From 4836a5b9b0b370a259514b52a9321dc1dd19e08d Mon Sep 17 00:00:00 2001 From: Charles Plessy Date: Thu, 3 Sep 2009 19:29:40 +0900 Subject: [PATCH] Imported Debian patch 0.1.5c-2 --- debian/README.Debian | 7 +++++-- debian/changelog | 9 +++++++++ debian/control | 12 ++++++------ debian/rules | 2 ++ 4 files changed, 22 insertions(+), 8 deletions(-) diff --git a/debian/README.Debian b/debian/README.Debian index f852118..431ec29 100644 --- a/debian/README.Debian +++ b/debian/README.Debian @@ -5,6 +5,9 @@ The extra utilities found in the ‘misc’ directory of the upstream archive ar placed in ‘/usr/share/samtools’ and ‘/usr/lib/samtools’ for Perl scripts and binary executables respectively. -Currently, the BAM library only exists in static version. +Currently, the BAM library only exists in static version. It (actually the +whole package) is built with the -fPIC option, to allow the compilation of the +Bio::SamTools Perl module on the amd64 platform (Debian package +libbio-samtools-perl). - -- Charles Plessy Sat, 08 Aug 2009 11:50:09 +0900 + -- Charles Plessy Thu, 03 Sep 2009 19:24:02 +0900 diff --git a/debian/changelog b/debian/changelog index c858785..9aebad2 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,12 @@ +samtools (0.1.5c-2) unstable; urgency=low + + * Rebuilt with -fPIC (debian/rules, README.Debian). + * Small corrections to the description from upstream (debian/changelog). + * Incremented Standards-Version to reflect conformance with Policy 3.8.3 + (no changes needed). + + -- Charles Plessy Thu, 03 Sep 2009 19:29:40 +0900 + samtools (0.1.5c-1) unstable; urgency=low * Initial release (Closes: #540453) diff --git a/debian/control b/debian/control index 0020fc5..acaa75c 100644 --- a/debian/control +++ b/debian/control @@ -5,7 +5,7 @@ Maintainer: Debian-Med Packaging Team Build-Depends: debhelper (>= 7), cdbs, libncurses5-dev, zlib1g-dev -Standards-Version: 3.8.2 +Standards-Version: 3.8.3 Homepage: http://samtools.sourceforge.net Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/samtools/trunk/?rev=0&sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/samtools/trunk/ @@ -15,10 +15,10 @@ Architecture: any Depends: ${shlibs:Depends}, ${misc:Depends} Description: processing sequence alignments in SAM and BAM formats Samtools is a set of utilities that manipulate nucleotide sequence alignments - in the BAM format. It imports from and exports to the SAM (Sequence - Alignment/Map) format, does sorting, merging and indexing, and allows to - retrieve reads in any regions swiftly. It is designed to work on a stream, and - is able to open a BAM (not SAM) file on a remote FTP server. + in the binary BAM format. It imports from and exports to the ascii SAM + (Sequence Alignment/Map) format, does sorting, merging and indexing, and allows + to retrieve reads in any regions swiftly. It is designed to work on a stream, + and is able to open a BAM (not SAM) file on a remote FTP server. Package: libbam-dev Architecture: any @@ -27,6 +27,6 @@ Depends: ${shlibs:Depends}, ${misc:Depends} Description: manipulates nucleotide sequence alignments in BAM or SAM format The BAM library provides I/O and various operations on manipulating nucleotide sequence alignments in the BAM (Binary Alignment/Mapping) or SAM (Sequence - Alignment/Map) format. It now supports importing from or exporting to TAM, + Alignment/Map) format. It now supports importing from or exporting to SAM, sorting, merging, generating pileup, and quickly retrieval of reads overlapped with a specified region. diff --git a/debian/rules b/debian/rules index 451ca81..ee5c351 100755 --- a/debian/rules +++ b/debian/rules @@ -3,5 +3,7 @@ include /usr/share/cdbs/1/rules/debhelper.mk include /usr/share/cdbs/1/class/makefile.mk +CFLAGS += -fPIC + DEB_MAKE_BUILD_TARGET = all all-recur razip lib DEB_MAKE_CHECK_TARGET = -C examples all -- 2.30.2