This is an automated email from the git hooks/post-receive script. plessy pushed a commit to branch debian/unstable in repository samtools.
commit b8eb378e52259ab39060578a2336a46f5234fc9b Author: Charles Plessy <[email protected]> Date: Thu Aug 21 08:31:10 2014 +0900 Drop patch for file that was dropped. --- debian/patches/fix_example_makefile.patch | 38 ------------------------------- 1 file changed, 38 deletions(-) diff --git a/debian/patches/fix_example_makefile.patch b/debian/patches/fix_example_makefile.patch deleted file mode 100644 index d3db4aa..0000000 --- a/debian/patches/fix_example_makefile.patch +++ /dev/null @@ -1,38 +0,0 @@ -Description: disable samtools pileup commands in the example tests. - ‘samtools pileup’ has been dropped in version 0.1.17. -Forwarded: [email protected] -Origin: vendor - -Index: samtools/examples/Makefile -=================================================================== ---- samtools.orig/examples/Makefile -+++ samtools/examples/Makefile -@@ -1,5 +1,5 @@ - all:../libbam.a ../samtools ../bcftools/bcftools \ -- ex1.glf ex1.pileup.gz ex1.bam.bai ex1f-rmduppe.bam ex1f-rmdupse.bam ex1.glfview.gz ex1.bcf calDepth -+ ex1.bam.bai ex1f-rmduppe.bam ex1f-rmdupse.bam ex1.bcf calDepth - @echo; echo \# You can now launch the viewer with: \'samtools tview ex1.bam ex1.fa\'; echo; - - ex1.fa.fai:ex1.fa -@@ -8,12 +8,6 @@ - ../samtools import ex1.fa.fai ex1.sam.gz ex1.bam - ex1.bam.bai:ex1.bam - ../samtools index ex1.bam --ex1.pileup.gz:ex1.bam ex1.fa -- ../samtools pileup -cf ex1.fa ex1.bam | gzip > ex1.pileup.gz --ex1.glf:ex1.bam ex1.fa -- ../samtools pileup -gf ex1.fa ex1.bam > ex1.glf --ex1.glfview.gz:ex1.glf -- ../samtools glfview ex1.glf | gzip > ex1.glfview.gz - ex1a.bam:ex1.bam - ../samtools view -h ex1.bam | awk 'BEGIN{FS=OFS="\t"}{if(/^@/)print;else{$$1=$$1"a";print}}' | ../samtools view -bS - > $@ - ex1b.bam:ex1.bam -@@ -40,7 +34,7 @@ - (cd ..; make libbam.a) - - calDepth:../libbam.a calDepth.c -- gcc -g -Wall -O2 -I.. calDepth.c -o $@ -L.. -lbam -lm -lz -+ gcc -g -Wall -O2 -I.. calDepth.c -o $@ -L.. -lbam -lm -lz -lpthread - - clean: - rm -fr *.bam *.bai *.glf* *.fai *.pileup* *~ calDepth *.dSYM ex1*.rg ex1.bcf -- 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
