguments: - ... - Difficulty; levels: 1, 2, 3, 4, 5 - 2.Within-Subject Factors ( 1 repeated measures ): - 3.Subjects per group ( 500 total subjects ): - 100 - ------------------------------------------------------------ - > # show the mean performance as a function of difficulty: - > superbPlot(dta, BSFactors = "Difficulty", variables="DV") - Error in superbPlot(dta, BSFactors = "Difficulty", variables = "DV") : - superb::ERROR: The function superbPlot.bar is not a known function for making plots with superbPlot. Exiting... - Execution halted - ``` - * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) - > test_check("superb") - Loading required package: superb - [ FAIL 48 | WARN 0 | SKIP 0 | PASS 93 ] + > + > test_check("sport") + Loading required package: sport + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 238 ] ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Error ('test_compatibility.R:36:2'): TESTS (1/1) ──────────────────────────── - ... - 1. ├─testthat::expect_message(...) at test_superbPlot.R:810:5 - 2. │ └─testthat:::quasi_capture(enquo(object), label, capture_messages) - 3. │ ├─testthat (local) .capture(...) - 4. │ │ └─base::withCallingHandlers(...) - 5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) - 6. └─superb::superbPlot(...) + ── Failure ('test_output.R:30:3'): Scale is labelled 'r' ─────────────────────── + p$labels$y not identical to "r". + target is NULL, current is character - [ FAIL 48 | WARN 0 | SKIP 0 | PASS 93 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 238 ] Error: Test failures Execution halted ``` -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘CustomizingSuperbPlots.Rmd’ - ... - > mylabels <- c("Verbal", "Numerical", "Spatial", "Creativity", - + "Intrapersonal", "Interpersonal") - - > pltA <- superbPlot(dtaA, WSFactors = "Domain(6)", - + variables = mylabels, adjustments = list(purpose = "difference", - + decorrelation = .... [TRUNCATED] - - ... - ‘Vignette7.Rmd’ using ‘UTF-8’... failed - ‘Vignette8.Rmd’ using ‘UTF-8’... failed - ‘Vignette9.Rmd’ using ‘UTF-8’... failed - ‘VignetteA.Rmd’ using ‘UTF-8’... failed - ‘VignetteB.Rmd’ using ‘UTF-8’... failed - ‘VignetteC.Rmd’ using ‘UTF-8’... failed - ‘VignetteD.Rmd’ using ‘UTF-8’... OK - ‘VignetteE.Rmd’ using ‘UTF-8’... failed - ‘VignetteF.Rmd’ using ‘UTF-8’... failed - ‘VignetteG.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘CustomizingSuperbPlots.Rmd’ using rmarkdown - - Quitting from lines 91-107 [unnamed-chunk-4] (CustomizingSuperbPlots.Rmd) - Error: processing vignette 'CustomizingSuperbPlots.Rmd' failed with diagnostics: - superb::ERROR: The function superbPlot.raincloud is not a known function for making plots with superbPlot. Exiting... - --- failed re-building ‘CustomizingSuperbPlots.Rmd’ - - --- re-building ‘TheMakingOf.Rmd’ using rmarkdown - - ... - --- failed re-building ‘Vignette1.Rmd’ - - --- re-building ‘Vignette2.Rmd’ using rmarkdown - - Quitting from lines 39-48 [unnamed-chunk-2] (Vignette2.Rmd) - Error: processing vignette 'Vignette2.Rmd' failed with diagnostics: - superb::ERROR: The function superbPlot.line is not a known function for making plots with superbPlot. Exiting... - --- failed re-building ‘Vignette2.Rmd’ - - --- re-building ‘Vignette3.Rmd’ using rmarkdown - ``` - -# surveyexplorer - -
- -* Version: 0.2.0 -* GitHub: NA -* Source code: https://github.com/cran/surveyexplorer -* Date/Publication: 2024-06-07 09:50:02 UTC -* Number of recursive dependencies: 87 - -Run `revdepcheck::cloud_details(, "surveyexplorer")` for more info - -
- -## Newly broken +## In both -* checking examples ... ERROR +* checking data for non-ASCII characters ... NOTE ``` - Running examples in ‘surveyexplorer-Ex.R’ failed - The error most likely occurred in: - - > ### Name: multi_freq - > ### Title: Generate an UpSet plot for multiple-choice questions - > ### Aliases: multi_freq - > - > ### ** Examples - > - > - ... - - > - > #Basic Upset plot - > - > #Use `group_by` to partition the question into several groups - > multi_freq(berlinbears, question = dplyr::starts_with('will_eat'), group_by - + = gender) - Error in as.unit(e2) : object is not coercible to a unit - Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit - Execution halted + Note: found 7504 marked UTF-8 strings ``` -# survivalAnalysis +# SqueakR
-* Version: 0.3.0 -* GitHub: NA -* Source code: https://github.com/cran/survivalAnalysis -* Date/Publication: 2022-02-11 14:00:02 UTC -* Number of recursive dependencies: 153 +* Version: 1.3.0 +* GitHub: https://github.com/osimon81/SqueakR +* Source code: https://github.com/cran/SqueakR +* Date/Publication: 2022-06-28 09:20:04 UTC +* Number of recursive dependencies: 149 -Run `revdepcheck::cloud_details(, "survivalAnalysis")` for more info +Run `revdepcheck::cloud_details(, "SqueakR")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘SqueakR’ can be installed ... WARNING ``` - Running examples in ‘survivalAnalysis-Ex.R’ failed - The error most likely occurred in: - - > ### Name: kaplan_meier_plot - > ### Title: Kaplan Meier plots from survival results. - > ### Aliases: kaplan_meier_plot - > - > ### ** Examples - > - > library(magrittr) - ... - - > survival::aml %>% - + analyse_survival(vars(time, status), x) %>% - + kaplan_meier_plot(break.time.by="breakByMonth", - + xlab=".OS.months", - + risk.table=TRUE, - + ggtheme=ggplot2::theme_bw(10)) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘SqueakR’ + See ‘/tmp/workdir/SqueakR/new/SqueakR.Rcheck/00install.out’ for details. ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘multivariate.Rmd’ using rmarkdown + --- re-building ‘SqueakR.Rmd’ using rmarkdown ``` ## In both @@ -24999,290 +16502,202 @@ Run `revdepcheck::cloud_details(, "survivalAnalysis")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘univariate.Rmd’ + when running code in ‘SqueakR.Rmd’ ... - ECOG 2-3 vs. ECOG 1-2 1.41 2.0 2.82 <0.001 - ECOG 1-2 vs. ECOG 2-3 0.35 0.5 0.71 <0.001 - - + $ experimenters : NULL + $ experimental_data: list() - > kaplan_meier_plot(result) + > my_new_data <- add_timepoint_data(data_path = "../inst/extdata/Example_Mouse_Data.xlsx", + + t1 = 5, t2 = 25) + Adding call features Excel file to workspace... - When sourcing ‘univariate.R’: - Error: argument is of length zero + When sourcing ‘SqueakR.R’: + Error: `path` does not exist: ‘../inst/extdata/Example_Mouse_Data.xlsx’ Execution halted - ‘multivariate.Rmd’ using ‘UTF-8’... OK - ‘univariate.Rmd’ using ‘UTF-8’... failed + ‘SqueakR.Rmd’ using ‘UTF-8’... failed ``` -# survminer +* checking installed package size ... NOTE + ``` + installed size is 8.8Mb + sub-directories of 1Mb or more: + doc 8.2Mb + ``` + +# statgenGWAS
-* Version: 0.4.9 -* GitHub: https://github.com/kassambara/survminer -* Source code: https://github.com/cran/survminer -* Date/Publication: 2021-03-09 09:50:03 UTC -* Number of recursive dependencies: 133 +* Version: 1.0.10 +* GitHub: https://github.com/Biometris/statgenGWAS +* Source code: https://github.com/cran/statgenGWAS +* Date/Publication: 2024-11-15 15:00:01 UTC +* Number of recursive dependencies: 72 -Run `revdepcheck::cloud_details(, "survminer")` for more info +Run `revdepcheck::cloud_details(, "statgenGWAS")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘survminer-Ex.R’ failed - The error most likely occurred in: - - > ### Name: BRCAOV.survInfo - > ### Title: Breast and Ovarian Cancers Survival Information - > ### Aliases: BRCAOV.survInfo - > - > ### ** Examples - > - > data(BRCAOV.survInfo) - ... - The following object is masked from ‘package:survminer’: - - myeloma - - > fit <- survfit(Surv(times, patient.vital_status) ~ admin.disease_code, - + data = BRCAOV.survInfo) - > ggsurvplot(fit, data = BRCAOV.survInfo, risk.table = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ggsurvplot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - * checking tests ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. Complete output: - > library(testthat) - > library(survminer) - Loading required package: ggplot2 - Loading required package: ggpubr > - > test_check("survminer") - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 0 ] - ... - 4. └─survminer (local) ``(...) - 5. └─ggplot2:::`+.gg`(...) - 6. └─ggplot2:::add_ggplot(e1, e2, e2name) - 7. ├─ggplot2::ggplot_add(object, p, objectname) - 8. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 9. └─ggplot2:::new_layer_names(object, names(plot$layers)) + > if ( requireNamespace("tinytest", quietly=TRUE) ){ + + tinytest::test_package("statgenGWAS") + + } - [ FAIL 1 | WARN 1 | SKIP 0 | PASS 0 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Informative_Survival_Plots.Rmd’ - ... - - - > fit <- survfit(Surv(times, patient.vital_status) ~ - + admin.disease_code, data = BRCAOV.survInfo) - - > ggsurvplot(fit, data = BRCAOV.survInfo, risk.table = TRUE) - - ... - > ggsurvplot(fit, data = lung, pval = TRUE, pval.method = TRUE) - - When sourcing ‘Specifiying_weights_in_log-rank_comparisons.R’: - Error: argument is of length zero - Execution halted - - ‘Informative_Survival_Plots.Rmd’ using ‘UTF-8’... failed - ‘Playing_with_fonts_and_texts.Rmd’ using ‘UTF-8’... failed - ‘Specifiying_weights_in_log-rank_comparisons.Rmd’ using ‘UTF-8’... failed - ‘ggforest-show-interactions-hazard-ratio.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Informative_Survival_Plots.Rmd’ using rmarkdown - - Quitting from lines 66-72 [unnamed-chunk-4] (Informative_Survival_Plots.Rmd) - Error: processing vignette 'Informative_Survival_Plots.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Informative_Survival_Plots.Rmd’ - - --- re-building ‘Playing_with_fonts_and_texts.Rmd’ using rmarkdown - + test_GWAS.R................... 0 tests + test_GWAS.R................... 0 tests ... - --- failed re-building ‘Playing_with_fonts_and_texts.Rmd’ - - --- re-building ‘Specifiying_weights_in_log-rank_comparisons.Rmd’ using rmarkdown - - Quitting from lines 98-99 [unnamed-chunk-4] (Specifiying_weights_in_log-rank_comparisons.Rmd) - Error: processing vignette 'Specifiying_weights_in_log-rank_comparisons.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Specifiying_weights_in_log-rank_comparisons.Rmd’ - - --- re-building ‘ggforest-show-interactions-hazard-ratio.Rmd’ using rmarkdown + conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <86> + 3: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <90> + 4: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for + 5: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <86> + 6: In grid.Call.graphics(C_text, as.graphicsAnnot(x$label), x$x, x$y, : + conversion failure on '← 2@3' in 'mbcsToSbcs': dot substituted for <90> + Execution halted ``` ## In both * checking installed package size ... NOTE ``` - installed size is 6.1Mb + installed size is 15.1Mb sub-directories of 1Mb or more: - doc 5.6Mb + data 7.0Mb + libs 7.0Mb ``` -# survParamSim +# statgenHTP
-* Version: 0.1.6 -* GitHub: https://github.com/yoshidk6/survParamSim -* Source code: https://github.com/cran/survParamSim -* Date/Publication: 2022-06-03 08:10:02 UTC -* Number of recursive dependencies: 122 +* Version: 1.0.7 +* GitHub: https://github.com/Biometris/statgenHTP +* Source code: https://github.com/cran/statgenHTP +* Date/Publication: 2024-10-14 11:50:06 UTC +* Number of recursive dependencies: 134 -Run `revdepcheck::cloud_details(, "survParamSim")` for more info +Run `revdepcheck::cloud_details(, "statgenHTP")` for more info
-## Newly broken +## Newly broken + +* checking tests ... ERROR + ``` + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. + Complete output: + > + > if ( requireNamespace("tinytest", quietly=TRUE) ){ + + tinytest::test_package("statgenHTP") + + } + + test_TP.R..................... 0 tests + test_TP.R..................... 0 tests + ... + diff| Attributes differ + ----- FAILED[attr]: test_fitModPlots.R<205--205> + call| expect_equal(geoms0, c("GeomPoint", "GeomLine")) + diff| names for current but not for target + ----- FAILED[attr]: test_fitModPlots.R<211--211> + call| expect_equal(geoms1, c("GeomPoint")) + diff| Attributes differ + Error: 10 out of 651 tests failed + In addition: There were 46 warnings (use warnings() to see them) + Execution halted + ``` + +## In both -* checking running R code from vignettes ... ERROR +* checking package dependencies ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘survParamSim.Rmd’ - ... - + "Lev+5FU")), depth = as.nu .... [TRUNCATED] - - > survfit.colon <- survfit(Surv(time, status) ~ rx, - + data = colon2) - - > survminer::ggsurvplot(survfit.colon) - - When sourcing ‘survParamSim.R’: - Error: argument is of length zero - Execution halted - - ‘survParamSim.Rmd’ using ‘UTF-8’... failed + Package suggested but not available for checking: ‘asreml’ ``` -* checking re-building of vignette outputs ... NOTE +* checking installed package size ... NOTE ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘survParamSim.Rmd’ using rmarkdown - - Quitting from lines 53-58 [plot_raw_data] (survParamSim.Rmd) - Error: processing vignette 'survParamSim.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘survParamSim.Rmd’ - - SUMMARY: processing the following file failed: - ‘survParamSim.Rmd’ - - Error: Vignette re-building failed. - Execution halted + installed size is 9.0Mb + sub-directories of 1Mb or more: + data 7.5Mb ``` -# survstan +# stats19
-* Version: 0.0.7.1 -* GitHub: https://github.com/fndemarqui/survstan -* Source code: https://github.com/cran/survstan -* Date/Publication: 2024-04-12 16:50:02 UTC -* Number of recursive dependencies: 127 +* Version: 3.3.1 +* GitHub: https://github.com/ropensci/stats19 +* Source code: https://github.com/cran/stats19 +* Date/Publication: 2025-01-15 08:00:02 UTC +* Number of recursive dependencies: 147 -Run `revdepcheck::cloud_details(, "survstan")` for more info +Run `revdepcheck::cloud_details(, "stats19")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Errors in running code in vignettes: - when running code in ‘LRT.Rmd’ - ... - > ipass <- ipass %>% mutate(arm = as.factor(ipass$arm), - + arm = ifelse(arm == 1, "gefitinib", "carboplatin/paclitaxel")) - - > km <- survfit(Surv(time, status) ~ arm, data = ipass) - - > ggsurv(km) + Error(s) in re-building vignettes: + --- re-building ‘blog.Rmd’ using rmarkdown + [WARNING] Citeproc: citation sarkar_street_2018 not found + --- finished re-building ‘blog.Rmd’ - When sourcing ‘LRT.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted + --- re-building ‘stats19-training-setup.Rmd’ using rmarkdown + --- finished re-building ‘stats19-training-setup.Rmd’ - ‘LRT.Rmd’ using ‘UTF-8’... failed - ‘survstan.Rmd’ using ‘UTF-8’... OK + --- re-building ‘stats19-training.Rmd’ using rmarkdown ``` -* checking re-building of vignette outputs ... NOTE +## In both + +* checking running R code from vignettes ... WARNING ``` - Error(s) in re-building vignettes: + Errors in running code in vignettes: + when running code in ‘blog.Rmd’ ... - --- re-building ‘LRT.Rmd’ using rmarkdown + + cycling > 0 ~ "Cycli ..." ... [TRUNCATED] - Quitting from lines 31-42 [unnamed-chunk-2] (LRT.Rmd) - Error: processing vignette 'LRT.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘LRT.Rmd’ - - --- re-building ‘survstan.Rmd’ using rmarkdown - --- finished re-building ‘survstan.Rmd’ + > ggplot(crashes_types, aes(size = Total, colour = speed_limit)) + + + geom_sf(show.legend = "point", alpha = 0.3) + facet_grid(vars(type), + + .... [TRUNCATED] - SUMMARY: processing the following file failed: - ‘LRT.Rmd’ + When sourcing ‘blog.R’: + ... - Error: Vignette re-building failed. + When sourcing ‘stats19.R’: + Error: unused arguments (low = "blue", high = "red") Execution halted + + ‘blog.Rmd’ using ‘UTF-8’... failed + ‘stats19-training-setup.Rmd’ using ‘UTF-8’... OK + ‘stats19-training.Rmd’ using ‘UTF-8’... failed + ‘stats19-vehicles.Rmd’ using ‘UTF-8’... failed + ‘stats19.Rmd’ using ‘UTF-8’... failed ``` -## In both - -* checking installed package size ... NOTE - ``` - installed size is 80.3Mb - sub-directories of 1Mb or more: - libs 79.7Mb - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘RcppParallel’ ‘rstantools’ - All declared Imports should be used. - ``` - -* checking for GNU extensions in Makefiles ... NOTE - ``` - GNU make is a SystemRequirements. - ``` - -# SVMMaj +# surveyexplorer
-* Version: 0.2.9.2 +* Version: 0.2.0 * GitHub: NA -* Source code: https://github.com/cran/SVMMaj -* Date/Publication: 2024-08-19 08:20:13 UTC -* Number of recursive dependencies: 57 +* Source code: https://github.com/cran/surveyexplorer +* Date/Publication: 2024-06-07 09:50:02 UTC +* Number of recursive dependencies: 86 -Run `revdepcheck::cloud_details(, "SVMMaj")` for more info +Run `revdepcheck::cloud_details(, "surveyexplorer")` for more info
@@ -25290,121 +16705,103 @@ Run `revdepcheck::cloud_details(, "SVMMaj")` for more info * checking examples ... ERROR ``` - Running examples in ‘SVMMaj-Ex.R’ failed + Running examples in ‘surveyexplorer-Ex.R’ failed The error most likely occurred in: - > ### Name: print.q.svmmaj - > ### Title: SVM-Maj Algorithm - > ### Aliases: print.q.svmmaj svmmaj svmmaj.default + > ### Name: multi_freq + > ### Title: Generate an UpSet plot for multiple-choice questions + > ### Aliases: multi_freq > > ### ** Examples > > ... - > model3 <- svmmaj( - + diabetes$X, diabetes$y, weight.obs = weight.obs, - + spline.knots = 3, spline.degree = 2 - + ) - > plotWeights(model3, plotdim = c(2, 4)) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: plotWeights ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + > + > #Basic Upset plot + > + > #Use `group_by` to partition the question into several groups + > multi_freq(berlinbears, question = dplyr::starts_with('will_eat'), group_by + + = gender) + Error in as.unit(e2) : object is not coercible to a unit + Calls: ... polylineGrob -> is.unit -> unit.c -> Ops.unit -> as.unit Execution halted ``` +# survParamSim + +
+ +* Version: 0.1.6 +* GitHub: https://github.com/yoshidk6/survParamSim +* Source code: https://github.com/cran/survParamSim +* Date/Publication: 2022-06-03 08:10:02 UTC +* Number of recursive dependencies: 125 + +Run `revdepcheck::cloud_details(, "survParamSim")` for more info + +
+ +## Newly broken + * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘paper.Rnw’ + when running code in ‘survParamSim.Rmd’ ... - TP FP Precision - negative 0.741 0.259 0.879 - positive 0.817 0.183 0.636 - - > plotWeights(model.spline) + > survminer::ggsurvplot(survfit.colon) + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘survminer’ + Warning: Ignoring unknown labels: + • `fill = "Strata"` + • `linetype = "1"` - When sourcing ‘paper.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘survParamSim.R’: + Error: non-numeric argument to binary operator Execution halted - ‘paper.Rnw’... failed + ‘survParamSim.Rmd’ using ‘UTF-8’... failed ``` -## In both - * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘paper.Rnw’ using Sweave - Scale for y is already present. - Adding another scale for y, which will replace the existing scale. - Scale for y is already present. - Adding another scale for y, which will replace the existing scale. - - Error: processing vignette 'paper.Rnw' failed with diagnostics: - chunk 20 (label = splineweightsplot) - ... - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 + --- re-building ‘survParamSim.Rmd’ using rmarkdown - --- failed re-building ‘paper.Rnw’ + Quitting from lines 53-58 [plot_raw_data] (survParamSim.Rmd) + Error: processing vignette 'survParamSim.Rmd' failed with diagnostics: + non-numeric argument to binary operator + --- failed re-building ‘survParamSim.Rmd’ SUMMARY: processing the following file failed: - ‘paper.Rnw’ + ‘survParamSim.Rmd’ Error: Vignette re-building failed. Execution halted ``` -# Sysrecon +# symptomcheckR
* Version: 0.1.3 -* GitHub: NA -* Source code: https://github.com/cran/Sysrecon -* Date/Publication: 2023-02-20 08:50:02 UTC -* Number of recursive dependencies: 58 +* GitHub: https://github.com/ma-kopka/symptomcheckR +* Source code: https://github.com/cran/symptomcheckR +* Date/Publication: 2024-04-16 20:40:06 UTC +* Number of recursive dependencies: 107 -Run `revdepcheck::cloud_details(, "Sysrecon")` for more info +Run `revdepcheck::cloud_details(, "symptomcheckR")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘Sysrecon-Ex.R’ failed - The error most likely occurred in: - - > ### Name: Sysrecon - > ### Title: Sysrecon - > ### Aliases: Sysrecon - > - > ### ** Examples - > - > - ... - Warning in fortify(data, ...) : - Arguments in `...` must be used. - ✖ Problematic arguments: - • as.Date = as.Date - • yscale_mapping = yscale_mapping - • hang = hang - ℹ Did you misspell an argument name? - Error in as.unit(value) : object is not coercible to a unit - Calls: Sysrecon ... assemble_guides -> guides_build -> [<- -> [<-.unit -> as.unit - Execution halted - ``` - -## In both - -* checking data for non-ASCII characters ... NOTE +* checking whether package ‘symptomcheckR’ can be installed ... WARNING ``` - Note: found 38 marked UTF-8 strings + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘symptomcheckR’ + See ‘/tmp/workdir/symptomcheckR/new/symptomcheckR.Rcheck/00install.out’ for details. ``` # tabledown @@ -25415,7 +16812,7 @@ Run `revdepcheck::cloud_details(, "Sysrecon")` for more info * GitHub: https://github.com/masiraji/tabledown * Source code: https://github.com/cran/tabledown * Date/Publication: 2024-05-02 13:40:03 UTC -* Number of recursive dependencies: 164 +* Number of recursive dependencies: 167 Run `revdepcheck::cloud_details(, "tabledown")` for more info @@ -25455,71 +16852,15 @@ Run `revdepcheck::cloud_details(, "tabledown")` for more info Note: found 551 marked UTF-8 strings ``` -# tcgaViz - -
- -* Version: 1.0.2 -* GitHub: NA -* Source code: https://github.com/cran/tcgaViz -* Date/Publication: 2023-04-04 15:40:02 UTC -* Number of recursive dependencies: 142 - -Run `revdepcheck::cloud_details(, "tcgaViz")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Tutorial.Rmd’ - ... - # `P-value adjusted` , Significance - - > plot(df, stats = stats) - - When sourcing ‘Tutorial.R’: - Error: ℹ In index: 1. - ℹ With name: value. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - Execution halted - - ‘Tutorial.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘Tutorial.Rmd’ using rmarkdown - - Quitting from lines 35-43 [plot] (Tutorial.Rmd) - Error: processing vignette 'Tutorial.Rmd' failed with diagnostics: - ℹ In index: 1. - ℹ With name: value. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero - --- failed re-building ‘Tutorial.Rmd’ - - SUMMARY: processing the following file failed: - ‘Tutorial.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - # TCIU
-* Version: 1.2.6 +* Version: 1.2.7 * GitHub: https://github.com/SOCR/TCIU * Source code: https://github.com/cran/TCIU -* Date/Publication: 2024-05-17 23:40:21 UTC -* Number of recursive dependencies: 163 +* Date/Publication: 2024-09-15 02:40:02 UTC +* Number of recursive dependencies: 167 Run `revdepcheck::cloud_details(, "TCIU")` for more info @@ -25550,13 +16891,13 @@ Run `revdepcheck::cloud_details(, "TCIU")` for more info Errors in running code in vignettes: when running code in ‘tciu-LT-kimesurface.Rmd’ ... - > require(ggplot2) - > sample_save[[1]] > sample_save[[2]] When sourcing ‘tciu-LT-kimesurface.R’: + Error: Problem while computing layer data. + ℹ Error occurred in the 1st layer. ... > fmri_image(fmri_generate$fmri_data, option = "manually", @@ -25578,10 +16919,10 @@ Run `revdepcheck::cloud_details(, "TCIU")` for more info Quitting from lines 159-160 [unnamed-chunk-5] (tciu-LT-kimesurface.Rmd) Error: processing vignette 'tciu-LT-kimesurface.Rmd' failed with diagnostics: - unused arguments (list(1, 2), list(list("black", 0.727272727272727, 1, "butt", FALSE, TRUE), list("white", "black", 0.727272727272727, 1, TRUE), list("", "plain", "black", 16, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(4, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 4, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 4, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, - NULL, 1, -90, NULL, c(0, 0, 0, 4), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(3.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 3.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, NULL, c(0, 3.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 3.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, - NULL, NULL, c(0, 3.2, 0, 3.2), NULL, TRUE), list("grey20", NULL, NULL, NULL, FALSE, TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 4, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), c(8, 8, 8, 8), 16, NULL, NULL, NULL, 1.2, NULL, NULL, 8, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, - NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, "bold", "black", 14, 0, NULL, NULL, NULL, NULL, NULL, FALSE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, c(0, 0, 0, 0), list(), 16, list("grey92", NA, NULL, NULL, TRUE), list(), 8, NULL, NULL, list("white", NULL, NULL, NULL, FALSE, TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, TRUE), NULL, list(), NULL, list(), FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0.5, 1, NULL, + Problem while computing layer data. + ℹ Error occurred in the 1st layer. + Caused by error in `is.waive()`: + ! could not find function "is.waive" ... Quitting from lines 184-185 [unnamed-chunk-5] (tciu-fMRI-analytics.Rmd) Error: processing vignette 'tciu-fMRI-analytics.Rmd' failed with diagnostics: @@ -25605,122 +16946,50 @@ Run `revdepcheck::cloud_details(, "TCIU")` for more info doc 12.0Mb ``` -# tcpl +# TestGardener
-* Version: 3.1.0 -* GitHub: https://github.com/USEPA/CompTox-ToxCast-tcpl -* Source code: https://github.com/cran/tcpl -* Date/Publication: 2023-10-06 19:50:02 UTC -* Number of recursive dependencies: 117 +* Version: 3.3.5 +* GitHub: NA +* Source code: https://github.com/cran/TestGardener +* Date/Publication: 2024-09-18 17:40:02 UTC +* Number of recursive dependencies: 124 -Run `revdepcheck::cloud_details(, "tcpl")` for more info +Run `revdepcheck::cloud_details(, "TestGardener")` for more info
## Newly broken -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - 20. │ └─grid:::grid.draw.grob(x$children[[i]], recording = FALSE) - 21. │ └─grDevices::recordGraphics(drawGrob(x), list(x = x), getNamespace("grid")) - 22. └─grid:::drawGrob(x) - 23. ├─grid::drawDetails(x, recording = FALSE) - 24. └─grid:::drawDetails.polyline(x, recording = FALSE) - 25. └─grid:::grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) - - [ FAIL 2 | WARN 4 | SKIP 3 | PASS 55 ] - Error: Test failures - Execution halted - ``` - -## In both - -* checking running R code from vignettes ... ERROR +* checking whether package ‘TestGardener’ can be installed ... WARNING ``` - Errors in running code in vignettes: - when running code in ‘Data_processing-Archive_tcpl_v2.Rmd’ - ... - Loaded L4 AEID2 (7 rows; 0.03 secs) - Processed L5 AEID2 (7 rows; 0.08 secs) - Writing level 5 data for 2 ids... - Completed delete cascade for 2 ids (0.03 secs) - Writing level 5 complete. (0.03 secs) - Loaded L5 AEID1 (6 rows; 0.11 secs) - - When sourcing ‘Data_processing-Archive_tcpl_v2.R’: - Error: attempt to apply non-function - Execution halted - - ‘Assay_Registration.Rmd’ using ‘UTF-8’... OK - ‘Data_processing-Archive_tcpl_v2.Rmd’ using ‘UTF-8’... failed - ‘Data_processing.Rmd’ using ‘UTF-8’... OK - ‘Data_retrieval.Rmd’ using ‘UTF-8’... OK - ‘Introduction_Appendices.Rmd’ using ‘UTF-8’... OK + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘TestGardener’ + See ‘/tmp/workdir/TestGardener/new/TestGardener.Rcheck/00install.out’ for details. ``` -# tern +# tetragon
-* Version: 0.9.5 -* GitHub: https://github.com/insightsengineering/tern -* Source code: https://github.com/cran/tern -* Date/Publication: 2024-06-21 04:40:06 UTC -* Number of recursive dependencies: 109 - -Run `revdepcheck::cloud_details(, "tern")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘tern-Ex.R’ failed - The error most likely occurred in: - - > ### Name: g_km - > ### Title: Kaplan-Meier plot - > ### Aliases: g_km kaplan_meier - > - > ### ** Examples - > - > library(dplyr) - ... - + control_surv = control_surv_timepoint(conf_level = 0.9), - + col = c("grey25", "grey50", "grey75"), - + annot_at_risk_title = FALSE, - + lty = 1:3, - + font_size = 8 - + ) - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - -## In both +* Version: 1.3.0 +* GitHub: NA +* Source code: https://github.com/cran/tetragon +* Date/Publication: 2022-08-13 17:30:02 UTC +* Number of recursive dependencies: 113 -* checking installed package size ... NOTE +Run `revdepcheck::cloud_details(, "tetragon")` for more info + +
+ +## Newly broken + +* checking whether package ‘tetragon’ can be installed ... WARNING ``` - installed size is 9.8Mb - sub-directories of 1Mb or more: - R 1.5Mb - doc 4.5Mb - help 3.3Mb + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::is.scale’ by ‘greybox::is.scale’ when loading ‘tetragon’ + See ‘/tmp/workdir/tetragon/new/tetragon.Rcheck/00install.out’ for details. ``` # thematic @@ -25731,7 +17000,7 @@ Run `revdepcheck::cloud_details(, "tern")` for more info * GitHub: https://github.com/rstudio/thematic * Source code: https://github.com/cran/thematic * Date/Publication: 2024-07-29 15:50:02 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 105 Run `revdepcheck::cloud_details(, "thematic")` for more info @@ -25787,56 +17056,15 @@ Run `revdepcheck::cloud_details(, "thematic")` for more info Execution halted ``` -# Thermistor - -
- -* Version: 1.1.0 -* GitHub: NA -* Source code: https://github.com/cran/Thermistor -* Date/Publication: 2024-04-05 15:43:02 UTC -* Number of recursive dependencies: 28 - -Run `revdepcheck::cloud_details(, "Thermistor")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘Thermistor-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_voltageCurve - > ### Title: Plot the V-DeltaT Curve - > ### Aliases: plot_voltageCurve - > - > ### ** Examples - > - > ### only target curve - ... - > ThVal <- CompValues$ThVal - > ThBeta <- CompValues$ThBeta - > Vnew <- voltageCurve(Tdata, R_id, Res, ThVal, ThBeta) - > plot_voltageCurve(Tdata, OnlyTarget = FALSE, Pdata = Vnew) - Warning in ggplot2::geom_line(ggplot2::aes(x = xid, y = Vdata, colour = "target", : - Ignoring unknown aesthetics: shape - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted - ``` - # tidybayes
-* Version: 3.0.6 +* Version: 3.0.7 * GitHub: https://github.com/mjskay/tidybayes * Source code: https://github.com/cran/tidybayes -* Date/Publication: 2023-08-12 23:30:02 UTC -* Number of recursive dependencies: 200 +* Date/Publication: 2024-09-15 06:20:02 UTC +* Number of recursive dependencies: 194 Run `revdepcheck::cloud_details(, "tidybayes")` for more info @@ -25884,14 +17112,14 @@ Run `revdepcheck::cloud_details(, "tidybayes")` for more info > > test_check("tidybayes") ... - • test.geom_interval/grouped-intervals-h-stat.svg - • test.geom_pointinterval/grouped-pointintervals-h-stat.svg • test.stat_dist_slabinterval/ccdfintervalh-using-args.svg • test.stat_eye/one-parameter-horizontal-eye-mode-hdi.svg + • test.stat_eye/one-parameter-horizontal-eye.svg • test.stat_eye/one-parameter-horizontal-half-eye.svg • test.stat_eye/one-parameter-vertical-eye.svg • test.stat_eye/one-parameter-vertical-halfeye.svg • test.stat_eye/two-parameter-factor-horizontal-eye-fill.svg + • test.stat_eye/two-parameter-factor-horizontal-half-eye.svg Error: Test failures Execution halted ``` @@ -26003,7 +17231,7 @@ Run `revdepcheck::cloud_details(, "tidycat")` for more info * GitHub: https://github.com/Biogen-Inc/tidyCDISC * Source code: https://github.com/cran/tidyCDISC * Date/Publication: 2023-03-16 14:20:02 UTC -* Number of recursive dependencies: 141 +* Number of recursive dependencies: 133 Run `revdepcheck::cloud_details(, "tidyCDISC")` for more info @@ -26109,71 +17337,17 @@ ERROR: lazy loading failed for package ‘tidydr’ ``` -# tidysdm - -
- -* Version: 0.9.5 -* GitHub: https://github.com/EvolEcolGroup/tidysdm -* Source code: https://github.com/cran/tidysdm -* Date/Publication: 2024-06-23 19:40:02 UTC -* Number of recursive dependencies: 180 - -Run `revdepcheck::cloud_details(, "tidysdm")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘a0_tidysdm_overview.Rmd’ - ... - > climate_vars <- names(climate_present) - - > lacerta_thin <- lacerta_thin %>% bind_cols(terra::extract(climate_present, - + lacerta_thin, ID = FALSE)) - - > lacerta_thin %>% plot_pres_vs_bg(class) - - When sourcing ‘a0_tidysdm_overview.R’: - Error: object is not a unit - Execution halted - - ‘a0_tidysdm_overview.Rmd’ using ‘UTF-8’... failed - ‘a1_palaeodata_application.Rmd’ using ‘UTF-8’... OK - ‘a2_tidymodels_additions.Rmd’ using ‘UTF-8’... OK - ‘a3_troubleshooting.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘a0_tidysdm_overview.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 5.4Mb - sub-directories of 1Mb or more: - data 2.5Mb - doc 2.0Mb - ``` - -# tidySEM +# tidyplots
-* Version: 0.2.7 -* GitHub: https://github.com/cjvanlissa/tidySEM -* Source code: https://github.com/cran/tidySEM -* Date/Publication: 2024-06-04 09:46:01 UTC -* Number of recursive dependencies: 229 +* Version: 0.2.1 +* GitHub: https://github.com/jbengler/tidyplots +* Source code: https://github.com/cran/tidyplots +* Date/Publication: 2025-01-19 21:50:02 UTC +* Number of recursive dependencies: 128 -Run `revdepcheck::cloud_details(, "tidySEM")` for more info +Run `revdepcheck::cloud_details(, "tidyplots")` for more info
@@ -26181,20 +17355,26 @@ Run `revdepcheck::cloud_details(, "tidySEM")` for more info * checking examples ... ERROR ``` - Running examples in ‘tidySEM-Ex.R’ failed + Running examples in ‘tidyplots-Ex.R’ failed The error most likely occurred in: - > ### Name: edit_graph - > ### Title: Edit graph elements - > ### Aliases: edit_graph edit_nodes edit_edges + > ### Name: add + > ### Title: Add ggplot2 code to a tidyplot + > ### Aliases: add > > ### ** Examples > - > p <- prepare_graph(layout = get_layout("x", rows = 1)) - > p <- edit_graph(p, {colour = "blue"}, element = "nodes") - > plot(p) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > study %>% + ... + 23. └─self$extract_key(...) + 24. └─ggplot2 (local) extract_key(...) + 25. └─scale$map(breaks) + 26. └─ggplot2 (local) map(..., self = self) + 27. ├─base::c(pal, na_value) + 28. └─tidyplots:::c.tidycolor(pal, na_value) + 29. └─tidyplots::new_color_scheme(NextMethod()) + 30. └─cli::cli_abort("{.arg x} must be a vector of hex colors.") + 31. └─rlang::abort(...) Execution halted ``` @@ -26203,22 +17383,22 @@ Run `revdepcheck::cloud_details(, "tidySEM")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(tidySEM) - Loading required package: OpenMx - To take full advantage of multiple cores, use: - mxOption(key='Number of Threads', value=parallel::detectCores()) #now - Sys.setenv(OMP_NUM_THREADS=parallel::detectCores()) #before library(OpenMx) - Registered S3 method overwritten by 'tidySEM': - ... - 4. └─tidySEM:::.plot_edges_internal(p, df_edges) - 5. └─ggplot2:::`+.gg`(p, do.call(geom_path, argslist)) - 6. └─ggplot2:::add_ggplot(e1, e2, e2name) - 7. ├─ggplot2::ggplot_add(object, p, objectname) - 8. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 9. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 17 | WARN 1 | SKIP 6 | PASS 65 ] + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html + ... + • labels/reverse-x.svg + • labels/reverse-y.svg + • labels/sort-color-1.svg + • labels/sort-color-2.svg + • labels/sort-x-1.svg + • labels/sort-x-2.svg + • labels/sort-y-1.svg + • labels/sort-y-2.svg Error: Test failures Execution halted ``` @@ -26226,48 +17406,35 @@ Run `revdepcheck::cloud_details(, "tidySEM")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Plotting_graphs.Rmd’ + when running code in ‘tidyplots.Rmd’ ... + 17 D treatment low p07 45 male 25 + 18 D treatment low p08 32 female 21 + 19 D treatment low p09 37 male 22 + 20 D treatment low p10 24 female 23 - > suppressWarnings({ - + HS.model <- " visual =~ x1 + x2 + x3\n textual =~ x4 + x5 + x6\n speed =~ x7 + x8 + x9 " - + .... [TRUNCATED] + > study %>% tidyplot(x = treatment, y = score) - > p <- graph_sem(model = fit, text_size = 2, fix_coord = TRUE) - - ... + When sourcing ‘tidyplots.R’: + Error: `x` must be a vector of hex colors. + Execution halted - ‘Generating_syntax.Rmd’ using ‘UTF-8’... OK - ‘Plotting_graphs.Rmd’ using ‘UTF-8’... failed - ‘SMART_LCA_checklist.Rmd’ using ‘UTF-8’... OK - ‘Tabulating_results.Rmd’ using ‘UTF-8’... OK - ‘lca_confirmatory.Rmd’ using ‘UTF-8’... OK - ‘lca_exploratory.Rmd’ using ‘UTF-8’... OK - ‘lca_lcga.Rmd’ using ‘UTF-8’... OK - ‘lca_ordinal.Rmd’ using ‘UTF-8’... OK - ‘sem_graph.Rmd’ using ‘UTF-8’... failed + ‘tidyplots.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘Generating_syntax.Rmd’ using rmarkdown - --- finished re-building ‘Generating_syntax.Rmd’ - - --- re-building ‘Plotting_graphs.Rmd’ using rmarkdown + ... + --- re-building ‘tidyplots.Rmd’ using rmarkdown - Quitting from lines 77-80 [unnamed-chunk-5] (Plotting_graphs.Rmd) - Error: processing vignette 'Plotting_graphs.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘Plotting_graphs.Rmd’ - ... - Quitting from lines 48-51 [unnamed-chunk-3] (sem_graph.Rmd) - Error: processing vignette 'sem_graph.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘sem_graph.Rmd’ + Quitting from lines 80-82 [unnamed-chunk-5] (tidyplots.Rmd) + Error: processing vignette 'tidyplots.Rmd' failed with diagnostics: + `x` must be a vector of hex colors. + --- failed re-building ‘tidyplots.Rmd’ - SUMMARY: processing the following files failed: - ‘Plotting_graphs.Rmd’ ‘sem_graph.Rmd’ + SUMMARY: processing the following file failed: + ‘tidyplots.Rmd’ Error: Vignette re-building failed. Execution halted @@ -26277,11 +17444,11 @@ Run `revdepcheck::cloud_details(, "tidySEM")` for more info
-* Version: 0.2.2 +* Version: 0.3.1 * GitHub: https://github.com/bonStats/tidytreatment * Source code: https://github.com/cran/tidytreatment -* Date/Publication: 2022-02-21 09:00:07 UTC -* Number of recursive dependencies: 97 +* Date/Publication: 2025-01-10 12:30:02 UTC +* Number of recursive dependencies: 109 Run `revdepcheck::cloud_details(, "tidytreatment")` for more info @@ -26301,17 +17468,22 @@ Run `revdepcheck::cloud_details(, "tidytreatment")` for more info Error: Problem while setting up geom aesthetics. ℹ Error occurred in the 1st layer. Caused by error in `use_defaults()`: + ... + When sourcing ‘use-tidytreatment-bartCause.R’: + Error: Problem while setting up geom aesthetics. + ℹ Error occurred in the 1st layer. + Caused by error in `use_defaults()`: ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, - NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, Execution halted ‘use-tidytreatment-BART.Rmd’ using ‘UTF-8’... failed + ‘use-tidytreatment-bartCause.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - ... --- re-building ‘use-tidytreatment-BART.Rmd’ using rmarkdown Quitting from lines 163-177 [plot-tidy-bart] (use-tidytreatment-BART.Rmd) @@ -26320,14 +17492,15 @@ Run `revdepcheck::cloud_details(, "tidytreatment")` for more info ℹ Error occurred in the 1st layer. Caused by error in `use_defaults()`: ! unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.75, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, + NULL, 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 2.75, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, ... - NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("white", NA, NULL, NULL, TRUE), list(NULL, "grey20", NULL, NULL, TRUE), NULL, NULL, NULL, list("grey92", - NULL, NULL, NULL, FALSE, "grey92", TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", - NULL, NULL, list("grey85", "grey20", NULL, NULL, TRUE), NULL, NULL, "on", "inside", list(NULL, NULL, "grey10", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) - --- failed re-building ‘use-tidytreatment-BART.Rmd’ + NULL, NULL, NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("white", NA, NULL, NULL, TRUE), list(NULL, "#333333FF", NULL, NULL, TRUE), NULL, NULL, + NULL, list("#EBEBEBFF", NULL, NULL, NULL, FALSE, "#EBEBEBFF", TRUE), NULL, list(NULL, 0.5, NULL, NULL, FALSE, NULL, TRUE), NULL, NULL, NULL, NULL, FALSE, NULL, NULL, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, + NULL, NULL, TRUE), "topleft", NULL, NULL, list("#D9D9D9FF", "#333333FF", NULL, NULL, TRUE), NULL, NULL, "on", "inside", list(NULL, NULL, "#1A1A1AFF", 0.8, NULL, NULL, NULL, NULL, c(4.4, 4.4, 4.4, 4.4), NULL, TRUE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) + --- failed re-building ‘use-tidytreatment-bartCause.Rmd’ - SUMMARY: processing the following file failed: - ‘use-tidytreatment-BART.Rmd’ + SUMMARY: processing the following files failed: + ‘use-tidytreatment-BART.Rmd’ ‘use-tidytreatment-bartCause.Rmd’ Error: Vignette re-building failed. Execution halted @@ -26340,47 +17513,6 @@ Run `revdepcheck::cloud_details(, "tidytreatment")` for more info Package which this enhances but not available for checking: ‘bartMachine’ ``` -# timeplyr - -
- -* Version: 0.8.2 -* GitHub: https://github.com/NicChr/timeplyr -* Source code: https://github.com/cran/timeplyr -* Date/Publication: 2024-08-17 13:40:02 UTC -* Number of recursive dependencies: 83 - -Run `revdepcheck::cloud_details(, "timeplyr")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘timeplyr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: time_ggplot - > ### Title: Quick time-series ggplot - > ### Aliases: time_ggplot - > - > ### ** Examples - > - > library(dplyr) - ... - > data.table::setDTthreads(threads = 2L) - > collapse::set_collapse(nthreads = 1L) - > ## End(Don't show) - > # It's as easy as this - > AirPassengers %>% - + ts_as_tibble() %>% - + time_ggplot(time, value) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: %>% ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - # timetk
@@ -26389,7 +17521,7 @@ Run `revdepcheck::cloud_details(, "timeplyr")` for more info * GitHub: https://github.com/business-science/timetk * Source code: https://github.com/cran/timetk * Date/Publication: 2023-10-31 22:30:02 UTC -* Number of recursive dependencies: 205 +* Number of recursive dependencies: 204 Run `revdepcheck::cloud_details(, "timetk")` for more info @@ -26429,196 +17561,6 @@ Run `revdepcheck::cloud_details(, "timetk")` for more info Note: found 2750 marked UTF-8 strings ``` -# tinyarray - -
- -* Version: 2.4.2 -* GitHub: https://github.com/xjsun1221/tinyarray -* Source code: https://github.com/cran/tinyarray -* Date/Publication: 2024-06-13 14:20:02 UTC -* Number of recursive dependencies: 243 - -Run `revdepcheck::cloud_details(, "tinyarray")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘tinyarray-Ex.R’ failed - The error most likely occurred in: - - > ### Name: box_surv - > ### Title: box_surv - > ### Aliases: box_surv - > - > ### ** Examples - > - > if(requireNamespace("ggpubr",quietly = TRUE)) { - + k = box_surv(log2(exp_hub1+1),exprSet_hub1,meta1);k[[1]] - + }else{ - + warning("Package 'ggpubr' needed for this function to work. - + Please install it by install.packages('ggpubr')") - + } - Error in if (new_name %in% existing) { : argument is of length zero - Calls: box_surv ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘ComplexHeatmap’ - ``` - -# tipmap - -
- -* Version: 0.5.2 -* GitHub: https://github.com/Boehringer-Ingelheim/tipmap -* Source code: https://github.com/cran/tipmap -* Date/Publication: 2023-08-14 10:30:03 UTC -* Number of recursive dependencies: 104 - -Run `revdepcheck::cloud_details(, "tipmap")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘introduction.Rmd’ - ... - - MAP Prior MCMC sample: - mean sd 2.5% 50% 97.5% - theta_resp_pred 1.43 0.356 0.661 1.44 2.1 - - > plot(map_mcmc)$forest_model - - When sourcing ‘introduction.R’: - Error: argument is of length zero - Execution halted - - ‘expert_elicitation.Rmd’ using ‘UTF-8’... OK - ‘introduction.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘expert_elicitation.Rmd’ using rmarkdown - ``` - -# tornado - -
- -* Version: 0.1.3 -* GitHub: https://github.com/bertcarnell/tornado -* Source code: https://github.com/cran/tornado -* Date/Publication: 2024-01-21 17:30:02 UTC -* Number of recursive dependencies: 114 - -Run `revdepcheck::cloud_details(, "tornado")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘tornado-Ex.R’ failed - The error most likely occurred in: - - > ### Name: importance.cv.glmnet - > ### Title: Plot Variable Importance for a GLMNET model - > ### Aliases: importance.cv.glmnet - > - > ### ** Examples - > - > if (requireNamespace("glmnet", quietly = TRUE)) - ... - + form <- formula(mpg ~ cyl*wt*hp) - + mf <- model.frame(form, data = mtcars) - + mm <- model.matrix(mf, mf) - + gtest <- glmnet::cv.glmnet(x = mm, y = mtcars$mpg, family = "gaussian") - + imp <- importance(gtest, mtcars, form, nperm = 50) - + plot(imp) - + } - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > if (require(testthat)) - + { - + library(tornado) - + - + test_check("tornado") - + } - Loading required package: testthat - ... - 2. └─tornado:::plot.tornado_plot(torn, plot = FALSE, xlabel = "Probability of Class 1") - 3. └─ggplot2:::`+.gg`(...) - 4. └─ggplot2:::add_ggplot(e1, e2, e2name) - 5. ├─ggplot2::ggplot_add(object, p, objectname) - 6. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 7. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 28 | WARN 14 | SKIP 0 | PASS 86 ] - Error: Test failures - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘tornadoVignette.Rmd’ - ... - > lm1 <- lm(mpg ~ cyl * wt * hp, data = mtcars) - - > torn1 <- tornado::tornado(lm1, type = "PercentChange", - + alpha = 0.1) - - > plot(torn1, xlabel = "MPG", geom_bar_control = list(width = 0.4)) - - When sourcing ‘tornadoVignette.R’: - Error: argument is of length zero - Execution halted - - ‘tornadoVignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘tornadoVignette.Rmd’ using rmarkdown - - Quitting from lines 106-109 [lm1] (tornadoVignette.Rmd) - Error: processing vignette 'tornadoVignette.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘tornadoVignette.Rmd’ - - SUMMARY: processing the following file failed: - ‘tornadoVignette.Rmd’ - - Error: Vignette re-building failed. - Execution halted - ``` - # TOSTER
@@ -26627,7 +17569,7 @@ Run `revdepcheck::cloud_details(, "tornado")` for more info * GitHub: NA * Source code: https://github.com/cran/TOSTER * Date/Publication: 2024-05-08 16:40:02 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 109 Run `revdepcheck::cloud_details(, "TOSTER")` for more info @@ -26655,7 +17597,7 @@ Run `revdepcheck::cloud_details(, "TOSTER")` for more info Error in use_defaults(..., self = self) : unused argument (theme = list(list("black", 0.727272727272727, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.727272727272727, 1, TRUE), list("", "plain", "black", 16, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.727272727272727, 0.727272727272727, 1, 1, "", 5.62335685623357, 2.18181818181818, 19, TRUE), 8, c(8, 8, 8, 8), NULL, NULL, list(NULL, NULL, "#333333", NULL, NULL, NULL, NULL, - NULL, c(10, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 4, 0), NULL, TRUE), NULL, list(NULL, NULL, "#333333", NULL, NULL, NULL, 90, NULL, c(0, 10, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 4), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, "#333333", NULL, NULL, NULL, NULL, NULL, c(5, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NU + NULL, c(10, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 4, 0), NULL, TRUE), NULL, list(NULL, NULL, "#333333", NULL, NULL, NULL, 90, NULL, c(0, 10, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 4), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, "#333333", NULL, NULL, NULL, NULL, NULL, c(5, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, Calls: ... -> -> -> Execution halted ``` @@ -26699,7 +17641,7 @@ Run `revdepcheck::cloud_details(, "TOSTER")` for more info When sourcing ‘IntroTOSTt.R’: ... Error: unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, - 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, "bold", NULL, 11, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, list + 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, "bold", NULL, 11, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(), NULL, l Execution halted ‘IntroTOSTt.Rmd’ using ‘UTF-8’... failed @@ -26716,17 +17658,17 @@ Run `revdepcheck::cloud_details(, "TOSTER")` for more info --- re-building ‘IntroTOSTt.Rmd’ using rmarkdown ``` -# TreatmentPatterns +# track2KBA
-* Version: 2.6.9 -* GitHub: https://github.com/darwin-eu/TreatmentPatterns -* Source code: https://github.com/cran/TreatmentPatterns -* Date/Publication: 2024-09-02 12:40:06 UTC -* Number of recursive dependencies: 142 +* Version: 1.1.2 +* GitHub: https://github.com/BirdLifeInternational/track2kba +* Source code: https://github.com/cran/track2KBA +* Date/Publication: 2024-07-01 10:40:07 UTC +* Number of recursive dependencies: 96 -Run `revdepcheck::cloud_details(, "TreatmentPatterns")` for more info +Run `revdepcheck::cloud_details(, "track2KBA")` for more info
@@ -26734,81 +17676,40 @@ Run `revdepcheck::cloud_details(, "TreatmentPatterns")` for more info * checking tests ... ERROR ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. + Running ‘tinytest.R’ + Running the tests in ‘tests/tinytest.R’ failed. Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/tests.html - > # * https://testthat.r-lib.org/reference/test_package.html#special-files - ... - 22. ├─testthat::expect_s3_class(output$charAgePlot$html, "html") at test-CharacterizationPlots.R:50:9 - 23. │ └─testthat::quasi_label(enquo(object), arg = "object") - 24. │ └─rlang::eval_bare(expr, quo_get_env(quo)) - 25. ├─output$charAgePlot - 26. └─shiny:::`$.shinyoutput`(output, charAgePlot) - 27. └─.subset2(x, "impl")$getOutput(name) + > if ( requireNamespace("tinytest", quietly=TRUE) ){ + + tinytest::test_package("track2KBA") + + } + + test_estSpaceUse.R............ 0 tests + Attaching package: 'lubridate' - [ FAIL 1 | WARN 39 | SKIP 21 | PASS 138 ] - Error: Test failures - Execution halted - ``` - -# TreatmentSelection - -
- -* Version: 2.1.1 -* GitHub: NA -* Source code: https://github.com/cran/TreatmentSelection -* Date/Publication: 2017-08-11 18:55:47 UTC -* Number of recursive dependencies: 30 - -Run `revdepcheck::cloud_details(, "TreatmentSelection")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘TreatmentSelection-Ex.R’ failed - The error most likely occurred in: - - > ### Name: compare.trtsel - > ### Title: compare the performance of two treatment selection markers - > ### Aliases: compare.trtsel - > - > ### ** Examples - > - > ... - > # Plot treatment effect curves with pointwise confidence intervals - > ## use more bootstraps in practice - > compare(x = trtsel.Y1, x2 = trtsel.Y2, - + bootstraps = 10, plot = TRUE, - + ci = "horizontal", conf.bands = TRUE) - Bootstrap bias-correction will be implemented to correct for over-optimism bias in estimation. - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: compare ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + ----- FAILED[xcpt]: test_mapSite.R<24--24> + call| expect_silent(mapSite(sites2)) + diff| Execution was not silent. An error was thrown with message + diff| 'unused arguments (high = "#132B43", low = "#56B1F7")' + Error: 4 out of 126 tests failed + In addition: Warning message: + In Matching::ks.boot(WI, BW, alternative = "two.sided", nboots = iterations) : + For publication quality p-values it is recommended that 'nboots' + be set equal to at least 500 (preferably 1000) + Execution halted ``` -# TreeDep +# TransProR
-* Version: 0.1.3 -* GitHub: NA -* Source code: https://github.com/cran/TreeDep -* Date/Publication: 2018-12-02 17:50:03 UTC -* Number of recursive dependencies: 32 +* Version: 0.0.6 +* GitHub: https://github.com/SSSYDYSSS/TransProR +* Source code: https://github.com/cran/TransProR +* Date/Publication: 2024-12-10 21:30:09 UTC +* Number of recursive dependencies: 212 -Run `revdepcheck::cloud_details(, "TreeDep")` for more info +Run `revdepcheck::cloud_details(, "TransProR")` for more info
@@ -26816,155 +17717,68 @@ Run `revdepcheck::cloud_details(, "TreeDep")` for more info * checking examples ... ERROR ``` - Running examples in ‘TreeDep-Ex.R’ failed + Running examples in ‘TransProR-Ex.R’ failed The error most likely occurred in: - > ### Name: TreeDep_plot - > ### Title: TreeDep_plot - Generates a plot for selected variables and - > ### dates. - > ### Aliases: TreeDep_plot + > ### Name: gene_highlights + > ### Title: Add gene highlights to a ggtree object + > ### Aliases: gene_highlights > > ### ** Examples > + > data("gtree", package = "TransProR") ... - + start_day = 25, - + stop_day = 3) - Warning: Removed 12 rows containing missing values or values outside the scale range - (`geom_line()`). - Warning: Removed 12 rows containing missing values or values outside the scale range - (`geom_line()`). - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics + 5. │ └─ggplot2:::ggplot_add.list(object, p, objectname) + 6. │ ├─ggplot2::ggplot_add(o, plot, object_name) + 7. │ └─ggplot2:::ggplot_add.Layer(o, plot, object_name) + 8. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) + 9. │ └─vctrs::vec_as_names(names, repair = "check_unique") + 10. │ └─vctrs (local) ``() + 11. │ └─vctrs:::validate_unique(names = names, arg = arg, call = call) + 12. │ └─vctrs:::validate_minimal_names(names, n) + 13. └─rlang::abort(message = message, call = call) Execution halted ``` -# TreeDist +# TreatmentPatterns
-* Version: 2.9.1 -* GitHub: https://github.com/ms609/TreeDist -* Source code: https://github.com/cran/TreeDist -* Date/Publication: 2024-09-07 09:20:02 UTC -* Number of recursive dependencies: 229 +* Version: 2.7.0 +* GitHub: https://github.com/darwin-eu/TreatmentPatterns +* Source code: https://github.com/cran/TreatmentPatterns +* Date/Publication: 2024-11-27 11:50:02 UTC +* Number of recursive dependencies: 148 -Run `revdepcheck::cloud_details(, "TreeDist")` for more info +Run `revdepcheck::cloud_details(, "TreatmentPatterns")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR +* checking tests ... ERROR ``` - Errors in running code in vignettes: - when running code in ‘treespace.Rmd’ - ... - [1] "Epoch: 3 finished. 212 datapoints changed bestmatch" - [1] "Epoch: 4 started" - [1] "Epoch: 4 finished. 203 datapoints changed bestmatch" - [1] "Epoch: 5 started" - [1] "Epoch: 5 finished. 165 datapoints changed bestmatch" - [1] "---- Esom Training Finished ----" - + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... - - ‘Generalized-RF.Rmd’ using ‘UTF-8’... OK - ‘Robinson-Foulds.Rmd’ using ‘UTF-8’... OK - ‘Using-TreeDist.Rmd’ using ‘UTF-8’... OK - ‘compare-treesets.Rmd’ using ‘UTF-8’... OK - ‘different-leaves.Rmd’ using ‘UTF-8’... OK - ‘information.Rmd’ using ‘UTF-8’... OK - ‘landscapes.Rmd’ using ‘UTF-8’... OK - ‘treespace.Rmd’ using ‘UTF-8’... failed - ‘using-distances.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘Generalized-RF.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 7.7Mb - sub-directories of 1Mb or more: - doc 1.2Mb - libs 5.9Mb - ``` - -# treeheatr - -
- -* Version: 0.2.1 -* GitHub: https://github.com/trang1618/treeheatr -* Source code: https://github.com/cran/treeheatr -* Date/Publication: 2020-11-19 21:00:03 UTC -* Number of recursive dependencies: 97 - -Run `revdepcheck::cloud_details(, "treeheatr")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘treeheatr-Ex.R’ failed - The error most likely occurred in: - - > ### Name: draw_tree - > ### Title: Draws the conditional decision tree. - > ### Aliases: draw_tree - > - > ### ** Examples - > - > x <- compute_tree(penguins, target_lab = 'species') - > draw_tree(x$dat, x$fit, x$term_dat, x$layout) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: draw_tree ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘explore.Rmd’ - ... - - > library(treeheatr) - - > penguins <- na.omit(penguins) - - > heat_tree(penguins, target_lab = "species") - - When sourcing ‘explore.R’: - Error: argument is of length zero - Execution halted - - ‘explore.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - ... - --- re-building ‘explore.Rmd’ using rmarkdown - - Quitting from lines 33-36 [unnamed-chunk-2] (explore.Rmd) - Error: processing vignette 'explore.Rmd' failed with diagnostics: - argument is of length zero - --- failed re-building ‘explore.Rmd’ - - SUMMARY: processing the following file failed: - ‘explore.Rmd’ - - Error: Vignette re-building failed. - Execution halted + 28. │ └─rlang::eval_bare(expr, quo_get_env(quo)) + 29. ├─output$charAgePlot + 30. ├─shiny:::`$.shinyoutput`(output, charAgePlot) + 31. │ └─.subset2(x, "impl")$getOutput(name) + 32. │ └─base::stop(v$err) + 33. └─shiny (local) ``(``) + + [ FAIL 1 | WARN 39 | SKIP 23 | PASS 160 ] + Error: Test failures + Execution halted ``` # trelliscopejs @@ -26975,7 +17789,7 @@ Run `revdepcheck::cloud_details(, "treeheatr")` for more info * GitHub: https://github.com/hafen/trelliscopejs * Source code: https://github.com/cran/trelliscopejs * Date/Publication: 2021-02-01 08:00:02 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 105 Run `revdepcheck::cloud_details(, "trelliscopejs")` for more info @@ -27016,7 +17830,7 @@ Run `revdepcheck::cloud_details(, "trelliscopejs")` for more info * GitHub: https://github.com/jschoeley/tricolore * Source code: https://github.com/cran/tricolore * Date/Publication: 2024-05-15 15:00:02 UTC -* Number of recursive dependencies: 108 +* Number of recursive dependencies: 107 Run `revdepcheck::cloud_details(, "tricolore")` for more info @@ -27094,45 +17908,6 @@ Run `revdepcheck::cloud_details(, "tricolore")` for more info Note: found 2 marked UTF-8 strings ``` -# triptych - -
- -* Version: 0.1.3 -* GitHub: https://github.com/aijordan/triptych -* Source code: https://github.com/cran/triptych -* Date/Publication: 2024-06-13 15:50:02 UTC -* Number of recursive dependencies: 64 - -Run `revdepcheck::cloud_details(, "triptych")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘triptych-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot.triptych - > ### Title: Plot methods for the triptych classes - > ### Aliases: plot.triptych autoplot.triptych plot.triptych_murphy - > ### autoplot.triptych_murphy plot.triptych_reliability - > ### autoplot.triptych_reliability plot.triptych_roc autoplot.triptych_roc - > ### plot.triptych_mcbdsc autoplot.triptych_mcbdsc - > - > ### ** Examples - > - > data(ex_binary, package = "triptych") - > tr <- triptych(ex_binary) - > - > dplyr::slice(tr, 1, 3, 6, 9) |> autoplot() - Error in identicalUnits(x) : object is not a unit - Calls: ... assemble_guides -> guides_build -> unit.c -> identicalUnits - Execution halted - ``` - # tsnet
@@ -27141,7 +17916,7 @@ Run `revdepcheck::cloud_details(, "triptych")` for more info * GitHub: https://github.com/bsiepe/tsnet * Source code: https://github.com/cran/tsnet * Date/Publication: 2024-02-28 11:30:02 UTC -* Number of recursive dependencies: 77 +* Number of recursive dependencies: 76 Run `revdepcheck::cloud_details(, "tsnet")` for more info @@ -27163,13 +17938,13 @@ Run `revdepcheck::cloud_details(, "tsnet")` for more info > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... unused argument (theme = list(list("black", 0.5, 1, "butt", FALSE, "black", TRUE), list("white", "black", 0.5, 1, TRUE), list("", "plain", "black", 11, 0.5, 0.5, 0, 0.9, c(0, 0, 0, 0), FALSE, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list("black", "white", "#3366FF", 0.5, 0.5, 1, 1, "", 3.86605783866058, 1.5, 19, TRUE), 5.5, c(5.5, 5.5, 5.5, 5.5), NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(7, 0, 0, 0), NULL, FALSE), list(NULL, NULL, NULL, NULL, NULL, - 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "grey30", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, NULL, - NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.2, 0, 2.2), NULL, TRUE), list("grey70", 0.5, NULL, NULL, FALSE, "grey70", TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), list("gray70", 0.5, NULL, NULL, - FALSE, "gray70", FALSE), NULL, NULL, list("gray70", 0.5, NULL, NULL, FALSE, "gray70", FALSE), NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), 2, list("white", - NA, NULL, NULL, TRUE), list(), NULL, NULL, NULL, list("grey87", NULL, NULL, NULL, FALSE, "grey87", TRUE), list(), list(), NULL, NULL, NULL, NULL, FALSE, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, - TRUE), "topleft", NULL, NULL, list("gray90", NA, NULL, NULL, FALSE), NULL, NULL, "on", "inside", list(NULL, NULL, "black", 0.8, NULL, NULL, NULL, NULL, c(6, 6, 6, 6), NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) + 0, NULL, NULL, c(0, 0, 2.75, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, 90, NULL, c(0, 7, 0, 0), NULL, FALSE), NULL, list(NULL, NULL, NULL, NULL, NULL, 1, -90, NULL, c(0, 0, 0, 2.75), NULL, TRUE), list(NULL, NULL, "#4D4D4DFF", 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 1, NULL, NULL, c(2.2, 0, 0, 0), NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, 0, NULL, NULL, c(0, 0, 2.2, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 1, NULL, + NULL, NULL, c(0, 2.2, 0, 0), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, c(0, 0, 0, 2.2), NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, c(0, 2.2, 0, 2.2), NULL, TRUE), list("#B3B3B3FF", 0.5, NULL, NULL, FALSE, "#B3B3B3FF", TRUE), NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.5, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.75, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, list(), list("gray70", 0.5, + NULL, NULL, FALSE, "gray70", FALSE), NULL, NULL, list("gray70", 0.5, NULL, NULL, FALSE, "gray70", FALSE), NULL, NULL, NULL, NULL, list(NULL, NA, NULL, NULL, TRUE), NULL, 2, NULL, NULL, NULL, 1.2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0.2, NULL, list(NULL, NULL, NULL, 0.8, NULL, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, list(NULL, NULL, NULL, NULL, 0, NULL, NULL, NULL, NULL, NULL, TRUE), NULL, "right", NULL, NULL, NULL, "center", NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, 0, list(), + 2, list("white", NA, NULL, NULL, TRUE), list(), NULL, NULL, NULL, list("#DEDEDEFF", NULL, NULL, NULL, FALSE, "#DEDEDEFF", TRUE), list(), list(), NULL, NULL, NULL, NULL, FALSE, NULL, NULL, list(NULL, "white", NULL, NULL, TRUE), list(NULL, NULL, NULL, 1.2, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, NULL, 0, 1, NULL, NULL, c(0, 0, 5.5, 0), NULL, TRUE), list(NULL, NULL, NULL, 0.8, 1, 1, NULL, NULL, c(5.5, 0, 0, 0), NULL, TRUE), "panel", list(NULL, NULL, NULL, + 1.2, 0.5, 0.5, NULL, NULL, NULL, NULL, TRUE), "topleft", NULL, NULL, list("gray90", NA, NULL, NULL, FALSE), NULL, NULL, "on", "inside", list(NULL, NULL, "black", 0.8, NULL, NULL, NULL, NULL, c(6, 6, 6, 6), NULL, FALSE), NULL, NULL, NULL, list(NULL, NULL, NULL, NULL, NULL, NULL, -90, NULL, NULL, NULL, TRUE), list(NULL, NULL, NULL, NULL, NULL, NULL, 90, NULL, NULL, NULL, TRUE), NULL, 2.75, 2.75)) - [ FAIL 1 | WARN 14 | SKIP 0 | PASS 108 ] + [ FAIL 1 | WARN 16 | SKIP 0 | PASS 107 ] Error: Test failures Execution halted ``` @@ -27178,9 +17953,9 @@ Run `revdepcheck::cloud_details(, "tsnet")` for more info * checking installed package size ... NOTE ``` - installed size is 163.4Mb + installed size is 159.7Mb sub-directories of 1Mb or more: - libs 162.3Mb + libs 158.7Mb ``` * checking for GNU extensions in Makefiles ... NOTE @@ -27188,17 +17963,17 @@ Run `revdepcheck::cloud_details(, "tsnet")` for more info GNU make is a SystemRequirements. ``` -# UBayFS +# UCSCXenaShiny
-* Version: 1.0 -* GitHub: https://github.com/annajenul/UBayFS -* Source code: https://github.com/cran/UBayFS -* Date/Publication: 2023-03-07 10:50:02 UTC -* Number of recursive dependencies: 188 +* Version: 2.1.0 +* GitHub: https://github.com/openbiox/UCSCXenaShiny +* Source code: https://github.com/cran/UCSCXenaShiny +* Date/Publication: 2024-05-15 14:10:06 UTC +* Number of recursive dependencies: 209 -Run `revdepcheck::cloud_details(, "UBayFS")` for more info +Run `revdepcheck::cloud_details(, "UCSCXenaShiny")` for more info
@@ -27207,92 +17982,52 @@ Run `revdepcheck::cloud_details(, "UBayFS")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘BFS_UBayFS.Rmd’ + when running code in ‘api.Rmd’ ... - ( 21,23,28 ) - ( 21,27,28 ) - ( 21,23,24 ) + More info about dataset please run following commands: + library(UCSCXenaTools) + XenaGenerate(subset = XenaDatasets == "TcgaTargetGtex_rsem_gene_tpm") %>% XenaBrowse() - > plot(model) - [1] "Warning: multiple optimal feature sets, plotting first feature set." - - ... - ( 2,3,7,8,14,22,23,26,27,28 ) - - > plot(model) - - When sourcing ‘UBayFS.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 + When sourcing ‘api.R’: + Error: Problem while converting geom to grob. + ℹ Error occurred in the 1st layer. + Caused by error in `get()`: + ! object 'interleave' not found Execution halted - ‘BFS_UBayFS.Rmd’ using ‘UTF-8’... failed - ‘UBayFS.Rmd’ using ‘UTF-8’... failed + ‘api.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: ... - --- re-building ‘BFS_UBayFS.Rmd’ using rmarkdown + --- re-building ‘api.Rmd’ using rmarkdown - Quitting from lines 147-150 [unnamed-chunk-8] (BFS_UBayFS.Rmd) - Error: processing vignette 'BFS_UBayFS.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘BFS_UBayFS.Rmd’ - - --- re-building ‘UBayFS.Rmd’ using rmarkdown - ... - Quitting from lines 306-309 [unnamed-chunk-12] (UBayFS.Rmd) - Error: processing vignette 'UBayFS.Rmd' failed with diagnostics: - invalid line type: must be length 2, 4, 6 or 8 - --- failed re-building ‘UBayFS.Rmd’ + Quitting from lines 87-88 [unnamed-chunk-9] (api.Rmd) + Error: processing vignette 'api.Rmd' failed with diagnostics: + Problem while converting geom to grob. + ℹ Error occurred in the 1st layer. + Caused by error in `get()`: + ! object 'interleave' not found + --- failed re-building ‘api.Rmd’ - SUMMARY: processing the following files failed: - ‘BFS_UBayFS.Rmd’ ‘UBayFS.Rmd’ + SUMMARY: processing the following file failed: + ‘api.Rmd’ Error: Vignette re-building failed. Execution halted ``` -# Umatrix - -
- -* Version: 4.0.1 -* GitHub: NA -* Source code: https://github.com/cran/Umatrix -* Date/Publication: 2024-08-17 06:30:17 UTC -* Number of recursive dependencies: 98 - -Run `revdepcheck::cloud_details(, "Umatrix")` for more info - -
- -## Newly broken +## In both -* checking examples ... ERROR +* checking installed package size ... NOTE ``` - Running examples in ‘Umatrix-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plotMatrix - > ### Title: plotMatrix - > ### Aliases: plotMatrix - > - > ### ** Examples - > - > data("Hepta") - ... - 4. └─ggplot2:::ggplot_build.ggplot(x) - 5. └─layout$setup(data, plot$data, plot$plot_env) - 6. └─ggplot2 (local) setup(..., self = self) - 7. └─self$coord$setup_params(data) - 8. └─ggplot2 (local) setup_params(..., self = self) - 9. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 10. └─ggplot2:::check_logical(expand) - 11. └─ggplot2:::stop_input_type(...) - 12. └─rlang::abort(message, ..., call = call, arg = arg) - Execution halted + installed size is 9.1Mb + sub-directories of 1Mb or more: + data 2.0Mb + doc 1.4Mb + shinyapp 5.1Mb ``` # umiAnalyzer @@ -27303,7 +18038,7 @@ Run `revdepcheck::cloud_details(, "Umatrix")` for more info * GitHub: https://github.com/sfilges/umiAnalyzer * Source code: https://github.com/cran/umiAnalyzer * Date/Publication: 2021-11-25 08:40:02 UTC -* Number of recursive dependencies: 116 +* Number of recursive dependencies: 115 Run `revdepcheck::cloud_details(, "umiAnalyzer")` for more info @@ -27336,17 +18071,17 @@ Run `revdepcheck::cloud_details(, "umiAnalyzer")` for more info Execution halted ``` -# UnalR +# umx
-* Version: 1.0.0 -* GitHub: https://github.com/estadisticaun/UnalR -* Source code: https://github.com/cran/UnalR -* Date/Publication: 2024-05-25 17:20:05 UTC -* Number of recursive dependencies: 168 +* Version: 4.21.0 +* GitHub: https://github.com/tbates/umx +* Source code: https://github.com/cran/umx +* Date/Publication: 2024-11-15 03:30:02 UTC +* Number of recursive dependencies: 170 -Run `revdepcheck::cloud_details(, "UnalR")` for more info +Run `revdepcheck::cloud_details(, "umx")` for more info
@@ -27354,26 +18089,26 @@ Run `revdepcheck::cloud_details(, "UnalR")` for more info * checking examples ... ERROR ``` - Running examples in ‘UnalR-Ex.R’ failed + Running examples in ‘umx-Ex.R’ failed The error most likely occurred in: - > ### Name: Plot.Apiladas - > ### Title: Cree un gráfico de barras apiladas dinámico/estático y flexible - > ### Aliases: Plot.Apiladas + > ### Name: umxDiffMZ + > ### Title: MZ differences method for testing evidence for causality. + > ### Aliases: umxDiffMZ > > ### ** Examples > - > ## Don't show: + > data(twinData) ... - + legend.direction = "vertical"), gg.Bar = list(width = 0.6, color = "#000000"), - + gg.Texto = list(subtitle = "»»»", tag = "®", caption = "Información Disponible desde 2009-1"))) - Warning: - ¡Ha ingresado un dataframe que no está de forma condensada, es decir, - para cada categoría existe más de un valor para un mismo punto del eje X! - Se sumará los valores por defectos para dichos puntos que gocen de +1 valor - - Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + 15. │ └─l$compute_geom_2(d, theme = plot$theme) + 16. │ └─ggplot2 (local) compute_geom_2(..., self = self) + 17. │ └─self$geom$use_defaults(...) + 18. │ └─ggplot2 (local) use_defaults(..., self = self) + 19. │ └─ggplot2:::check_aesthetics(new_params, nrow(data)) + 20. │ └─vctrs::list_sizes(x) + 21. └─vctrs:::stop_scalar_type(...) + 22. └─vctrs:::stop_vctrs(...) + 23. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) Execution halted ``` @@ -27382,81 +18117,70 @@ Run `revdepcheck::cloud_details(, "UnalR")` for more info Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(UnalR) - > - > test_check("UnalR") - Starting 2 test processes - [ FAIL 2 | WARN 4 | SKIP 1 | PASS 50 ] - + > library("testthat") + > library("umx") + Loading required package: OpenMx + To take full advantage of multiple cores, use: + mxOption(key='Number of Threads', value=parallel::detectCores()) #now + Sys.setenv(OMP_NUM_THREADS=parallel::detectCores()) #before library(OpenMx) + For an overview type '?umx' ... - 7. └─UnalR::Plot.Series(...) - 8. └─ggplot2:::`+.gg`(...) - 9. └─ggplot2:::add_ggplot(e1, e2, e2name) - 10. ├─ggplot2::ggplot_add(object, p, objectname) - 11. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 12. └─ggplot2:::new_layer_names(object, names(plot$layers)) + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Error ('test_umx_DOC_etc.r:12:2'): testing umxDiffMZ ──────────────────────── + Error in `annotate("text", x = labxy[1], y = labxy[2], label = blurb)`: Problem while setting up geom aesthetics. + ℹ Error occurred in the 4th layer. + Caused by error in `list_sizes()`: + ! `x$label` must be a vector, not a call. - [ FAIL 2 | WARN 4 | SKIP 1 | PASS 50 ] + [ FAIL 1 | WARN 8 | SKIP 25 | PASS 352 ] Error: Test failures Execution halted ``` ## In both +* checking package dependencies ... NOTE + ``` + Packages which this enhances but not available for checking: + 'DiagrammeRsvg', 'rsvg' + ``` + * checking installed package size ... NOTE ``` - installed size is 7.0Mb + installed size is 6.6Mb sub-directories of 1Mb or more: - R 2.3Mb - data 2.0Mb - help 2.6Mb + R 1.5Mb + help 4.5Mb ``` -* checking data for non-ASCII characters ... NOTE +* checking dependencies in R code ... NOTE ``` - Note: found 312859 marked UTF-8 strings + Namespaces in Imports field not imported from: + ‘foreign’ ‘psychTools’ ‘pwr’ ‘rmarkdown’ + All declared Imports should be used. ``` -# unmconf - -
- -* Version: 1.0.0 -* GitHub: NA -* Source code: https://github.com/cran/unmconf -* Date/Publication: 2024-09-09 22:00:02 UTC -* Number of recursive dependencies: 91 - -Run `revdepcheck::cloud_details(, "unmconf")` for more info - -
- -## Newly broken +# UniprotR -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘unmconf.Rmd’ - ... - 9 -1.05 1 5.63 -0.447 1 1 1.55 TRUE TRUE - 10 0.620 0 1.66 -1.71 1 1 1.37 TRUE TRUE - - > bayesplot::mcmc_intervals(unm_mod, prob_outer = 0.95, - + regex_pars = "(beta|lambda|gamma|delta|zeta).+") + geom_point(aes(value, - + name), .... [TRUNCATED] - - When sourcing ‘unmconf.R’: - Error: argument is of length zero - Execution halted - - ‘unmconf.Rmd’ using ‘UTF-8’... failed - ``` +
-* checking re-building of vignette outputs ... NOTE +* Version: 2.4.0 +* GitHub: https://github.com/Proteomicslab57357/UniprotR +* Source code: https://github.com/cran/UniprotR +* Date/Publication: 2024-03-05 15:10:02 UTC +* Number of recursive dependencies: 190 + +Run `revdepcheck::cloud_details(, "UniprotR")` for more info + +
+ +## Newly broken + +* checking whether package ‘UniprotR’ can be installed ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘unmconf.Rmd’ using rmarkdown + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘UniprotR’ + See ‘/tmp/workdir/UniprotR/new/UniprotR.Rcheck/00install.out’ for details. ``` # usmap @@ -27467,7 +18191,7 @@ Run `revdepcheck::cloud_details(, "unmconf")` for more info * GitHub: https://github.com/pdil/usmap * Source code: https://github.com/cran/usmap * Date/Publication: 2024-03-21 04:20:02 UTC -* Number of recursive dependencies: 91 +* Number of recursive dependencies: 90 Run `revdepcheck::cloud_details(, "usmap")` for more info @@ -27488,8 +18212,9 @@ Run `revdepcheck::cloud_details(, "usmap")` for more info > ### ** Examples > > plot_usmap(include = .east_north_central, labels = TRUE) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: plot_usmap ... ggplot_add.list -> ggplot_add -> ggplot_add.Layer -> new_layer_names + Error in process_cpl_read_ogr(x, quiet, check_ring_dir = check_ring_dir, : + package tibble not available: install first? + Calls: plot_usmap ... st_read -> st_read.character -> process_cpl_read_ogr Execution halted ``` @@ -27529,13 +18254,13 @@ Run `revdepcheck::cloud_details(, "usmap")` for more info > usmap::plot_usmap() When sourcing ‘usmap1.R’: - Error: argument is of length zero + Error: package tibble not available: install first? ... > usmap::plot_usmap("states", labels = TRUE) When sourcing ‘usmap3.R’: - Error: argument is of length zero + Error: package tibble not available: install first? Execution halted ‘usmap1.Rmd’ using ‘UTF-8’... failed @@ -27550,7 +18275,7 @@ Run `revdepcheck::cloud_details(, "usmap")` for more info Quitting from lines 26-27 [unnamed-chunk-1] (usmap1.Rmd) Error: processing vignette 'usmap1.Rmd' failed with diagnostics: - argument is of length zero + package tibble not available: install first? --- failed re-building ‘usmap1.Rmd’ --- re-building ‘usmap2.Rmd’ using rmarkdown @@ -27558,7 +18283,7 @@ Run `revdepcheck::cloud_details(, "usmap")` for more info ... Quitting from lines 26-27 [unnamed-chunk-1] (usmap3.Rmd) Error: processing vignette 'usmap3.Rmd' failed with diagnostics: - argument is of length zero + package tibble not available: install first? --- failed re-building ‘usmap3.Rmd’ SUMMARY: processing the following files failed: @@ -27575,340 +18300,214 @@ Run `revdepcheck::cloud_details(, "usmap")` for more info Note: found 17 marked UTF-8 strings ``` -# vannstats +# vaccineff
-* Version: 1.3.4.14 -* GitHub: NA -* Source code: https://github.com/cran/vannstats -* Date/Publication: 2023-04-15 04:30:02 UTC -* Number of recursive dependencies: 87 +* Version: 1.0.0 +* GitHub: https://github.com/epiverse-trace/vaccineff +* Source code: https://github.com/cran/vaccineff +* Date/Publication: 2024-11-29 09:30:02 UTC +* Number of recursive dependencies: 77 -Run `revdepcheck::cloud_details(, "vannstats")` for more info +Run `revdepcheck::cloud_details(, "vaccineff")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘vannstats-Ex.R’ failed - The error most likely occurred in: - - > ### Name: qq - > ### Title: Simplified Normal (Q-Q) Plot - > ### Aliases: qq - > - > ### ** Examples - > - > data <- mtcars - > - > qq(data,mpg,cyl) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: qq ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Running ‘spelling.R’ + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + ... + `expected` is a character vector ('coverage * max(dose_plot)') + ── Failure ('test-utils_coverage.R:50:3'): `plot_coverage`: cumulative plot ──── + plt$labels$y (`actual`) not identical to "coverage * max(dose_plot)" (`expected`). + + `actual` is NULL + `expected` is a character vector ('coverage * max(dose_plot)') + + [ FAIL 2 | WARN 0 | SKIP 6 | PASS 100 ] + Error: Test failures + Execution halted ``` -# vDiveR +# VALERIE
-* Version: 1.2.1 +* Version: 1.1.0 * GitHub: NA -* Source code: https://github.com/cran/vDiveR -* Date/Publication: 2024-01-09 20:20:02 UTC -* Number of recursive dependencies: 135 +* Source code: https://github.com/cran/VALERIE +* Date/Publication: 2020-07-10 10:20:13 UTC +* Number of recursive dependencies: 132 -Run `revdepcheck::cloud_details(, "vDiveR")` for more info +Run `revdepcheck::cloud_details(, "VALERIE")` for more info
## Newly broken -* checking examples ... ERROR +* checking whether package ‘VALERIE’ can be installed ... WARNING ``` - Running examples in ‘vDiveR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: plot_entropy - > ### Title: Entropy plot - > ### Aliases: plot_entropy - > - > ### ** Examples - > - > plot_entropy(proteins_1host) - Scale for colour is already present. - Adding another scale for colour, which will replace the existing scale. - Scale for linetype is already present. - Adding another scale for linetype, which will replace the existing scale. - Error in grid.Call.graphics(C_lines, x$x, x$y, index, x$arrow) : - invalid line type: must be length 2, 4, 6 or 8 - Calls: ... drawDetails -> drawDetails.polyline -> grid.Call.graphics - Execution halted + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘VALERIE’ + See ‘/tmp/workdir/VALERIE/new/VALERIE.Rcheck/00install.out’ for details. ``` ## In both -* checking dependencies in R code ... NOTE +* checking installed package size ... NOTE ``` - Namespaces in Imports field not imported from: - ‘DT’ ‘maps’ ‘readr’ - All declared Imports should be used. + installed size is 9.5Mb + sub-directories of 1Mb or more: + extdata 8.7Mb ``` -# venn +# valr
-* Version: 1.12 -* GitHub: https://github.com/dusadrian/venn -* Source code: https://github.com/cran/venn -* Date/Publication: 2024-01-08 11:40:05 UTC -* Number of recursive dependencies: 56 +* Version: 0.8.3 +* GitHub: https://github.com/rnabioco/valr +* Source code: https://github.com/cran/valr +* Date/Publication: 2025-01-11 15:40:02 UTC +* Number of recursive dependencies: 149 -Run `revdepcheck::cloud_details(, "venn")` for more info +Run `revdepcheck::cloud_details(, "valr")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘venn-Ex.R’ failed - The error most likely occurred in: - - > ### Name: venn - > ### Title: Draw and display a Venn diagram - > ### Aliases: venn - > ### Keywords: functions - > - > ### ** Examples - > + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files ... - > - > - > # producing a ggplot2 graphics - > venn(x, ilabels = "counts", ggplot = TRUE) - > - > # increasing the border size - > venn(x, ilabels = "counts", ggplot = TRUE, size = 1.5) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: venn ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -# vimpclust - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/vimpclust -* Date/Publication: 2021-01-08 09:30:03 UTC -* Number of recursive dependencies: 53 - -Run `revdepcheck::cloud_details(, "vimpclust")` for more info - -
- -## Newly broken - -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘sparsewkm.Rmd’ - ... - restecg 3.1e-02 0.000 0.000 0.000 0.000 - exang 2.3e-01 0.182 0.138 0.106 0.046 - slope 3.2e-01 0.231 0.188 0.151 0.077 - thal 1.2e-01 0.058 0.023 0.000 0.000 - - > plot(res, what = "weights.features") - - When sourcing ‘sparsewkm.R’: - Error: invalid line type: must be length 2, 4, 6 or 8 - Execution halted - - ‘groupsparsewkm.Rmd’ using ‘UTF-8’... OK - ‘sparsewkm.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘groupsparsewkm.Rmd’ using rmarkdown + ══ Failed tests ════════════════════════════════════════════════════════════════ + ── Failure ('test_glyph.r:13:3'): glyph labels are applied ───────────────────── + res$labels$label (`actual`) not equal to "id" (`expected`). + + `actual` is NULL + `expected` is a character vector ('id') + + [ FAIL 1 | WARN 0 | SKIP 4 | PASS 479 ] + Error: Test failures + Execution halted ``` ## In both -* checking dependencies in R code ... NOTE +* checking installed package size ... NOTE ``` - Namespaces in Imports field not imported from: - ‘mclust’ ‘rlang’ - All declared Imports should be used. + installed size is 15.1Mb + sub-directories of 1Mb or more: + libs 13.9Mb ``` -# vip +# vannstats
-* Version: 0.4.1 -* GitHub: https://github.com/koalaverse/vip -* Source code: https://github.com/cran/vip -* Date/Publication: 2023-08-21 09:20:02 UTC -* Number of recursive dependencies: 104 +* Version: 1.5.1.8 +* GitHub: NA +* Source code: https://github.com/cran/vannstats +* Date/Publication: 2025-01-08 20:10:02 UTC +* Number of recursive dependencies: 122 -Run `revdepcheck::cloud_details(, "vip")` for more info +Run `revdepcheck::cloud_details(, "vannstats")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘vip-Ex.R’ failed - The error most likely occurred in: - - > ### Name: vi - > ### Title: Variable importance - > ### Aliases: vi vi.default - > - > ### ** Examples - > - > # - ... - 8 drat 0.0265 0.0564 - 9 carb 0.00898 0.00885 - 10 disp -0.000824 0.00744 - > - > # Plot variable importance scores - > vip(vis, include_type = TRUE, all_permutations = TRUE, - + geom = "point", aesthetics = list(color = "forestgreen", size = 3)) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: vip ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -* checking tests ... ERROR - ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. - Complete output: - > if (requireNamespace("tinytest", quietly = TRUE)) { - + home <- length(unclass(packageVersion("vip"))[[1L]]) == 4 - + tinytest::test_package("vip", at_home = home) - + } - - Attaching package: 'vip' - - ... - test_pkg_nnet.R............... 0 tests - test_pkg_nnet.R............... 0 tests - test_pkg_nnet.R............... 0 tests - test_pkg_nnet.R............... 0 tests - test_pkg_nnet.R............... 0 tests - test_pkg_nnet.R............... 1 tests OK - test_pkg_nnet.R............... 2 tests OK - test_pkg_nnet.R............... 3 tests OK Error in if (new_name %in% existing) { : argument is of length zero - Calls: ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted - ``` - -## In both - -* checking package dependencies ... NOTE - ``` - Packages which this enhances but not available for checking: - 'C50', 'caret', 'Cubist', 'earth', 'gbm', 'glmnet', 'h2o', - 'lightgbm', 'mixOmics', 'mlr', 'mlr3', 'neuralnet', 'parsnip', - 'partykit', 'pls', 'randomForest', 'ranger', 'RSNNS', 'sparklyr', - 'tidymodels', 'workflows', 'xgboost' - ``` - -* checking Rd cross-references ... NOTE +* checking whether package ‘vannstats’ can be installed ... WARNING ``` - Packages unavailable to check Rd xrefs: ‘randomForest’, ‘glmnet’, ‘C50’, ‘Cubist’, ‘caret’, ‘partykit’, ‘earth’, ‘gbm’, ‘h2o’, ‘sparklyr’, ‘ranger’, ‘xgboost’, ‘lightgbm’ + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘vannstats’ + See ‘/tmp/workdir/vannstats/new/vannstats.Rcheck/00install.out’ for details. ``` -# VirtualPop +# vici
-* Version: 2.0.2 -* GitHub: https://github.com/willekens/VirtualPop -* Source code: https://github.com/cran/VirtualPop -* Date/Publication: 2024-03-18 10:30:02 UTC -* Number of recursive dependencies: 135 +* Version: 0.7.3 +* GitHub: https://github.com/sistm/vici +* Source code: https://github.com/cran/vici +* Date/Publication: 2024-02-02 16:20:02 UTC +* Number of recursive dependencies: 117 -Run `revdepcheck::cloud_details(, "VirtualPop")` for more info +Run `revdepcheck::cloud_details(, "vici")` for more info
## Newly broken -* checking running R code from vignettes ... ERROR - ``` - Errors in running code in vignettes: - when running code in ‘Piecewise_exponential.Rmd’ - ... - > H <- VirtualPop::H_pw(x, breakpoints, rates) - - > dd <- data.frame(x = x, y = exp(-H)) - - > p <- survminer::ggsurvplot(KM, data = data.frame(pw_sample), - + conf.int = TRUE, ggtheme = theme_bw()) - - When sourcing ‘Piecewise_exponential.R’: - Error: argument is of length zero - Execution halted - - ‘MultistateLH.Rmd’ using ‘UTF-8’... OK - ‘Piecewise_exponential.Rmd’ using ‘UTF-8’... failed - ‘Tutorial.Rmd’ using ‘UTF-8’... OK - ``` - -* checking re-building of vignette outputs ... NOTE +* checking whether package ‘vici’ can be installed ... WARNING ``` - Error(s) in re-building vignettes: - --- re-building ‘MultistateLH.Rmd’ using knitr - --- finished re-building ‘MultistateLH.Rmd’ - - --- re-building ‘Piecewise_exponential.Rmd’ using knitr + Found the following significant warnings: + Warning: replacing previous import ‘ggplot2::theme_transparent’ by ‘ggpubr::theme_transparent’ when loading ‘vici’ + See ‘/tmp/workdir/vici/new/vici.Rcheck/00install.out’ for details. ``` -# viscomp +# visOmopResults
* Version: 1.0.0 -* GitHub: https://github.com/georgiosseitidis/viscomp -* Source code: https://github.com/cran/viscomp -* Date/Publication: 2023-01-16 09:50:02 UTC -* Number of recursive dependencies: 137 +* GitHub: https://github.com/darwin-eu/visOmopResults +* Source code: https://github.com/cran/visOmopResults +* Date/Publication: 2025-01-15 19:40:01 UTC +* Number of recursive dependencies: 127 -Run `revdepcheck::cloud_details(, "viscomp")` for more info +Run `revdepcheck::cloud_details(, "visOmopResults")` for more info
## Newly broken -* checking examples ... ERROR +* checking tests ... ERROR ``` - Running examples in ‘viscomp-Ex.R’ failed - The error most likely occurred in: - - > ### Name: loccos - > ### Title: Leaving One Component Combination Out Scatter plot - > ### Aliases: loccos - > - > ### ** Examples - > - > data(nmaMACE) - > loccos(model = nmaMACE, combination = c("B")) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: loccos ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html + ... + `expected`: TRUE + ── Failure ('test-plot.R:106:3'): Function returns a ggplot object ───────────── + p_bar$labels$label1 == "cohort_name" is not TRUE + + `actual`: + `expected`: TRUE + + [ FAIL 5 | WARN 32 | SKIP 1 | PASS 414 ] + Error: Test failures + Execution halted ``` # vivaldi @@ -27919,7 +18518,7 @@ Run `revdepcheck::cloud_details(, "viscomp")` for more info * GitHub: https://github.com/GreshamLab/vivaldi * Source code: https://github.com/cran/vivaldi * Date/Publication: 2023-03-21 20:10:02 UTC -* Number of recursive dependencies: 102 +* Number of recursive dependencies: 101 Run `revdepcheck::cloud_details(, "vivaldi")` for more info @@ -27972,7 +18571,7 @@ Run `revdepcheck::cloud_details(, "vivaldi")` for more info i Actually got a with text: subscript out of bounds - [ FAIL 1 | WARN 2 | SKIP 0 | PASS 29 ] + [ FAIL 1 | WARN 2 | SKIP 0 | PASS 28 ] Error: Test failures Execution halted ``` @@ -27993,158 +18592,74 @@ Run `revdepcheck::cloud_details(, "vivaldi")` for more info Error: subscript out of bounds Execution halted - ‘vignette.Rmd’ using ‘UTF-8’... failed - ``` - -* checking re-building of vignette outputs ... NOTE - ``` - Error(s) in re-building vignettes: - --- re-building ‘vignette.Rmd’ using rmarkdown - ``` - -## In both - -* checking installed package size ... NOTE - ``` - installed size is 6.8Mb - sub-directories of 1Mb or more: - doc 5.4Mb - extdata 1.1Mb - ``` - -# voiceR - -
- -* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/voiceR -* Date/Publication: 2023-09-12 20:30:02 UTC -* Number of recursive dependencies: 179 - -Run `revdepcheck::cloud_details(, "voiceR")` for more info - -
- -## Newly broken - -* checking examples ... ERROR - ``` - Running examples in ‘voiceR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: comparisonPlots - > ### Title: Create boxplots for extracted audio features - > ### Aliases: comparisonPlots - > - > ### ** Examples - > - > comparisonPlots(testAudioData, by = "Condition") - Error in if (new_name %in% existing) { : argument is of length zero - Calls: comparisonPlots ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names - Execution halted + ‘vignette.Rmd’ using ‘UTF-8’... failed ``` -* checking tests ... ERROR +* checking re-building of vignette outputs ... NOTE ``` - Running ‘testthat.R’ - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > # This file is part of the standard setup for testthat. - > # It is recommended that you do not modify it. - > # - > # Where should you do additional test configuration? - > # Learn more about the roles of various files in: - > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview - > # * https://testthat.r-lib.org/articles/special-files.html - ... - 4. └─(function() {... - 5. └─ggplot2:::`+.gg`(...) - 6. └─ggplot2:::add_ggplot(e1, e2, e2name) - 7. ├─ggplot2::ggplot_add(object, p, objectname) - 8. └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 9. └─ggplot2:::new_layer_names(object, names(plot$layers)) - - [ FAIL 1 | WARN 2 | SKIP 0 | PASS 30 ] - Error: Test failures - Execution halted + Error(s) in re-building vignettes: + --- re-building ‘vignette.Rmd’ using rmarkdown ``` ## In both * checking installed package size ... NOTE ``` - installed size is 8.0Mb + installed size is 6.8Mb sub-directories of 1Mb or more: - Audios 1.1Mb - data 6.5Mb + doc 5.4Mb + extdata 1.1Mb ``` -# volcano3D +# voi
-* Version: 2.0.9 -* GitHub: https://github.com/KatrionaGoldmann/volcano3D -* Source code: https://github.com/cran/volcano3D -* Date/Publication: 2023-05-17 11:00:02 UTC -* Number of recursive dependencies: 166 +* Version: 1.0.3 +* GitHub: https://github.com/chjackson/voi +* Source code: https://github.com/cran/voi +* Date/Publication: 2024-09-16 11:30:02 UTC +* Number of recursive dependencies: 121 -Run `revdepcheck::cloud_details(, "volcano3D")` for more info +Run `revdepcheck::cloud_details(, "voi")` for more info
## Newly broken -* checking examples ... ERROR - ``` - Running examples in ‘volcano3D-Ex.R’ failed - The error most likely occurred in: - - > ### Name: boxplot_trio - > ### Title: Boxplot to compare groups - > ### Aliases: boxplot_trio - > ### Keywords: hplot - > - > ### ** Examples - > - ... - 11. │ └─ggplot2:::`+.gg`(...) - 12. │ └─ggplot2:::add_ggplot(e1, e2, e2name) - 13. │ ├─ggplot2::ggplot_add(object, p, objectname) - 14. │ └─ggplot2:::ggplot_add.Layer(object, p, objectname) - 15. │ └─ggplot2:::new_layer_names(object, names(plot$layers)) - 16. └─base::.handleSimpleError(...) - 17. └─purrr (local) h(simpleError(msg, call)) - 18. └─cli::cli_abort(...) - 19. └─rlang::abort(...) - Execution halted - ``` - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘Vignette.rmd’ + when running code in ‘plots.Rmd’ ... - > plot1 <- boxplot_trio(syn_polar, value = "COBL", text_size = 7, - + test = "polar_padj", my_comparisons = list(c("Lymphoid", - + "Myeloid" .... [TRUNCATED] - When sourcing ‘Vignette.R’: - Error: ℹ In index: 1. - ℹ With name: row. - Caused by error in `if (new_name %in% existing) ...`: - ! argument is of length zero + > n_use <- c(250, 500, 1000) + + > chemo_evsi_or %>% filter(n %in% n_use) %>% ggplot(aes(x = k, + + y = evsi, group = n, color = n)) + geom_line(lwd = 1.5) + + + scale_colour_bi .... [TRUNCATED] + + When sourcing ‘plots.R’: + Error: unused arguments (low = "gray80", high = "gray20") Execution halted - ‘Vignette.rmd’ using ‘UTF-8’... failed - ‘Vignette_2x3.Rmd’ using ‘UTF-8’... OK + ‘plots.Rmd’ using ‘UTF-8’... failed + ‘voi.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘Vignette.rmd’ using rmarkdown + --- re-building ‘plots.Rmd’ using rmarkdown + ``` + +## In both + +* checking installed package size ... NOTE + ``` + installed size is 6.0Mb + sub-directories of 1Mb or more: + data 3.5Mb ``` # voluModel @@ -28155,7 +18670,7 @@ Run `revdepcheck::cloud_details(, "volcano3D")` for more info * GitHub: https://github.com/hannahlowens/voluModel * Source code: https://github.com/cran/voluModel * Date/Publication: 2024-08-20 22:50:01 UTC -* Number of recursive dependencies: 133 +* Number of recursive dependencies: 132 Run `revdepcheck::cloud_details(, "voluModel")` for more info @@ -28228,53 +18743,45 @@ Run `revdepcheck::cloud_details(, "voluModel")` for more info ‘e_GLMWorkflow.Rmd’ using ‘UTF-8’... failed ``` -# vsd +# voteogram
-* Version: 0.1.0 -* GitHub: NA -* Source code: https://github.com/cran/vsd -* Date/Publication: 2021-05-11 09:40:02 UTC -* Number of recursive dependencies: 129 +* Version: 0.3.2 +* GitHub: https://github.com/hrbrmstr/voteogram +* Source code: https://github.com/cran/voteogram +* Date/Publication: 2023-03-08 12:20:02 UTC +* Number of recursive dependencies: 73 -Run `revdepcheck::cloud_details(, "vsd")` for more info +Run `revdepcheck::cloud_details(, "voteogram")` for more info
## Newly broken -* checking examples ... ERROR +* checking running R code from vignettes ... ERROR ``` - Running examples in ‘vsd-Ex.R’ failed - The error most likely occurred in: + Errors in running code in vignettes: + when running code in ‘intro_to_voteogram.Rmd’ + ... - > ### Name: vsd - > ### Title: Visualizing Survival Data - > ### Aliases: vsd vsd.formula vsd.Surv vsd.coxph vsd.survfit vsd.survfitcox - > ### vsd.flexsurvreg - > - > ### ** Examples - > - ... - • `linetype = "Strata"` - • `shape = "Strata"` + > house_carto(rep, "gt") + labs(x = NULL, y = NULL, + + title = "House Vote 256 - Passes American Health Care Act,\nRepealing Obamacare") + + + .... [TRUNCATED] - > - > # parametric models are also supported with flexsurv - > vsd(flexsurv::flexsurvreg(Surv(rectime, censrec) ~ group, data = flexsurv::bc, dist = 'gengamma'), - + .include = c("par")) - Error in if (new_name %in% existing) { : argument is of length zero - Calls: vsd ... add_ggplot -> ggplot_add -> ggplot_add.Layer -> new_layer_names + > senate_carto(sen) + theme_voteogram(legend = FALSE) + + When sourcing ‘intro_to_voteogram.R’: + Error: EXPR must be a length 1 vector Execution halted + + ‘intro_to_voteogram.Rmd’ using ‘UTF-8’... failed ``` -## In both - -* checking dependencies in R code ... NOTE +* checking re-building of vignette outputs ... NOTE ``` - Namespace in Imports field not imported from: ‘flexsurv’ - All declared Imports should be used. + Error(s) in re-building vignettes: + --- re-building ‘intro_to_voteogram.Rmd’ using rmarkdown ``` # vvshiny @@ -28285,7 +18792,7 @@ Run `revdepcheck::cloud_details(, "vsd")` for more info * GitHub: NA * Source code: https://github.com/cran/vvshiny * Date/Publication: 2023-07-19 15:30:02 UTC -* Number of recursive dependencies: 135 +* Number of recursive dependencies: 136 Run `revdepcheck::cloud_details(, "vvshiny")` for more info @@ -28318,17 +18825,17 @@ Run `revdepcheck::cloud_details(, "vvshiny")` for more info Execution halted ``` -# walker +# VWPre
-* Version: 1.0.10 -* GitHub: https://github.com/helske/walker -* Source code: https://github.com/cran/walker -* Date/Publication: 2024-08-30 06:40:02 UTC -* Number of recursive dependencies: 106 +* Version: 1.2.4 +* GitHub: NA +* Source code: https://github.com/cran/VWPre +* Date/Publication: 2020-11-29 17:10:02 UTC +* Number of recursive dependencies: 69 -Run `revdepcheck::cloud_details(, "walker")` for more info +Run `revdepcheck::cloud_details(, "VWPre")` for more info
@@ -28337,53 +18844,133 @@ Run `revdepcheck::cloud_details(, "walker")` for more info * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘walker.Rmd’ + when running code in ‘VWPre_Plotting.Rmd’ ... - For each parameter, n_eff is a crude measure of effective sample size, - and Rhat is the potential scale reduction factor on split chains (at - convergence, Rhat=1). - > mcmc_areas(as.matrix(fit$stanfit), regex_pars = c("sigma_y", - + "sigma_rw1")) + > gridExtra::grid.arrange(plot_avg(data = dat, type = "proportion", + + xlim = c(0, 1000), IAColumns = c(IA_1_P = "Target", IA_2_P = "Rhyme", + + .... [TRUNCATED] + Grand average calculated using Event means. + Grand average calculated using Event means. - When sourcing ‘walker.R’: - Error: argument is of length zero + When sourcing ‘VWPre_Plotting.R’: + Error: invalid line type Execution halted - ‘walker.Rmd’ using ‘UTF-8’... failed + ‘VWPre_Basic_Preprocessing.Rmd’ using ‘UTF-8’... OK + ‘VWPre_Interest_Areas.Rmd’ using ‘UTF-8’... OK + ‘VWPre_Message_Alignment.Rmd’ using ‘UTF-8’... OK + ‘VWPre_Plotting.Rmd’ using ‘UTF-8’... failed ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘walker.Rmd’ using rmarkdown + --- re-building ‘VWPre_Basic_Preprocessing.Rmd’ using rmarkdown + --- finished re-building ‘VWPre_Basic_Preprocessing.Rmd’ + + --- re-building ‘VWPre_Interest_Areas.Rmd’ using rmarkdown + --- finished re-building ‘VWPre_Interest_Areas.Rmd’ + + --- re-building ‘VWPre_Message_Alignment.Rmd’ using rmarkdown + --- finished re-building ‘VWPre_Message_Alignment.Rmd’ + + --- re-building ‘VWPre_Plotting.Rmd’ using rmarkdown ``` -## In both +# wilson -* checking installed package size ... NOTE +
+ +* Version: 2.4.2 +* GitHub: https://github.com/loosolab/wilson +* Source code: https://github.com/cran/wilson +* Date/Publication: 2021-04-19 09:40:02 UTC +* Number of recursive dependencies: 205 + +Run `revdepcheck::cloud_details(, "wilson")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - installed size is 161.5Mb - sub-directories of 1Mb or more: - libs 160.1Mb + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > library(testthat) + > library(wilson) + + Attaching package: 'wilson' + + The following object is masked from 'package:stats': + + ... + Backtrace: + ▆ + 1. └─wilson::create_geneview(...) at test-interactive-plots.R:21:3 + 2. ├─plotly::ggplotly(...) + 3. └─plotly:::ggplotly.ggplot(...) + 4. └─plotly::gg2list(...) + + [ FAIL 3 | WARN 11 | SKIP 1 | PASS 74 ] + Error: Test failures + Execution halted ``` -* checking for GNU extensions in Makefiles ... NOTE +# wpa + +
+ +* Version: 1.9.1 +* GitHub: https://github.com/microsoft/wpa +* Source code: https://github.com/cran/wpa +* Date/Publication: 2024-06-06 13:20:02 UTC +* Number of recursive dependencies: 120 + +Run `revdepcheck::cloud_details(, "wpa")` for more info + +
+ +## Newly broken + +* checking tests ... ERROR ``` - GNU make is a SystemRequirements. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. + Complete output: + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/tests.html + > # * https://testthat.r-lib.org/reference/test_package.html#special-files + ... + ▆ + 1. ├─wpa::flex_index(em_data, signals = "meetings", return = "plot") at test-flex_index.R:19:3 + 2. │ └─wpa::plot_flex_index(...) + 3. │ └─plot_data_long %>% ... + 4. └─wpa::plot_hourly_pat(...) + 5. └─ggplot2::scale_fill_continuous(...) + + [ FAIL 1 | WARN 250 | SKIP 0 | PASS 9 ] + Error: Test failures + Execution halted ``` -# WVPlots +# xpose
-* Version: 1.3.8 -* GitHub: https://github.com/WinVector/WVPlots -* Source code: https://github.com/cran/WVPlots -* Date/Publication: 2024-04-22 20:40:07 UTC -* Number of recursive dependencies: 78 +* Version: 0.4.19 +* GitHub: https://github.com/UUPharmacometrics/xpose +* Source code: https://github.com/cran/xpose +* Date/Publication: 2025-01-07 20:00:02 UTC +* Number of recursive dependencies: 108 -Run `revdepcheck::cloud_details(, "WVPlots")` for more info +Run `revdepcheck::cloud_details(, "xpose")` for more info
@@ -28391,156 +18978,254 @@ Run `revdepcheck::cloud_details(, "WVPlots")` for more info * checking examples ... ERROR ``` - Running examples in ‘WVPlots-Ex.R’ failed + Running examples in ‘xpose-Ex.R’ failed The error most likely occurred in: - > ### Name: ScatterHist - > ### Title: Plot a scatter plot with marginals. - > ### Aliases: ScatterHist + > ### Name: amt_vs_idv + > ### Title: Compartment kinetics + > ### Aliases: amt_vs_idv > > ### ** Examples > - > - ... - 10. └─ggplot2:::ggplot_build.ggplot(x) - 11. └─layout$setup(data, plot$data, plot$plot_env) - 12. └─ggplot2 (local) setup(..., self = self) - 13. └─self$coord$setup_params(data) - 14. └─ggplot2 (local) setup_params(..., self = self) - 15. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 16. └─ggplot2:::check_logical(expand) - 17. └─ggplot2:::stop_input_type(...) - 18. └─rlang::abort(message, ..., call = call, arg = arg) + > amt_vs_idv(xpdb_ex_pk, nrow = 2, ncol = 1) + Using data from $prob no.1 + Tidying data by ID, SEX, MED1, MED2, AMT ... and 20 more variables + Error in label_variable(labels, multi_line = multi_line) : + could not find function "label_variable" + Calls: ... list2 -> labeller -> lapply -> FUN -> .default -> x Execution halted ``` * checking tests ... ERROR ``` - Running ‘tinytest.R’ - Running the tests in ‘tests/tinytest.R’ failed. + Running ‘testthat.R’ + Running the tests in ‘tests/testthat.R’ failed. Complete output: - > - > if (requireNamespace("tinytest", quietly=TRUE) ) { - + if (requireNamespace('data.table', quietly = TRUE)) { - + # don't multi-thread during CRAN checks - + data.table::setDTthreads(1) - + } - + tinytest::test_package("WVPlots") - ... - 18. └─ggplot2:::ggplot_build.ggplot(x) - 19. └─layout$setup(data, plot$data, plot$plot_env) - 20. └─ggplot2 (local) setup(..., self = self) - 21. └─self$coord$setup_params(data) - 22. └─ggplot2 (local) setup_params(..., self = self) - 23. └─ggplot2:::parse_coord_expand(expand = self$expand %||% TRUE) - 24. └─ggplot2:::check_logical(expand) - 25. └─ggplot2:::stop_input_type(...) - 26. └─rlang::abort(message, ..., call = call, arg = arg) + > library(testthat) + > library(xpose) + Loading required package: ggplot2 + + Attaching package: 'xpose' + + The following object is masked from 'package:stats': + ... + 25. │ └─rlang::list2(...) + 26. └─ggplot2::labeller(labels) + 27. └─base::lapply(...) + 28. └─ggplot2 (local) FUN(X[[i]], ...) + 29. └─ggplot2 (local) .default(labels[label]) + 30. └─ggplot2 (local) x(labels) + + [ FAIL 2 | WARN 0 | SKIP 7 | PASS 518 ] + Error: Test failures Execution halted ``` * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘WVPlots_concept.Rmd’ + when running code in ‘customize_plots.Rmd’ ... - > frm$absY <- abs(frm$y) - - > frm$posY = frm$y > 0 - - > WVPlots::ScatterHist(frm, "x", "y", smoothmethod = "lm", - + title = "Example Linear Fit") + > dv_vs_ipred(xpdb, facets = c("SEX", "MED1"), ncol = 2, + + nrow = 1, page = 1) + Using data from $prob no.1 + Filtering data by EVID == 0 + `geom_smooth()` using formula = 'y ~ x' + `geom_smooth()` using formula = 'y ~ x' ... - > frm$posY = frm$y > 0 - - > WVPlots::ScatterHist(frm, "x", "y", title = "Example Fit") - - When sourcing ‘WVPlots_examples.R’: - Error: `expand` must be a logical vector, not the number 0. + When sourcing ‘multiple_pages.R’: + Error: could not find function "label_variable" Execution halted - ‘WVPlots_concept.Rmd’ using ‘UTF-8’... failed - ‘WVPlots_examples.Rmd’ using ‘UTF-8’... failed + ‘access_xpdb_data.Rmd’ using ‘UTF-8’... OK + ‘customize_plots.Rmd’ using ‘UTF-8’... failed + ‘import_model_outputs.Rmd’ using ‘UTF-8’... OK + ‘introduction.Rmd’ using ‘UTF-8’... OK + ‘multiple_pages.Rmd’ using ‘UTF-8’... failed + ‘vpc.Rmd’ using ‘UTF-8’... OK ``` * checking re-building of vignette outputs ... NOTE ``` Error(s) in re-building vignettes: - --- re-building ‘WVPlots_concept.Rmd’ using rmarkdown + --- re-building ‘access_xpdb_data.Rmd’ using rmarkdown + --- finished re-building ‘access_xpdb_data.Rmd’ + + --- re-building ‘customize_plots.Rmd’ using rmarkdown ``` -# xaringanthemer +# xpose.xtras
-* Version: 0.4.2 -* GitHub: https://github.com/gadenbuie/xaringanthemer -* Source code: https://github.com/cran/xaringanthemer -* Date/Publication: 2022-08-20 18:40:02 UTC -* Number of recursive dependencies: 75 +* Version: 0.0.2 +* GitHub: https://github.com/jprybylski/xpose.xtras +* Source code: https://github.com/cran/xpose.xtras +* Date/Publication: 2024-11-21 17:20:02 UTC +* Number of recursive dependencies: 108 -Run `revdepcheck::cloud_details(, "xaringanthemer")` for more info +Run `revdepcheck::cloud_details(, "xpose.xtras")` for more info
## Newly broken +* checking examples ... ERROR + ``` + Running examples in ‘xpose.xtras-Ex.R’ failed + The error most likely occurred in: + + > ### Name: grab_xpose_plot + > ### Title: Grab processed 'xpose_plot' + > ### Aliases: grab_xpose_plot + > + > ### ** Examples + > + > + ... + + eta_vs_catcov(etavar = ETA1) %>% + + grab_xpose_plot() + Using data from $prob no.1 + Removing duplicated rows based on: ID + Tidying data by ID, DOSE, AMT, SS, II ... and 23 more variables + Warning: attributes are not identical across measure variables; they will be dropped + Error in label_variable(labels, multi_line = multi_line) : + could not find function "label_variable" + Calls: %>% ... list2 -> labeller -> lapply -> FUN -> .default -> x + Execution halted + ``` + * checking tests ... ERROR ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output: - > library(testthat) - > library(xaringanthemer) - > - > test_check("xaringanthemer") - [ FAIL 1 | WARN 18 | SKIP 1 | PASS 308 ] - - ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ + > # This file is part of the standard setup for testthat. + > # It is recommended that you do not modify it. + > # + > # Where should you do additional test configuration? + > # Learn more about the roles of various files in: + > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview + > # * https://testthat.r-lib.org/articles/special-files.html ... ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-ggplot2.R:267:3'): theme_xaringan_restore_defaults() restores defaults ── - res$after_restore$line_colour (`actual`) not equal to res$original$colour (`expected`). + ── Failure ('test-xplot_boxplot.R:21:3'): xplot_boxplot ──────────────────────── + has_outliers(def_bp) is not TRUE - `actual` is a character vector ('#0088ff') - `expected` is an S3 object of class , a call + `actual`: FALSE + `expected`: TRUE - [ FAIL 1 | WARN 18 | SKIP 1 | PASS 308 ] + [ FAIL 1 | WARN 0 | SKIP 7 | PASS 660 ] Error: Test failures Execution halted ``` -## In both - * checking running R code from vignettes ... ERROR ``` Errors in running code in vignettes: - when running code in ‘xaringanthemer.Rmd’ + when running code in ‘a01-the-xp_xtra-object.Rmd’ ... - Warning in file(con, "r") : - cannot open file './../man/fragments/_quick-intro.Rmd': No such file or directory + - Compartment amounts (a) : A1, A2 + - Not attributed (na) : DOSE, SS, II, TAD, CPRED + + > eta_vs_contcov(w_unit_labs, etavar = ETA1, quiet = TRUE) + `geom_smooth()` using formula = 'y ~ x' + `geom_smooth()` using formula = 'y ~ x' - Quitting from lines 43-43 [unnamed-chunk-2] (xaringanthemer.Rmd) + ... - When tangling ‘xaringanthemer.Rmd’: - Error: cannot open the connection + > pheno_set %>% eta_waterfall(run3, run6, quiet = TRUE) + + When sourcing ‘a03-useful_plots.R’: + Error: could not find function "label_variable" Execution halted - ‘ggplot2-themes.Rmd’ using ‘UTF-8’... OK - ‘template-variables.Rmd’ using ‘UTF-8’... OK - ‘xaringanthemer.Rmd’ using ‘UTF-8’... failed + ‘a01-the-xp_xtra-object.Rmd’ using ‘UTF-8’... failed + ‘a02-xpose-sets.Rmd’ using ‘UTF-8’... OK + ‘a03-useful_plots.Rmd’ using ‘UTF-8’... failed + ``` + +* checking re-building of vignette outputs ... NOTE + ``` + Error(s) in re-building vignettes: + --- re-building ‘a01-the-xp_xtra-object.Rmd’ using rmarkdown + + Quitting from lines 95-96 [plot_cont] (a01-the-xp_xtra-object.Rmd) + Error: processing vignette 'a01-the-xp_xtra-object.Rmd' failed with diagnostics: + could not find function "label_variable" + --- failed re-building ‘a01-the-xp_xtra-object.Rmd’ + + --- re-building ‘a02-xpose-sets.Rmd’ using rmarkdown + ``` + +## In both + +* checking installed package size ... NOTE + ``` + installed size is 8.8Mb + sub-directories of 1Mb or more: + data 3.5Mb + doc 2.4Mb + ``` + +* checking R code for possible problems ... NOTE + ``` + xplot_pairs: no visible binding for global variable ‘other_fun’ + Undefined global functions or variables: + other_fun + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 2 marked UTF-8 strings + ``` + +# xray + +
+ +* Version: 0.2 +* GitHub: https://github.com/sicarul/xray +* Source code: https://github.com/cran/xray +* Date/Publication: 2017-12-08 05:15:59 UTC +* Number of recursive dependencies: 37 + +Run `revdepcheck::cloud_details(, "xray")` for more info + +
+ +## Newly broken + +* checking examples ... ERROR + ``` + Running examples in ‘xray-Ex.R’ failed + The error most likely occurred in: + + > ### Name: distributions + > ### Title: Analyze each variable and generate a histogram describing it's + > ### distribution. + > ### Aliases: distributions + > + > ### ** Examples + > + > library(xray) + > distributions(mtcars) + ================================================================================Error in { : + task 1 failed - "argument 5 matches multiple formal arguments" + Calls: distributions -> %do% -> + Execution halted ``` # yamlet
-* Version: 1.0.3 +* Version: 1.2.0 * GitHub: https://github.com/bergsmat/yamlet * Source code: https://github.com/cran/yamlet -* Date/Publication: 2024-03-29 13:30:02 UTC -* Number of recursive dependencies: 103 +* Date/Publication: 2024-11-26 08:00:02 UTC +* Number of recursive dependencies: 102 Run `revdepcheck::cloud_details(, "yamlet")` for more info @@ -28593,7 +19278,7 @@ Run `revdepcheck::cloud_details(, "yamlet")` for more info ── Failure ('test-yamlet.R:843:1'): ggplot.resolved is stable ────────────────── `print(x %>% ggplot(map) + geom_point())` did not produce any warnings. - [ FAIL 1 | WARN 0 | SKIP 2 | PASS 516 ] + [ FAIL 1 | WARN 2 | SKIP 2 | PASS 532 ] Error: Test failures Execution halted ```