From 1aae03a1c5344251f6a1f4f9981e3d2759dd0af0 Mon Sep 17 00:00:00 2001
From: Julien Chiquet <julien.chiquet@inrae.fr>
Date: Wed, 21 Jun 2023 09:37:17 +0200
Subject: [PATCH] preparing CRAN submission

---
 NEWS.md          |  2 +-
 cran-comments.md | 15 ++++++---------
 inst/WORDLIST    |  5 +++--
 3 files changed, 10 insertions(+), 12 deletions(-)

diff --git a/NEWS.md b/NEWS.md
index df27b4cc..6b85efbc 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,5 +1,5 @@
 
-# PLNmodels 1.0.2 (2023-06-20)
+# PLNmodels 1.0.2 (2023-06-21)
 
 * changed initial value in optim for variational variance (1 -> 0.1),
     which caused failure in some cases
diff --git a/cran-comments.md b/cran-comments.md
index 47037d67..dec2336d 100644
--- a/cran-comments.md
+++ b/cran-comments.md
@@ -1,10 +1,11 @@
 
-Submitting PLNmodels version 1.0.1 to CRAN
+Submitting PLNmodels version 1.0.2 to CRAN
 
-* fix in the use of future_lapply which used to make postTreatment in PLNPCA last for ever with multicore in v1.0.0...
-* prevent use of bootstrap/jackknife when not appropriate
-* fix bug in PLNmixture() when the sequence of cluster numbers (`clusters`) is not of the form `1:K_max`
-* use bibentry to replace citEntry in CITATION
+* changed initial value in optim for variational variance (1 -> 0.1),
+    which caused failure in some cases
+* fix bug when using inception in PLNnetwork()
+* starting handling of missing data
+* slightly faster (factorized) initialization for PCA
 
 ## Tested environments
 
@@ -15,10 +16,6 @@ Submitting PLNmodels version 1.0.1 to CRAN
   - Windows Server 2022, R-release, 64 bit
   - Windows Server 2022, R-old, 64 bit
 
-* tested remotely with R-hub 
-  - Windows Server 2022, R-devel, 64 bit
-	- Ubuntu Linux 22.04 LTS, R-release, GCC
-
 * tested remotely with github-action
   - Linux Ubuntu 22.04, R-release
   - Linux Ubuntu 22.04, R-oldrel 
diff --git a/inst/WORDLIST b/inst/WORDLIST
index 3461ae2d..2c862684 100644
--- a/inst/WORDLIST
+++ b/inst/WORDLIST
@@ -93,6 +93,7 @@ amplicon
 arg
 barebone
 benthos
+bibentry
 bigg
 bioconductor
 biom
@@ -100,6 +101,7 @@ biomformat
 boldsymbol
 caddisflies
 caughts
+citEntry
 cloneable
 coercible
 compositional
@@ -134,7 +136,6 @@ gj
 grey
 gtable
 http
-https
 i'j
 ie
 igraph
@@ -143,7 +144,6 @@ ik
 indep
 instable
 intercal
-io
 ixed
 kmeans
 knitr
@@ -175,6 +175,7 @@ nlopt
 nloptr
 normalisation
 ofposterior
+optim
 optimizers
 ot
 overset