From 85bb95099e58e20cc03456b7528248f7baed4db4 Mon Sep 17 00:00:00 2001 From: Charles Plessy Date: Mon, 1 Nov 2010 20:05:07 +0900 Subject: [PATCH 1/1] # Install bcftools, its manpage, bcf-fix.pl, vcfutils.pl, and new examples. --- debian/rules | 6 +++++- debian/samtools.examples | 2 ++ debian/samtools.install | 3 +++ 3 files changed, 10 insertions(+), 1 deletion(-) diff --git a/debian/rules b/debian/rules index f5aaa94..40822dd 100755 --- a/debian/rules +++ b/debian/rules @@ -9,7 +9,11 @@ DEB_MAKE_BUILD_TARGET = all all-recur razip lib DEB_MAKE_CHECK_TARGET = -C examples all clean:: - $(RM) examples/calDepth examples/ex1.bam examples/ex1.bam.bai examples/ex1.fa.fai examples/ex1.glf examples/ex1.glfview.gz examples/ex1.pileup.gz examples/ex1a.bam examples/ex1b.bam examples/ex1f-rmduppe.bam examples/ex1f-rmdupse.bam examples/ex1f.bam examples/ex1f.rg + $(RM) examples/calDepth examples/ex1.bam examples/ex1.bam.bai examples/ex1.fa.fai examples/ex1.glf examples/ex1.glfview.gz examples/ex1.pileup.gz examples/ex1a.bam examples/ex1b.bam examples/ex1f-rmduppe.bam examples/ex1f-rmdupse.bam examples/ex1f.bam examples/ex1f.rg examples/ex1.bcf + +binary-install/samtools:: + install -m 644 bcftools/README $(CURDIR)/debian/samtools/usr/share/doc/samtools/README.bcftools + ln -s samtools.1.gz $(CURDIR)/debian/samtools/usr/share/man/man1/bcftools.1.gz binary-fixup/samtools:: sed -i 's|^#!/software/bin/python|#!/usr/bin/python|' $(CURDIR)/debian/samtools/usr/share/samtools/varfilter.py diff --git a/debian/samtools.examples b/debian/samtools.examples index 92114a2..5a25472 100644 --- a/debian/samtools.examples +++ b/debian/samtools.examples @@ -2,3 +2,5 @@ examples/ex1.bam examples/ex1.fa examples/ex1.sam.gz examples/00README.txt +examples/toy.fa +examples/toy.sam diff --git a/debian/samtools.install b/debian/samtools.install index a4bdb28..acf372a 100644 --- a/debian/samtools.install +++ b/debian/samtools.install @@ -1,6 +1,9 @@ #bgzip usr/bin +bcftools/bcftools usr/bin razip usr/bin samtools usr/bin +bcftools/bcf-fix.pl usr/share/samtools +bcftools/vcfutils.pl usr/share/samtools misc/*.pl usr/share/samtools misc/*.py usr/share/samtools misc/wgsim usr/lib/samtools -- 2.30.2