This is an automated email from the git hooks/post-receive script. plessy pushed a commit to branch debian/unstable in repository samtools.
commit c1e1fa1ac5d8d2333d21a9be93f1f1103ab6174c Author: Petr Danecek <[email protected]> Date: Thu Nov 28 12:39:37 2013 +0000 On behalf of Peter Chines, test that filter mask replaces (not just adds to) default mask --- test/dat/mpileup.out.3 | 11 +++++++++++ test/test.pl | 2 ++ 2 files changed, 13 insertions(+) diff --git a/test/dat/mpileup.out.3 b/test/dat/mpileup.out.3 new file mode 100644 index 0000000..2884f63 --- /dev/null +++ b/test/dat/mpileup.out.3 @@ -0,0 +1,11 @@ +17 1050 A 6 .$..... DGIKIF +17 1051 A 5 ..... HFJHD +17 1052 A 5 ..... BIKJB +17 1053 A 5 ..... GFJGB +17 1054 C 5 ..... I@JHB +17 1055 C 7 .....^].^]. HKNK9@A +17 1056 C 7 ....... HKMK7A@ +17 1057 T 7 ....... JDKJDGF +17 1058 G 7 ....... HHLKHIH +17 1059 T 7 ....... EHII?EE +17 1060 C 7 ....... JJJI=GH diff --git a/test/test.pl b/test/test.pl index ef12262..003adcf 100755 --- a/test/test.pl +++ b/test/test.pl @@ -329,5 +329,7 @@ sub test_mpileup # print "$$opts{bin}samtools mpileup -gb $$opts{tmp}/mpileup.list -f $$opts{tmp}/$args{ref}.gz > $$opts{tmp}/mpileup.bcf\n"; test_cmd($opts,out=>'dat/mpileup.out.1',cmd=>"$$opts{bin}/samtools mpileup -b $$opts{tmp}/mpileup.list -f $$opts{tmp}/mpileup.ref.fa.gz -r17:100-150 2>/dev/null"); test_cmd($opts,out=>'dat/mpileup.out.2',cmd=>"$$opts{bin}/samtools mpileup -uvDV -b $$opts{tmp}/mpileup.list -f $$opts{tmp}/mpileup.ref.fa.gz -r17:100-600 2>/dev/null| grep -v ^##samtools | grep -v ^##ref"); + # test that filter mask replaces (not just adds to) default mask + test_cmd($opts,out=>'dat/mpileup.out.3',cmd=>"$$opts{bin}/samtools mpileup -B --ff 0x14 -f $$opts{tmp}/mpileup.ref.fa.gz -r17:1050-1060 $$opts{tmp}/mpileup.1.bam 2>/dev/null | grep -v mpileup"); } -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/samtools.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
