[med-svn] [freebayes] 03/03: Merge tag 'upstream/0.9.14+dfsg'
Andreas Tille
tille at debian.org
Wed May 28 17:27:41 UTC 2014
This is an automated email from the git hooks/post-receive script.
tille pushed a commit to branch master
in repository freebayes.
commit c60831b29877d3d1101d594b002acbb4ba88e8b6
Merge: cedd7db 28bfd02
Author: Andreas Tille <tille at debian.org>
Date: Wed May 28 19:27:25 2014 +0200
Merge tag 'upstream/0.9.14+dfsg'
Upstream version 0.9.14+dfsg
.gitmodules | 6 +-
Makefile | 8 +-
README.md | 2 +-
bamtools/CMakeLists.txt | 65 -
bamtools/LICENSE | 22 -
bamtools/README | 60 -
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bamtools/src/utils/bamtools_pileup_engine.cpp | 346 -
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intervaltree/interval_tree_test.cpp | 81 -
src/Allele.cpp | 3 +-
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vcflib/src/Variant.cpp | 2199 ---
vcflib/src/Variant.h | 495 -
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vcflib/src/ssw_cpp.cpp | 399 -
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vcflib/src/vcf2fasta.cpp | 264 -
vcflib/src/vcf2tsv.cpp | 241 -
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vcflib/src/vcfcountalleles.cpp | 33 -
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vcflib/src/vcfevenregions.cpp | 202 -
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vcflib/src/vcfrandom.cpp | 70 -
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vcflib/src/vcfroc.cpp | 469 -
vcflib/src/vcfsamplediff.cpp | 200 -
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vcflib/src/vcfsamplestats.cpp | 193 -
vcflib/src/vcfsitesummarize.cpp | 94 -
vcflib/src/vcfsom.cpp | 626 -
vcflib/src/vcfstats.cpp | 570 -
vcflib/src/vcfstreamsort.cpp | 143 -
vcflib/src/vcfuniq.cpp | 49 -
vcflib/src/vcfuniqalleles.cpp | 54 -
vcflib/tabixpp/ChangeLog | 593 -
vcflib/tabixpp/Makefile | 71 -
vcflib/tabixpp/NEWS | 126 -
vcflib/tabixpp/README | 6 -
vcflib/tabixpp/TabixReader.java | 395 -
vcflib/tabixpp/bam_endian.h | 42 -
vcflib/tabixpp/bedidx.c | 156 -
vcflib/tabixpp/bgzf.c | 714 -
vcflib/tabixpp/bgzf.h | 157 -
vcflib/tabixpp/bgzip.c | 206 -
vcflib/tabixpp/example.gtf.gz | Bin 3778 -> 0 bytes
vcflib/tabixpp/example.gtf.gz.tbi | Bin 259 -> 0 bytes
vcflib/tabixpp/index.c | 998 -
vcflib/tabixpp/khash.h | 486 -
vcflib/tabixpp/knetfile.c | 632 -
vcflib/tabixpp/knetfile.h | 75 -
vcflib/tabixpp/kseq.h | 227 -
vcflib/tabixpp/ksort.h | 271 -
vcflib/tabixpp/kstring.c | 165 -
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vcflib/tabixpp/main.c | 290 -
vcflib/tabixpp/main.cpp | 47 -
vcflib/tabixpp/perl/MANIFEST | 8 -
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vcflib/tabixpp/perl/typemap | 3 -
vcflib/tabixpp/python/setup.py | 55 -
vcflib/tabixpp/python/tabixmodule.c | 408 -
vcflib/tabixpp/python/test.py | 91 -
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vcflib/tabixpp/tabix.cpp | 89 -
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408 files changed, 22 insertions(+), 109180 deletions(-)
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