[med-svn] [r-bioc-genomeinfodb] 02/05: New upstream version 1.12.3

[Andreas Tille]

This is an automated email from the git hooks/post-receive script.

tille pushed a commit to branch master
in repository r-bioc-genomeinfodb.

commit f7d808c0e07b1329dbb1c8eaa19cd44abe9dcc64
Author: Andreas Tille <tille at debian.org>
Date:   Sun Oct 22 18:32:33 2017 +0200

    New upstream version 1.12.3
---
 DESCRIPTION                                   |   4 ++--
 build/vignette.rds                            | Bin 280 -> 281 bytes
 inst/doc/Accept-organism-for-GenomeInfoDb.pdf | Bin 90165 -> 90582 bytes
 inst/doc/GenomeInfoDb.pdf                     | Bin 131169 -> 131343 bytes
 inst/extdata/dataFiles/genomeMappingTbl.csv   |   5 +++--
 5 files changed, 5 insertions(+), 4 deletions(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index 22ed2e2..760ad2e 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -6,7 +6,7 @@ Description: Contains data and functions that
 	sequence naming conventions (e.g., "chr1" versus "1"),
 	including a function that attempts to place sequence names in
 	their natural, rather than lexicographic, order.
-Version: 1.12.2
+Version: 1.12.3
 Encoding: UTF-8
 Author: Sonali Arora, Martin Morgan, Marc Carlson, H. Pagès
 Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
@@ -26,4 +26,4 @@ Collate: utils.R rankSeqlevels.R assembly-utils.R available.species.R
 VignetteBuilder: knitr
 Video: http://youtu.be/wdEjCYSXa7w
 NeedsCompilation: no
-Packaged: 2017-06-08 23:29:48 UTC; biocbuild
+Packaged: 2017-10-05 00:04:42 UTC; biocbuild
diff --git a/build/vignette.rds b/build/vignette.rds
index 6125706..91145e1 100644
Binary files a/build/vignette.rds and b/build/vignette.rds differ
diff --git a/inst/doc/Accept-organism-for-GenomeInfoDb.pdf b/inst/doc/Accept-organism-for-GenomeInfoDb.pdf
index 6be7ee3..e17135c 100644
Binary files a/inst/doc/Accept-organism-for-GenomeInfoDb.pdf and b/inst/doc/Accept-organism-for-GenomeInfoDb.pdf differ
diff --git a/inst/doc/GenomeInfoDb.pdf b/inst/doc/GenomeInfoDb.pdf
index b061c3d..fff87a8 100644
Binary files a/inst/doc/GenomeInfoDb.pdf and b/inst/doc/GenomeInfoDb.pdf differ
diff --git a/inst/extdata/dataFiles/genomeMappingTbl.csv b/inst/extdata/dataFiles/genomeMappingTbl.csv
index c226fd3..6862724 100644
--- a/inst/extdata/dataFiles/genomeMappingTbl.csv
+++ b/inst/extdata/dataFiles/genomeMappingTbl.csv
@@ -95,6 +95,7 @@ human,homo sapiens,GRCh38.p2,79,Mar.2015,79,Mar.2015,hg38,Dec.2013,Genome Refere
 human,homo sapiens,GRCh38.p3,81,Jul.2015,81,Jul.2015,hg38,Dec.2013,Genome Reference Consortium GRCh38
 human,homo sapiens,GRCh38.p5,83,Dec.2015,83,Dec.2015,hg38,Dec.2013,Genome Reference Consortium GRCh38
 human,homo sapiens,GRCh38.p7,85,Jul.2016,85,Jul.2016,hg38,Dec.2013,Genome Reference Consortium GRCh38
+human,homo sapiens,GRCh38.p10,88,Mar.2017,88,Mar.2017,hg38,Dec.2013,Genome Reference Consortium GRCh38
 hyrax,procavia capensis,proCap1,54,May.2009,54,May.2009,proCap1,Jul.2008,Baylor College of Medicine HGSC Procap1.0
 kangaroo rat,dipodomys ordii,dipOrd1,54,May.2009,54,May.2009,dipOrd1,Jul.2008,Baylor/Broad Institute DipOrd1.0
 lamprey,petromyzon marinus,Pmarinus_7.0,64,Sep.2011,64,Sep.2011,petMar2,Sep.2010,WUGSC 7.0
@@ -116,8 +117,7 @@ mouse,mus musculus,GRCm38.p1,70,Jan.2013,70,Jan.2013,mm10,Dec.2011,Genome Refere
 mouse,mus musculus,GRCm38.p2,74,Dec.2013,74,Dec.2013,mm10,Dec.2011,Genome Reference Consortium GRCm38
 mouse,mus musculus,GRCm38.p3,78,Dec.2014,78,Dec.2014,mm10,Dec.2011,Genome Reference Consortium GRCm38
 mouse,mus musculus,GRCm38.p4,81,Jul.2015,81,Jul.2015,mm10,Dec.2011,Genome Reference Consortium GRCm38
-mouse,mus musculus,NA,87,Dec.2016,87,Dec.2016,mm10,Dec.2011,Genome Reference Consortium GRCm38
-mouse,mus musculus,GRCm38.p5,88,Mar.2017,88,Mar.2017,mm10,Dec.2011,Genome Reference Consortium GRCm38
+mouse,mus musculus,GRCm38.p5,87,Dec.2016,87,Dec.2016,mm10,Dec.2011,Genome Reference Consortium GRCm38
 mouse lemur,microcebus murinus,micMur1,54,May.2009,54,May.2009,micMur1,Jul.2007,Broad Institute MicMur1.0
 mouse lemur,microcebus murinus,micMur1,54,May.2009,85,Jul.2016,micMur2,May.2015,Baylor/Broad Institute Mmur_2.0
 mouse lemur,microcebus murinus,Mmur_2.0,86,Oct.2016,86,Oct.2016,micMur2,May.2015,Baylor/Broad Institute Mmur_2.0
@@ -130,6 +130,7 @@ pig,sus scrofa,Sscrofa9,56,Sep.2009,64,Sep.2011,susScr3,Aug.2011,Swine Genome Se
 pig,sus scrofa,Sscrofa10.2,67,May.2012,67,May.2012,susScr3,Aug.2011,Swine Genome Sequencing Consortium Sscrofa10.2
 pika,ochotona princeps,OchPri2.0,54,May.2009,54,May.2009,ochPri2,Jul.2008,Broad Institute OchPri2
 pika,ochotona princeps,OchPri2.0,54,May.2009,67,May.2012,ochPri3,May.2012,Broad Institute OchPri3.0
+pika,ochotona princeps,OchPri2.0-Ens,89,May.2017,89,May.2017,ochPri3,May.2012,Broad Institute OchPri3.0
 platyfish,xiphophorus maculatus,Xipmac4.4.2,69,Oct.2012,69,Oct.2012,NA,NA,NA
 platypus,ornithorhynchus anatinus,OANA5,54,May.2009,54,May.2009,ornAna2,Feb.2007,WUSTL v5.0.1
 rabbit,oryctolagus cuniculus,RABBIT,54,May.2009,54,May.2009,oryCun2,Apr.2009,Broad Institute release OryCun2

-- 
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/r-bioc-genomeinfodb.git