From 25062e7bf1867ae5258788a00059cfa6c73ce8be Mon Sep 17 00:00:00 2001 From: eby Date: Wed, 19 Jan 2022 17:42:01 -0800 Subject: [PATCH] Updated for MSigDB 7.5.1 --- docs/v10/index.html | 5 +++++ docs/v10/test.md | 5 +++++ manifest | 6 +++--- release.properties | 6 +++--- 4 files changed, 16 insertions(+), 6 deletions(-) diff --git a/docs/v10/index.html b/docs/v10/index.html index f27b301..28d31ac 100644 --- a/docs/v10/index.html +++ b/docs/v10/index.html @@ -216,6 +216,11 @@

Version Comments

+ + 10.0.11 + 2022-1-19 + Updated to MSigDB v7.5.1. + 10.0.10 2022-1-12 diff --git a/docs/v10/test.md b/docs/v10/test.md index b9833d7..f2b3427 100644 --- a/docs/v10/test.md +++ b/docs/v10/test.md @@ -252,6 +252,11 @@ R-3.2 + +10.0.11 +2022-1-19 +Updated to MSigDB v7.5.1. + 10.0.10 2022-1-12 diff --git a/manifest b/manifest index 571c734..7a7fde7 100644 --- a/manifest +++ b/manifest @@ -1,4 +1,4 @@ -# Copyright (c) 2003-2020 Broad Institute, Inc., Massachusetts Institute of Technology, and Regents of the University of California. All rights reserved. +# Copyright (c) 2003-2022 Broad Institute, Inc., Massachusetts Institute of Technology, and Regents of the University of California. All rights reserved. author=GenePattern taskDoc=doc.html description=Performs single sample GSEA. NOTE: with the release of v10.0.1, this module was renamed from "ssGSEAProjection" to just "ssGSEA" @@ -12,7 +12,7 @@ userid=GenePattern quality=production taskType=Pathway Analysis categories=gsea;pathway analysis -version=Updated to MSigDB v7.5. +version=Updated to MSigDB v7.5.1. cpuType=any os=any LSID=urn\:lsid\:broad.mit.edu\:cancer.software.genepattern.module.analysis\:00270\:999999999 @@ -51,7 +51,7 @@ p3_optional= p3_prefix= p3_prefix_when_specified= p3_type=java.io.File -p3_value=ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c1.all.v7.5.symbols.gmt\=c1.all.v7.5.symbols.gmt [Positional];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.all.v7.5.symbols.gmt\=c2.all.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cgp.v7.5.symbols.gmt\=c2.cgp.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.v7.5.symbols.gmt\=c2.cp.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.biocarta.v7.5.symbols.gmt\=c2.cp.biocarta.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.kegg.v7.5.symbols.gmt\=c2.cp.kegg.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.pid.v7.5.symbols.gmt\=c2.cp.pid.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.reactome.v7.5.symbols.gmt\=c2.cp.reactome.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.wikipathways.v7.5.symbols.gmt\=c2.cp.wikipathways.v7.5.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.all.v7.5.symbols.gmt\=c3.all.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.mir.v7.5.symbols.gmt\=c3.mir.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.mir.mirdb.v7.5.symbols.gmt\=c3.mir.mirdb.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.mir.mir_legacy.v7.5.symbols.gmt\=c3.mir.mir_legacy.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.tft.v7.5.symbols.gmt\=c3.tft.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.tft.gtrd.v7.5.symbols.gmt\=c3.tft.gtrd.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.tft.tft_legacy.v7.5.symbols.gmt\=c3.tft.tft_legacy.v7.5.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c4.all.v7.5.symbols.gmt\=c4.all.v7.5.symbols.gmt [Computational];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c4.cgn.v7.5.symbols.gmt\=c4.cgn.v7.5.symbols.gmt [Computational];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c4.cm.v7.5.symbols.gmt\=c4.cm.v7.5.symbols.gmt [Computational];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.all.v7.5.symbols.gmt\=c5.all.v7.5.symbols.gmt [Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.v7.5.symbols.gmt\=c5.go.v7.5.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.bp.v7.5.symbols.gmt\=c5.go.bp.v7.5.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.cc.v7.5.symbols.gmt\=c5.go.cc.v7.5.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.mf.v7.5.symbols.gmt\=c5.go.mf.v7.5.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.hpo.v7.5.symbols.gmt\=c5.hpo.v7.5.symbols.gmt [Human Phenotype Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c6.all.v7.5.symbols.gmt\=c6.all.v7.5.symbols.gmt [Oncogenic Signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c7.all.v7.5.symbols.gmt\=c7.all.v7.5.symbols.gmt [Immunologic signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c7.immunesigdb.v7.5.symbols.gmt\=c7.immunesigdb.v7.5.symbols.gmt [Immunologic signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c7.vax.v7.5.symbols.gmt\=c7.vax.v7.5.symbols.gmt [Immunologic signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c8.all.v7.5.symbols.gmt\=c8.all.v7.5.symbols.gmt [cell type signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/h.all.v7.5.symbols.gmt\=h.all.v7.5.symbols.gmt [Hallmarks] +p3_value=ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c1.all.v7.5.1.symbols.gmt\=c1.all.v7.5.1.symbols.gmt [Positional];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.all.v7.5.1.symbols.gmt\=c2.all.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cgp.v7.5.1.symbols.gmt\=c2.cgp.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.v7.5.1.symbols.gmt\=c2.cp.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.biocarta.v7.5.1.symbols.gmt\=c2.cp.biocarta.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.kegg.v7.5.1.symbols.gmt\=c2.cp.kegg.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.pid.v7.5.1.symbols.gmt\=c2.cp.pid.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.reactome.v7.5.1.symbols.gmt\=c2.cp.reactome.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c2.cp.wikipathways.v7.5.1.symbols.gmt\=c2.cp.wikipathways.v7.5.1.symbols.gmt [Curated];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.all.v7.5.1.symbols.gmt\=c3.all.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.mir.v7.5.1.symbols.gmt\=c3.mir.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.mir.mirdb.v7.5.1.symbols.gmt\=c3.mir.mirdb.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.mir.mir_legacy.v7.5.1.symbols.gmt\=c3.mir.mir_legacy.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.tft.v7.5.1.symbols.gmt\=c3.tft.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.tft.gtrd.v7.5.1.symbols.gmt\=c3.tft.gtrd.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c3.tft.tft_legacy.v7.5.1.symbols.gmt\=c3.tft.tft_legacy.v7.5.1.symbols.gmt [Motif];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c4.all.v7.5.1.symbols.gmt\=c4.all.v7.5.1.symbols.gmt [Computational];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c4.cgn.v7.5.1.symbols.gmt\=c4.cgn.v7.5.1.symbols.gmt [Computational];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c4.cm.v7.5.1.symbols.gmt\=c4.cm.v7.5.1.symbols.gmt [Computational];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.all.v7.5.1.symbols.gmt\=c5.all.v7.5.1.symbols.gmt [Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.v7.5.1.symbols.gmt\=c5.go.v7.5.1.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.bp.v7.5.1.symbols.gmt\=c5.go.bp.v7.5.1.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.cc.v7.5.1.symbols.gmt\=c5.go.cc.v7.5.1.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.go.mf.v7.5.1.symbols.gmt\=c5.go.mf.v7.5.1.symbols.gmt [Gene Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c5.hpo.v7.5.1.symbols.gmt\=c5.hpo.v7.5.1.symbols.gmt [Human Phenotype Ontology];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c6.all.v7.5.1.symbols.gmt\=c6.all.v7.5.1.symbols.gmt [Oncogenic Signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c7.all.v7.5.1.symbols.gmt\=c7.all.v7.5.1.symbols.gmt [Immunologic signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c7.immunesigdb.v7.5.1.symbols.gmt\=c7.immunesigdb.v7.5.1.symbols.gmt [Immunologic signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c7.vax.v7.5.1.symbols.gmt\=c7.vax.v7.5.1.symbols.gmt [Immunologic signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/c8.all.v7.5.1.symbols.gmt\=c8.all.v7.5.1.symbols.gmt [cell type signatures];ftp\://gpftp.broadinstitute.org/module_support_files/msigdb/gmt/h.all.v7.5.1.symbols.gmt\=h.all.v7.5.1.symbols.gmt [Hallmarks] p4_default_value=Name p4_description=Specifies the gct data column containing gene symbols. In most cases this will be "Column 1". diff --git a/release.properties b/release.properties index 1783bd6..331e73f 100644 --- a/release.properties +++ b/release.properties @@ -1,5 +1,5 @@ -#Wed, 12 Jan 2022 17:37:54 -0800 +#Wed, 19 Jan 2022 17:40:27 -0800 LSID.noVersion=urn\:lsid\:broad.mit.edu\:cancer.software.genepattern.module.analysis\:00270 release.version=10.0 -build.number=10 -build.timestamp=Wed, 12 Jan 2022 17\:37\:54 -0800 +build.number=11 +build.timestamp=Wed, 19 Jan 2022 17\:40\:27 -0800