[med-svn] [python-pysam] branch master updated (2632641 -> 0787fde)
Jorge Soares
jssoares-guest at moszumanska.debian.org
Wed Nov 26 14:55:59 UTC 2014
This is an automated email from the git hooks/post-receive script.
jssoares-guest pushed a change to branch master
in repository python-pysam.
from 2632641 Adding lib source code. Probably won't be needed
new b4fcfcb Imported Upstream version 0.8.1
new 5713a6c Merge tag 'upstream/0.8.1'
new 0787fde adding debian folder once again after pristine tar deleted it
The 3 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
AUTHORS | 32 -
PKG-INFO | 16 +
benchmark/tabix_bench.py | 76 -
benchmark/windows_small.bed | 100000 ------------------
benchmark/windows_small.bed.gz | Bin 459587 -> 0 bytes
benchmark/windows_small.bed.gz.tbi | Bin 34590 -> 0 bytes
debian/control | 3 +-
.../do_not_use_distribute_setup.patch | 0
.../fix_cleanup_tests.patch | 0
.../{patches => patches.old}/offline-tests.patch | 0
debian/{patches => patches.old}/series | 0
.../use_external_htslib.patch | 0
..._use_distribute_setup_python2_and_python3.patch | 12 +
.../import-setuptools-at-the-beginning.patch | 19 +
debian/patches/series | 5 +-
debian/rules | 66 +-
doc/out | 30 +
htslib/INSTALL | 25 -
htslib/LICENSE | 69 -
htslib/Makefile | 337 -
htslib/README | 5 -
htslib/faidx.5 | 147 -
htslib/htslib.mk | 144 -
htslib/htslib.pc.in | 10 -
htslib/htslib_vars.mk | 38 -
htslib/sam.5 | 68 -
htslib/tabix.1 | 155 -
htslib/test/aux#aux.sam | 5 -
htslib/test/aux.fa | 2 -
htslib/test/aux.fa.fai | 1 -
htslib/test/c1#bounds.sam | 4 -
htslib/test/c1#clip.sam | 8 -
htslib/test/c1#pad1.sam | 10 -
htslib/test/c1#pad2.sam | 14 -
htslib/test/c1#pad3.sam | 14 -
htslib/test/c1.fa | 2 -
htslib/test/c1.fa.fai | 1 -
htslib/test/ce#1.sam | 2 -
htslib/test/ce#2.sam | 3 -
htslib/test/ce#5.sam | 11 -
htslib/test/ce#5b.sam | 12 -
htslib/test/ce#large_seq.sam | 3 -
htslib/test/ce#tag_depadded.sam | 11 -
htslib/test/ce#tag_padded.sam | 11 -
htslib/test/ce#unmap.sam | 6 -
htslib/test/ce#unmap1.sam | 20 -
htslib/test/ce#unmap2.sam | 29 -
htslib/test/ce.fa | 20803 ----
htslib/test/ce.fa.fai | 7 -
htslib/test/compare_sam.pl | 172 -
htslib/test/fieldarith.c | 72 -
htslib/test/fieldarith.sam | 15 -
htslib/test/hfile.c | 204 -
htslib/test/sam.c | 143 -
htslib/test/test-vcf-api.c | 235 -
htslib/test/test-vcf-api.out | 28 -
htslib/test/test-vcf-sweep.c | 112 -
htslib/test/test-vcf-sweep.out | 4 -
htslib/test/test.pl | 202 -
htslib/test/test_view.c | 151 -
htslib/test/test_view.pl | 71 -
htslib/test/xx#blank.sam | 0
htslib/test/xx#large_aux.sam | 4 -
htslib/test/xx#large_aux2.sam | 11 -
htslib/test/xx#minimal.sam | 10 -
htslib/test/xx#pair.sam | 7 -
htslib/test/xx#rg.sam | 13 -
htslib/test/xx#triplet.sam | 7 -
htslib/test/xx#unsorted.sam | 8 -
htslib/test/xx.fa | 5 -
htslib/test/xx.fa.fai | 2 -
htslib/vcf.5 | 120 -
install-CGAT-tools.sh | 281 -
pysam.egg-info/PKG-INFO | 16 +
pysam.egg-info/SOURCES.txt | 204 +
pysam.egg-info/dependency_links.txt | 1 +
pysam.egg-info/not-zip-safe | 1 +
pysam.egg-info/top_level.txt | 1 +
pysam/TabProxies.c | 14076 +++
pysam/VCF.py.obsolete | 1087 -
pysam/alternatives.py.obsolete | 82 -
pysam/calignmentfile.c | 48377 +++++++++
pysam/cfaidx.c | 8717 ++
pysam/chtslib.c | 3162 +
pysam/csamfile.c | 2876 +
pysam/csamtools.c | 6962 ++
pysam/ctabix.c | 15462 +++
pysam/cvcf.c | 30127 ++++++
requires.txt | 1 -
samtools/bam.c | 190 -
samtools/bam2bcf.c | 804 -
samtools/bam2bcf_indel.c | 533 -
samtools/bam2depth.c | 199 -
samtools/bam_aux.c | 71 -
samtools/bam_cat.c | 156 -
samtools/bam_color.c | 169 -
samtools/bam_flags.c | 68 -
samtools/bam_import.c | 63 -
samtools/bam_index.c | 110 -
samtools/bam_lpileup.c | 223 -
samtools/bam_mate.c | 347 -
samtools/bam_md.c | 413 -
samtools/bam_plbuf.c | 66 -
samtools/bam_plcmd.c | 881 -
samtools/bam_reheader.c | 81 -
samtools/bam_rmdup.c | 231 -
samtools/bam_rmdupse.c | 184 -
samtools/bam_sort.c | 1181 -
samtools/bam_split.c | 508 -
samtools/bam_stat.c | 111 -
samtools/bam_tview.c | 443 -
samtools/bam_tview_curses.c | 332 -
samtools/bam_tview_html.c | 373 -
samtools/bamshuf.c | 183 -
samtools/bedcov.c | 156 -
samtools/bedidx.c | 258 -
samtools/cut_target.c | 224 -
samtools/errmod.c | 193 -
samtools/faidx.c | 95 -
samtools/kaln.c | 486 -
samtools/misc/ace2sam.c | 249 -
samtools/misc/md5.c | 298 -
samtools/padding.c | 513 -
samtools/phase.c | 722 -
samtools/sam.c | 108 -
samtools/sam_header.c | 834 -
samtools/sam_view.c | 706 -
samtools/sample.c | 132 -
samtools/stats.c | 1538 -
samtools/stats_isize.c | 219 -
samtools/test/merge/test_bam_translate.c | 591 -
samtools/test/merge/test_bam_translate.c.pysam.c | 593 -
samtools/test/merge/test_pretty_header.c | 87 -
samtools/test/merge/test_pretty_header.c.pysam.c | 89 -
samtools/test/merge/test_rtrans_build.c | 118 -
samtools/test/merge/test_rtrans_build.c.pysam.c | 120 -
samtools/test/merge/test_trans_tbl_init.c | 471 -
samtools/test/merge/test_trans_tbl_init.c.pysam.c | 473 -
samtools/test/split/test_count_rg.c | 124 -
samtools/test/split/test_count_rg.c.pysam.c | 126 -
samtools/test/split/test_expand_format_string.c | 124 -
.../test/split/test_expand_format_string.c.pysam.c | 126 -
samtools/test/split/test_filter_header_rg.c | 191 -
.../test/split/test_filter_header_rg.c.pysam.c | 193 -
samtools/test/split/test_parse_args.c | 215 -
samtools/test/split/test_parse_args.c.pysam.c | 217 -
samtools/test/test.c | 53 -
samtools/test/tview/test_get_rg_sample.c | 81 -
samtools/test/tview/test_get_rg_sample.c.pysam.c | 83 -
save/example.py | 79 -
save/pysam_bench.py | 63 -
save/pysam_test2.6.py | 1607 -
save/pysam_test_stdin.py | 10 -
save/pysam_testpp.py | 13 -
save/segfault_tests.py | 37 -
save/vcf_test.py | 123 -
setup.cfg | 6 +
tests/AlignmentFile_test.py | 2057 -
tests/SamFile_test.py | 1927 -
tests/TestUtils.py | 52 -
tests/_compile_test.pyx | 29 -
tests/_compile_test.pyxbld | 8 -
tests/_cython_flagstat.pyx | 18 -
tests/_cython_flagstat.pyxbld | 8 -
tests/compile_test.py | 46 -
tests/cython_flagstat.py | 12 -
tests/faidx_test.py | 87 -
tests/pysam_data/Makefile | 63 -
tests/pysam_data/ex1.bed | 2 -
tests/pysam_data/ex1.fa | 56 -
tests/pysam_data/ex1.fq | 13080 ---
tests/pysam_data/ex1.sam.gz | Bin 113194 -> 0 bytes
tests/pysam_data/ex10.sam | 16 -
tests/pysam_data/ex3.sam | 13 -
tests/pysam_data/ex4.sam | 9 -
tests/pysam_data/ex5.sam | 5 -
tests/pysam_data/ex6.sam | 5 -
tests/pysam_data/ex7.sam.donottest | 2 -
tests/pysam_data/ex8.sam | 3 -
tests/pysam_data/ex9_fail.sam | 1022 -
tests/pysam_data/ex9_nofail.sam | 1021 -
tests/pysam_data/example_btag.sam | 6 -
tests/pysam_data/example_empty_header.sam | 321 -
tests/pysam_data/example_unmapped_reads_no_sq.sam | 3 -
tests/pysam_data/example_user_header.sam | 8 -
tests/pysam_data/issue100.sam | 27 -
tests/pysam_data/rg_with_tab.sam | 3273 -
tests/pysam_data/softclip.sam | 6 -
tests/pysam_data/tag_bug.sam | 16 -
tests/pysam_data/test.gtf | 10 -
tests/pysam_data/test.gtf.gz | Bin 311 -> 0 bytes
tests/pysam_data/test_unaligned.sam | 6 -
tests/python_flagstat.py | 13 -
tests/refactoring.pl | 60 -
tests/refactoring.txt | 198 -
tests/samtools_test.py | 383 -
tests/tabix_data/example.bed.gz | Bin 819 -> 0 bytes
tests/tabix_data/example.bed.gz.tbi | Bin 192 -> 0 bytes
tests/tabix_data/example.gtf.gz | Bin 3778 -> 0 bytes
tests/tabix_data/example.gtf.gz.tbi | Bin 196 -> 0 bytes
tests/tabix_data/example.sam.gz | Bin 398 -> 0 bytes
tests/tabix_data/example.sam.gz.tbi | Bin 128 -> 0 bytes
tests/tabix_data/example.vcf.gz | Bin 328 -> 0 bytes
tests/tabix_data/example.vcf.gz.tbi | Bin 182 -> 0 bytes
tests/tabix_data/example.vcf40 | 23 -
tests/tabix_data/example_badcomments.bed.gz | Bin 879 -> 0 bytes
tests/tabix_data/example_badcomments.bed.gz.tbi | Bin 194 -> 0 bytes
tests/tabix_data/example_badcomments.gtf.gz | Bin 3825 -> 0 bytes
tests/tabix_data/example_badcomments.gtf.gz.tbi | Bin 198 -> 0 bytes
tests/tabix_data/example_badcomments.sam.gz | Bin 398 -> 0 bytes
tests/tabix_data/example_badcomments.sam.gz.tbi | Bin 128 -> 0 bytes
tests/tabix_data/example_badcomments.vcf.gz | Bin 753 -> 0 bytes
tests/tabix_data/example_badcomments.vcf.gz.tbi | Bin 186 -> 0 bytes
tests/tabix_data/example_comments.bed.gz | Bin 849 -> 0 bytes
tests/tabix_data/example_comments.bed.gz.tbi | Bin 194 -> 0 bytes
tests/tabix_data/example_comments.gtf.gz | Bin 3792 -> 0 bytes
tests/tabix_data/example_comments.gtf.gz.tbi | Bin 198 -> 0 bytes
tests/tabix_data/example_comments.sam.gz | Bin 398 -> 0 bytes
tests/tabix_data/example_comments.sam.gz.tbi | Bin 128 -> 0 bytes
tests/tabix_data/example_comments.vcf.gz | Bin 753 -> 0 bytes
tests/tabix_data/example_comments.vcf.gz.tbi | Bin 186 -> 0 bytes
tests/tabix_data/example_unicode.vcf | 23 -
tests/tabix_data/gtf_toofew_fields.gtf.gz | Bin 400 -> 0 bytes
tests/tabix_data/gtf_toomany_fields.gtf.gz | Bin 400 -> 0 bytes
tests/tabix_data/gtf_wrong_fields.gtf.gz | Bin 400 -> 0 bytes
tests/tabix_data/vcf/10.vcf | 84 -
tests/tabix_data/vcf/11.vcf | 216 -
tests/tabix_data/vcf/12.vcf | 1000 -
tests/tabix_data/vcf/13.vcf | 220 -
tests/tabix_data/vcf/15.vcf | 317 -
tests/tabix_data/vcf/16.vcf | 369 -
tests/tabix_data/vcf/18.vcf | 1000 -
tests/tabix_data/vcf/2.vcf | 334 -
tests/tabix_data/vcf/20.vcf | 307 -
tests/tabix_data/vcf/21.vcf | 310 -
tests/tabix_data/vcf/22.vcf | 1000 -
tests/tabix_data/vcf/23.vcf | 419 -
tests/tabix_data/vcf/24.vcf | 724 -
tests/tabix_data/vcf/3.vcf | 1000 -
tests/tabix_data/vcf/4.vcf | 318 -
tests/tabix_data/vcf/5.vcf | 1000 -
tests/tabix_data/vcf/6.vcf | 278 -
tests/tabix_data/vcf/7.vcf | 317 -
tests/tabix_data/vcf/8.vcf | 84 -
tests/tabix_data/vcf/9.vcf | 1000 -
tests/tabix_data/vcf/README.txt | 11 -
tests/tabix_data/vcf/issue85.vcf | 26 -
tests/tabix_test.py | 1020 -
win32/getopt.c | 1261 -
win32/getopt.h | 187 -
win32/stdint.h | 799 -
win32/unistd.h | 26 -
252 files changed, 130101 insertions(+), 183372 deletions(-)
delete mode 100644 AUTHORS
create mode 100644 PKG-INFO
delete mode 100644 benchmark/tabix_bench.py
delete mode 100644 benchmark/windows_small.bed
delete mode 100644 benchmark/windows_small.bed.gz
delete mode 100644 benchmark/windows_small.bed.gz.tbi
copy debian/{patches => patches.old}/do_not_use_distribute_setup.patch (100%)
copy debian/{patches => patches.old}/fix_cleanup_tests.patch (100%)
copy debian/{patches => patches.old}/offline-tests.patch (100%)
copy debian/{patches => patches.old}/series (100%)
copy debian/{patches => patches.old}/use_external_htslib.patch (100%)
create mode 100644 debian/patches/do_not_use_distribute_setup_python2_and_python3.patch
create mode 100644 debian/patches/import-setuptools-at-the-beginning.patch
create mode 100644 doc/out
delete mode 100644 htslib/INSTALL
delete mode 100644 htslib/LICENSE
delete mode 100644 htslib/Makefile
delete mode 100644 htslib/README
delete mode 100644 htslib/faidx.5
delete mode 100644 htslib/htslib.mk
delete mode 100644 htslib/htslib.pc.in
delete mode 100644 htslib/htslib_vars.mk
delete mode 100644 htslib/sam.5
delete mode 100644 htslib/tabix.1
delete mode 100644 htslib/test/aux#aux.sam
delete mode 100644 htslib/test/aux.fa
delete mode 100644 htslib/test/aux.fa.fai
delete mode 100644 htslib/test/c1#bounds.sam
delete mode 100644 htslib/test/c1#clip.sam
delete mode 100644 htslib/test/c1#pad1.sam
delete mode 100644 htslib/test/c1#pad2.sam
delete mode 100644 htslib/test/c1#pad3.sam
delete mode 100644 htslib/test/c1.fa
delete mode 100644 htslib/test/c1.fa.fai
delete mode 100644 htslib/test/ce#1.sam
delete mode 100644 htslib/test/ce#2.sam
delete mode 100644 htslib/test/ce#5.sam
delete mode 100644 htslib/test/ce#5b.sam
delete mode 100644 htslib/test/ce#large_seq.sam
delete mode 100644 htslib/test/ce#tag_depadded.sam
delete mode 100644 htslib/test/ce#tag_padded.sam
delete mode 100644 htslib/test/ce#unmap.sam
delete mode 100644 htslib/test/ce#unmap1.sam
delete mode 100644 htslib/test/ce#unmap2.sam
delete mode 100644 htslib/test/ce.fa
delete mode 100644 htslib/test/ce.fa.fai
delete mode 100755 htslib/test/compare_sam.pl
delete mode 100644 htslib/test/fieldarith.c
delete mode 100644 htslib/test/fieldarith.sam
delete mode 100644 htslib/test/hfile.c
delete mode 100644 htslib/test/sam.c
delete mode 100644 htslib/test/test-vcf-api.c
delete mode 100644 htslib/test/test-vcf-api.out
delete mode 100644 htslib/test/test-vcf-sweep.c
delete mode 100644 htslib/test/test-vcf-sweep.out
delete mode 100755 htslib/test/test.pl
delete mode 100644 htslib/test/test_view.c
delete mode 100755 htslib/test/test_view.pl
delete mode 100644 htslib/test/xx#blank.sam
delete mode 100644 htslib/test/xx#large_aux.sam
delete mode 100644 htslib/test/xx#large_aux2.sam
delete mode 100644 htslib/test/xx#minimal.sam
delete mode 100644 htslib/test/xx#pair.sam
delete mode 100644 htslib/test/xx#rg.sam
delete mode 100644 htslib/test/xx#triplet.sam
delete mode 100644 htslib/test/xx#unsorted.sam
delete mode 100644 htslib/test/xx.fa
delete mode 100644 htslib/test/xx.fa.fai
delete mode 100644 htslib/vcf.5
delete mode 100755 install-CGAT-tools.sh
create mode 100644 pysam.egg-info/PKG-INFO
create mode 100644 pysam.egg-info/SOURCES.txt
create mode 100644 pysam.egg-info/dependency_links.txt
create mode 100644 pysam.egg-info/not-zip-safe
create mode 100644 pysam.egg-info/top_level.txt
create mode 100644 pysam/TabProxies.c
delete mode 100644 pysam/VCF.py.obsolete
delete mode 100644 pysam/alternatives.py.obsolete
create mode 100644 pysam/calignmentfile.c
create mode 100644 pysam/cfaidx.c
create mode 100644 pysam/chtslib.c
create mode 100644 pysam/csamfile.c
create mode 100644 pysam/csamtools.c
create mode 100644 pysam/ctabix.c
create mode 100644 pysam/cvcf.c
delete mode 100644 requires.txt
delete mode 100644 samtools/bam.c
delete mode 100644 samtools/bam2bcf.c
delete mode 100644 samtools/bam2bcf_indel.c
delete mode 100644 samtools/bam2depth.c
delete mode 100644 samtools/bam_aux.c
delete mode 100644 samtools/bam_cat.c
delete mode 100644 samtools/bam_color.c
delete mode 100644 samtools/bam_flags.c
delete mode 100644 samtools/bam_import.c
delete mode 100644 samtools/bam_index.c
delete mode 100644 samtools/bam_lpileup.c
delete mode 100644 samtools/bam_mate.c
delete mode 100644 samtools/bam_md.c
delete mode 100644 samtools/bam_plbuf.c
delete mode 100644 samtools/bam_plcmd.c
delete mode 100644 samtools/bam_reheader.c
delete mode 100644 samtools/bam_rmdup.c
delete mode 100644 samtools/bam_rmdupse.c
delete mode 100644 samtools/bam_sort.c
delete mode 100644 samtools/bam_split.c
delete mode 100644 samtools/bam_stat.c
delete mode 100644 samtools/bam_tview.c
delete mode 100644 samtools/bam_tview_curses.c
delete mode 100644 samtools/bam_tview_html.c
delete mode 100644 samtools/bamshuf.c
delete mode 100644 samtools/bedcov.c
delete mode 100644 samtools/bedidx.c
delete mode 100644 samtools/cut_target.c
delete mode 100644 samtools/errmod.c
delete mode 100644 samtools/faidx.c
delete mode 100644 samtools/kaln.c
delete mode 100644 samtools/misc/ace2sam.c
delete mode 100644 samtools/misc/md5.c
delete mode 100644 samtools/padding.c
delete mode 100644 samtools/phase.c
delete mode 100644 samtools/sam.c
delete mode 100644 samtools/sam_header.c
delete mode 100644 samtools/sam_view.c
delete mode 100644 samtools/sample.c
delete mode 100644 samtools/stats.c
delete mode 100644 samtools/stats_isize.c
delete mode 100644 samtools/test/merge/test_bam_translate.c
delete mode 100644 samtools/test/merge/test_bam_translate.c.pysam.c
delete mode 100644 samtools/test/merge/test_pretty_header.c
delete mode 100644 samtools/test/merge/test_pretty_header.c.pysam.c
delete mode 100644 samtools/test/merge/test_rtrans_build.c
delete mode 100644 samtools/test/merge/test_rtrans_build.c.pysam.c
delete mode 100644 samtools/test/merge/test_trans_tbl_init.c
delete mode 100644 samtools/test/merge/test_trans_tbl_init.c.pysam.c
delete mode 100644 samtools/test/split/test_count_rg.c
delete mode 100644 samtools/test/split/test_count_rg.c.pysam.c
delete mode 100644 samtools/test/split/test_expand_format_string.c
delete mode 100644 samtools/test/split/test_expand_format_string.c.pysam.c
delete mode 100644 samtools/test/split/test_filter_header_rg.c
delete mode 100644 samtools/test/split/test_filter_header_rg.c.pysam.c
delete mode 100644 samtools/test/split/test_parse_args.c
delete mode 100644 samtools/test/split/test_parse_args.c.pysam.c
delete mode 100644 samtools/test/test.c
delete mode 100644 samtools/test/tview/test_get_rg_sample.c
delete mode 100644 samtools/test/tview/test_get_rg_sample.c.pysam.c
delete mode 100644 save/example.py
delete mode 100644 save/pysam_bench.py
delete mode 100755 save/pysam_test2.6.py
delete mode 100644 save/pysam_test_stdin.py
delete mode 100644 save/pysam_testpp.py
delete mode 100755 save/segfault_tests.py
delete mode 100644 save/vcf_test.py
delete mode 100644 tests/AlignmentFile_test.py
delete mode 100644 tests/SamFile_test.py
delete mode 100644 tests/TestUtils.py
delete mode 100644 tests/_compile_test.pyx
delete mode 100644 tests/_compile_test.pyxbld
delete mode 100644 tests/_cython_flagstat.pyx
delete mode 100644 tests/_cython_flagstat.pyxbld
delete mode 100644 tests/compile_test.py
delete mode 100644 tests/cython_flagstat.py
delete mode 100644 tests/faidx_test.py
delete mode 100644 tests/pysam_data/Makefile
delete mode 100644 tests/pysam_data/ex1.bed
delete mode 100644 tests/pysam_data/ex1.fa
delete mode 100644 tests/pysam_data/ex1.fq
delete mode 100644 tests/pysam_data/ex1.sam.gz
delete mode 100644 tests/pysam_data/ex10.sam
delete mode 100644 tests/pysam_data/ex3.sam
delete mode 100644 tests/pysam_data/ex4.sam
delete mode 100644 tests/pysam_data/ex5.sam
delete mode 100644 tests/pysam_data/ex6.sam
delete mode 100644 tests/pysam_data/ex7.sam.donottest
delete mode 100644 tests/pysam_data/ex8.sam
delete mode 100644 tests/pysam_data/ex9_fail.sam
delete mode 100644 tests/pysam_data/ex9_nofail.sam
delete mode 100644 tests/pysam_data/example_btag.sam
delete mode 100644 tests/pysam_data/example_empty_header.sam
delete mode 100644 tests/pysam_data/example_unmapped_reads_no_sq.sam
delete mode 100644 tests/pysam_data/example_user_header.sam
delete mode 100644 tests/pysam_data/issue100.sam
delete mode 100644 tests/pysam_data/rg_with_tab.sam
delete mode 100644 tests/pysam_data/softclip.sam
delete mode 100644 tests/pysam_data/tag_bug.sam
delete mode 100644 tests/pysam_data/test.gtf
delete mode 100644 tests/pysam_data/test.gtf.gz
delete mode 100644 tests/pysam_data/test_unaligned.sam
delete mode 100644 tests/python_flagstat.py
delete mode 100644 tests/refactoring.pl
delete mode 100644 tests/refactoring.txt
delete mode 100644 tests/samtools_test.py
delete mode 100644 tests/tabix_data/example.bed.gz
delete mode 100644 tests/tabix_data/example.bed.gz.tbi
delete mode 100644 tests/tabix_data/example.gtf.gz
delete mode 100644 tests/tabix_data/example.gtf.gz.tbi
delete mode 100644 tests/tabix_data/example.sam.gz
delete mode 100644 tests/tabix_data/example.sam.gz.tbi
delete mode 100644 tests/tabix_data/example.vcf.gz
delete mode 100644 tests/tabix_data/example.vcf.gz.tbi
delete mode 100644 tests/tabix_data/example.vcf40
delete mode 100644 tests/tabix_data/example_badcomments.bed.gz
delete mode 100644 tests/tabix_data/example_badcomments.bed.gz.tbi
delete mode 100644 tests/tabix_data/example_badcomments.gtf.gz
delete mode 100644 tests/tabix_data/example_badcomments.gtf.gz.tbi
delete mode 100644 tests/tabix_data/example_badcomments.sam.gz
delete mode 100644 tests/tabix_data/example_badcomments.sam.gz.tbi
delete mode 100644 tests/tabix_data/example_badcomments.vcf.gz
delete mode 100644 tests/tabix_data/example_badcomments.vcf.gz.tbi
delete mode 100644 tests/tabix_data/example_comments.bed.gz
delete mode 100644 tests/tabix_data/example_comments.bed.gz.tbi
delete mode 100644 tests/tabix_data/example_comments.gtf.gz
delete mode 100644 tests/tabix_data/example_comments.gtf.gz.tbi
delete mode 100644 tests/tabix_data/example_comments.sam.gz
delete mode 100644 tests/tabix_data/example_comments.sam.gz.tbi
delete mode 100644 tests/tabix_data/example_comments.vcf.gz
delete mode 100644 tests/tabix_data/example_comments.vcf.gz.tbi
delete mode 100644 tests/tabix_data/example_unicode.vcf
delete mode 100644 tests/tabix_data/gtf_toofew_fields.gtf.gz
delete mode 100644 tests/tabix_data/gtf_toomany_fields.gtf.gz
delete mode 100644 tests/tabix_data/gtf_wrong_fields.gtf.gz
delete mode 100644 tests/tabix_data/vcf/10.vcf
delete mode 100644 tests/tabix_data/vcf/11.vcf
delete mode 100644 tests/tabix_data/vcf/12.vcf
delete mode 100644 tests/tabix_data/vcf/13.vcf
delete mode 100644 tests/tabix_data/vcf/15.vcf
delete mode 100644 tests/tabix_data/vcf/16.vcf
delete mode 100644 tests/tabix_data/vcf/18.vcf
delete mode 100644 tests/tabix_data/vcf/2.vcf
delete mode 100644 tests/tabix_data/vcf/20.vcf
delete mode 100644 tests/tabix_data/vcf/21.vcf
delete mode 100644 tests/tabix_data/vcf/22.vcf
delete mode 100644 tests/tabix_data/vcf/23.vcf
delete mode 100644 tests/tabix_data/vcf/24.vcf
delete mode 100644 tests/tabix_data/vcf/3.vcf
delete mode 100644 tests/tabix_data/vcf/4.vcf
delete mode 100644 tests/tabix_data/vcf/5.vcf
delete mode 100644 tests/tabix_data/vcf/6.vcf
delete mode 100644 tests/tabix_data/vcf/7.vcf
delete mode 100644 tests/tabix_data/vcf/8.vcf
delete mode 100644 tests/tabix_data/vcf/9.vcf
delete mode 100644 tests/tabix_data/vcf/README.txt
delete mode 100644 tests/tabix_data/vcf/issue85.vcf
delete mode 100644 tests/tabix_test.py
delete mode 100644 win32/getopt.c
delete mode 100644 win32/getopt.h
delete mode 100644 win32/stdint.h
delete mode 100644 win32/unistd.h
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/python-pysam.git
More information about the debian-med-commit
mailing list