[med-svn] [rna-star] branch upstream updated (86f7372 -> d874d4b)
Steffen Möller
moeller at moszumanska.debian.org
Tue Feb 23 18:15:50 UTC 2016
This is an automated email from the git hooks/post-receive script.
moeller pushed a change to branch upstream
in repository rna-star.
from 86f7372 Imported Upstream version 2.5.0a+dfsg
adds d874d4b Imported Upstream version 2.5.1b+dfsg
No new revisions were added by this update.
Summary of changes:
CHANGES.md | 40 +-
doc/STARmanual.pdf | Bin 249630 -> 251507 bytes
extras/doc-latex/STARmanual.tex | 9 +-
extras/doc-latex/parametersDefault.tex | 32 +-
source/BAMbinSortByCoordinate.cpp | 14 +-
source/BAMbinSortByCoordinate.h | 2 +-
source/BAMfunctions.cpp | 2 +-
source/Genome.cpp | 23 +-
source/Genome.h | 4 +-
source/Genome_insertSequences.cpp | 2 +-
source/Makefile | 3 +
source/Parameters.cpp | 52 +-
source/Parameters.h | 11 +-
source/ReadAlign_alignBAM.cpp | 30 +-
source/ReadAlign_chimericDetection.cpp | 35 +-
source/ReadAlign_mapOneRead.cpp | 5 +-
source/ReadAlign_multMapSelect.cpp | 81 +-
source/ReadAlign_outputAlignments.cpp | 141 +-
source/ReadAlign_outputTranscriptSAM.cpp | 34 +-
source/ReadAlign_quantTranscriptome.cpp | 3 +
source/ReadAlign_stitchPieces.cpp | 2 +-
source/ReadAlign_stitchWindowSeeds.cpp | 15 +-
source/STAR.cpp | 7 +-
source/STARmanual.tex | 451 ---
source/Stats.cpp | 12 +-
source/Stats.h | 4 +-
source/SuffixArrayFuns.cpp | 10 +-
source/SuffixArrayFuns.h | 1 -
source/Transcriptome_geneCountsAddAlign.cpp | 2 +-
source/Transcriptome_quantAlign.cpp | 3 +-
source/VERSION | 2 +-
source/bamRemoveDuplicates.cpp | 4 +-
source/blocksOverlap.cpp | 2 +-
source/extendAlign.cpp | 4 +-
source/genomeGenerate.cpp | 67 +-
source/genomeSAindex.cpp | 13 +-
source/parametersDefault | 30 +-
source/parametersDefault.xxd | 3940 ++++++++++++++-------------
source/signalFromBAM.cpp | 8 +-
source/sjdbBuildIndex.cpp | 2 +
source/stitchAlignToTranscript.cpp | 4 +-
41 files changed, 2502 insertions(+), 2604 deletions(-)
delete mode 100644 source/STARmanual.tex
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/rna-star.git
More information about the debian-med-commit
mailing list