woldlab.caltech.edu Git - pysam.git/commit

author	Diane Trout <diane@caltech.edu>
	Thu, 21 Jul 2011 21:16:36 +0000 (14:16 -0700)
committer	Diane Trout <diane@caltech.edu>
	Thu, 21 Jul 2011 21:16:36 +0000 (14:16 -0700)
commit	d02fe5283ed7a93a2f76a5d6dc6e37b40c11b9b1
tree	7adc2223d587f645d58ee5ff1ca0ee9eb8b3bb9a	tree \| snapshot
parent	d828f9c9aa78e3d1687265b52de841f3f3852089	commit \| diff

Imported Upstream version 0.5

149 files changed:

MANIFEST.in		diff \| blob \| history
PKG-INFO		diff \| blob \| history
ez_setup.py	[new file with mode: 0644]	blob
pysam.egg-info/PKG-INFO	[new file with mode: 0644]	blob
pysam.egg-info/SOURCES.txt	[new file with mode: 0644]	blob
pysam.egg-info/dependency_links.txt	[new file with mode: 0644]	blob
pysam.egg-info/not-zip-safe	[new file with mode: 0644]	blob
pysam.egg-info/requires.txt	[new file with mode: 0644]	blob
pysam.egg-info/top_level.txt	[new file with mode: 0644]	blob
pysam/Pileup.py		diff \| blob \| history
pysam/TabProxies.c	[new file with mode: 0644]	blob
pysam/TabProxies.pxd	[new file with mode: 0644]	blob
pysam/TabProxies.pyx	[new file with mode: 0644]	blob
pysam/VCF.py	[new file with mode: 0644]	blob
pysam/__init__.py		diff \| blob \| history
pysam/csamtools.c	[new file with mode: 0644]	blob
pysam/csamtools.pxd		diff \| blob \| history
pysam/csamtools.pyx		diff \| blob \| history
pysam/ctabix.c	[new file with mode: 0644]	blob
pysam/ctabix.pxd		diff \| blob \| history
pysam/ctabix.pyx		diff \| blob \| history
pysam/cvcf.c	[new file with mode: 0644]	blob
pysam/cvcf.pxd	[new file with mode: 0644]	blob
pysam/cvcf.pyx	[new file with mode: 0644]	blob
pysam/pysam_util.c		diff \| blob \| history
pysam/pysam_util.h		diff \| blob \| history
pysam/tabix_util.c	[new file with mode: 0644]	blob
pysam/version.py		diff \| blob \| history
samtools/bam.c	[deleted file]	blob \| history
samtools/bam.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam.h		diff \| blob \| history
samtools/bam2bcf.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam2bcf.h	[new file with mode: 0644]	blob
samtools/bam2bcf_indel.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam2depth.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_aux.c	[deleted file]	blob \| history
samtools/bam_aux.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_cat.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_color.c	[deleted file]	blob \| history
samtools/bam_color.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_import.c	[deleted file]	blob \| history
samtools/bam_import.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_index.c	[deleted file]	blob \| history
samtools/bam_index.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_lpileup.c	[deleted file]	blob \| history
samtools/bam_lpileup.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_maqcns.c	[deleted file]	blob \| history
samtools/bam_maqcns.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_maqcns.h		diff \| blob \| history
samtools/bam_mate.c	[deleted file]	blob \| history
samtools/bam_mate.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_md.c	[deleted file]	blob \| history
samtools/bam_md.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_pileup.c	[deleted file]	blob \| history
samtools/bam_pileup.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_plcmd.c	[deleted file]	blob \| history
samtools/bam_plcmd.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_reheader.c	[deleted file]	blob \| history
samtools/bam_rmdup.c	[deleted file]	blob \| history
samtools/bam_rmdup.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_rmdupse.c	[deleted file]	blob \| history
samtools/bam_rmdupse.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_sort.c	[deleted file]	blob \| history
samtools/bam_sort.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_stat.c	[deleted file]	blob \| history
samtools/bam_stat.c.pysam.c	[new file with mode: 0644]	blob
samtools/bam_tview.c	[deleted file]	blob \| history
samtools/bam_tview.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/bcf.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/bcf.h	[new file with mode: 0644]	blob
samtools/bcftools/bcf2qcall.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/bcfutils.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/call1.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/em.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/fet.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/index.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/kfunc.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/kmin.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/kmin.h	[new file with mode: 0644]	blob
samtools/bcftools/prob1.c.pysam.c	[new file with mode: 0644]	blob
samtools/bcftools/prob1.h	[new file with mode: 0644]	blob
samtools/bcftools/vcf.c.pysam.c	[new file with mode: 0644]	blob
samtools/bedidx.c.pysam.c	[new file with mode: 0644]	blob
samtools/bgzf.c	[deleted file]	blob \| history
samtools/bgzf.c.pysam.c	[new file with mode: 0644]	blob
samtools/bgzf.h		diff \| blob \| history
samtools/cut_target.c.pysam.c	[new file with mode: 0644]	blob
samtools/errmod.c.pysam.c	[new file with mode: 0644]	blob
samtools/errmod.h	[new file with mode: 0644]	blob
samtools/faidx.c	[deleted file]	blob \| history
samtools/faidx.c.pysam.c	[new file with mode: 0644]	blob
samtools/glf.c	[deleted file]	blob \| history
samtools/glf.c.pysam.c	[new file with mode: 0644]	blob
samtools/kaln.c	[deleted file]	blob \| history
samtools/kaln.c.pysam.c	[new file with mode: 0644]	blob
samtools/kaln.h		diff \| blob \| history
samtools/khash.h		diff \| blob \| history
samtools/knetfile.c	[deleted file]	blob \| history
samtools/knetfile.c.pysam.c	[new file with mode: 0644]	blob
samtools/kprobaln.c.pysam.c	[new file with mode: 0644]	blob
samtools/kprobaln.h	[new file with mode: 0644]	blob
samtools/ksort.h		diff \| blob \| history
samtools/kstring.c	[deleted file]	blob \| history
samtools/kstring.c.pysam.c	[new file with mode: 0644]	blob
samtools/kstring.h		diff \| blob \| history
samtools/misc/md5.c.pysam.c	[new file with mode: 0644]	blob
samtools/misc/md5.h	[new file with mode: 0644]	blob
samtools/msvc_compat.h	[new file with mode: 0644]	blob
samtools/phase.c.pysam.c	[new file with mode: 0644]	blob
samtools/pysam.h	[new file with mode: 0644]	blob
samtools/razf.c	[deleted file]	blob \| history
samtools/razf.c.pysam.c	[new file with mode: 0644]	blob
samtools/sam.c	[deleted file]	blob \| history
samtools/sam.c.pysam.c	[new file with mode: 0644]	blob
samtools/sam_header.c	[deleted file]	blob \| history
samtools/sam_header.c.pysam.c	[new file with mode: 0644]	blob
samtools/sam_view.c	[deleted file]	blob \| history
samtools/sam_view.c.pysam.c	[new file with mode: 0644]	blob
samtools/sample.c.pysam.c	[new file with mode: 0644]	blob
samtools/sample.h	[new file with mode: 0644]	blob
samtools/win32/xcurses.h	[new file with mode: 0644]	blob
samtools/win32/zconf.h	[new file with mode: 0644]	blob
samtools/win32/zlib.h	[new file with mode: 0644]	blob
setup.cfg		diff \| blob \| history
setup.py		diff \| blob \| history
tabix/bedidx.c.pysam.c	[new file with mode: 0644]	blob
tabix/bgzf.c	[deleted file]	blob \| history
tabix/bgzf.c.pysam.c	[new file with mode: 0644]	blob
tabix/bgzf.h		diff \| blob \| history
tabix/bgzip.c	[deleted file]	blob \| history
tabix/bgzip.c.pysam.c	[new file with mode: 0644]	blob
tabix/index.c	[deleted file]	blob \| history
tabix/index.c.pysam.c	[new file with mode: 0644]	blob
tabix/knetfile.c	[deleted file]	blob \| history
tabix/knetfile.c.pysam.c	[new file with mode: 0644]	blob
tabix/kseq.h	[new file with mode: 0644]	blob
tabix/kstring.c	[deleted file]	blob \| history
tabix/kstring.c.pysam.c	[new file with mode: 0644]	blob
tabix/msvc_compat.h	[new file with mode: 0644]	blob
tabix/pysam.h	[new file with mode: 0644]	blob
tabix/tabix.h		diff \| blob \| history
tests/Makefile		diff \| blob \| history
tests/ex10.sam	[new file with mode: 0644]	blob
tests/ex9_fail.bam	[new file with mode: 0644]	blob
tests/ex9_nofail.bam	[new file with mode: 0644]	blob
tests/example.gtf.gz		diff \| blob \| history
tests/example.gtf.gz.tbi		diff \| blob \| history
tests/pysam_test.py		diff \| blob \| history
tests/tabix_test.py		diff \| blob \| history

debian packaging for pysam

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