Author: plessy Date: 2009-07-10 09:38:27 +0000 (Fri, 10 Jul 2009) New Revision: 3603
Added: trunk/packages/samtools/trunk/debian/libbam-dev.install trunk/packages/samtools/trunk/debian/reference trunk/packages/samtools/trunk/debian/samtools-examples.examples trunk/packages/samtools/trunk/debian/samtools.docs trunk/packages/samtools/trunk/debian/samtools.install trunk/packages/samtools/trunk/debian/samtools.manpages Removed: trunk/packages/samtools/trunk/debian/docs trunk/packages/samtools/trunk/debian/install trunk/packages/samtools/trunk/debian/manpages Modified: trunk/packages/samtools/trunk/debian/changelog trunk/packages/samtools/trunk/debian/control trunk/packages/samtools/trunk/debian/copyright trunk/packages/samtools/trunk/debian/rules Log: Added draft example and library-dev packages. Modified: trunk/packages/samtools/trunk/debian/changelog =================================================================== --- trunk/packages/samtools/trunk/debian/changelog 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/changelog 2009-07-10 09:38:27 UTC (rev 3603) @@ -1,4 +1,4 @@ -samtools (0.1.3-1) UNRELEASED; urgency=low +samtools (0.1.5c-1) UNRELEASED; urgency=low Non-free files found; sort out before upload. Modified: trunk/packages/samtools/trunk/debian/control =================================================================== --- trunk/packages/samtools/trunk/debian/control 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/control 2009-07-10 09:38:27 UTC (rev 3603) @@ -5,7 +5,7 @@ DM-Upload-Allowed: yes Uploaders: Charles Plessy <[email protected]> Build-Depends: debhelper (>= 7), cdbs -Standards-Version: 3.8.0 +Standards-Version: 3.8.2 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/ @@ -17,4 +17,16 @@ Samtools is a set of utilities that manipulate 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. + swiftly. + +Package: libbam-dev +Architecture: any +Depends: ${shlibs:Depends}, ${misc:Depends} +Description: libbam + ............ + +Package: samtools-examples +Architecture: all +Depends: ${misc:Depends} +Description: examples + ............. Modified: trunk/packages/samtools/trunk/debian/copyright =================================================================== --- trunk/packages/samtools/trunk/debian/copyright 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/copyright 2009-07-10 09:38:27 UTC (rev 3603) @@ -1,4 +1,11 @@ +Machine-readable license summary, see ‘http://dep.debian.net/deps/dep5/’. +Name : +Contact : +Source : http://downloads.sourceforge.net/sourceforge/samtools/samtools-0.1.5c.tar.bz2 + + + ./bgzf.c: * Broad Institute/Massachusetts Institute of Technology. All rights are reserved. ./bgzip.c: * Broad Institute/Massachusetts Institute of Technology. All rights are reserved. @@ -23,8 +30,3 @@ AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN - -Files: debian/* -Copyright: © 2009, Charles Plessy <[email protected]> and -License: Same as SAMtools - See above. Deleted: trunk/packages/samtools/trunk/debian/docs =================================================================== --- trunk/packages/samtools/trunk/debian/docs 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/docs 2009-07-10 09:38:27 UTC (rev 3603) @@ -1 +0,0 @@ -NEWS Deleted: trunk/packages/samtools/trunk/debian/install =================================================================== --- trunk/packages/samtools/trunk/debian/install 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/install 2009-07-10 09:38:27 UTC (rev 3603) @@ -1,3 +0,0 @@ -bgzip usr/bin -razip usr/bin -samtools usr/bin Added: trunk/packages/samtools/trunk/debian/libbam-dev.install =================================================================== --- trunk/packages/samtools/trunk/debian/libbam-dev.install (rev 0) +++ trunk/packages/samtools/trunk/debian/libbam-dev.install 2009-07-10 09:38:27 UTC (rev 3603) @@ -0,0 +1 @@ +libbam.a usr/lib Deleted: trunk/packages/samtools/trunk/debian/manpages =================================================================== --- trunk/packages/samtools/trunk/debian/manpages 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/manpages 2009-07-10 09:38:27 UTC (rev 3603) @@ -1 +0,0 @@ -samtools.1 Added: trunk/packages/samtools/trunk/debian/reference =================================================================== --- trunk/packages/samtools/trunk/debian/reference (rev 0) +++ trunk/packages/samtools/trunk/debian/reference 2009-07-10 09:38:27 UTC (rev 3603) @@ -0,0 +1,12 @@ +...@article{hengli06082009, +author = {Li, Heng and Handsaker, Bob and Wysoker, Alec and Fennell, Tim and Ruan, Jue and Homer, Nils and Marth, Gabor and Abecasis, Goncalo and Durbin, Richard and 1000 Genome Project Data Processing Subgroup, }, +title = {{The Sequence Alignment/Map (SAM) Format and SAMtools}}, +journal = {Bioinformatics}, +volume = {}, +number = {}, +pages = {btp352}, +doi = {10.1093/bioinformatics/btp352}, +year = {2009}, +URL = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btp352v1}, +eprint = {http://bioinformatics.oxfordjournals.org/cgi/reprint/btp352v1.pdf} +} Modified: trunk/packages/samtools/trunk/debian/rules =================================================================== --- trunk/packages/samtools/trunk/debian/rules 2009-07-09 13:42:46 UTC (rev 3602) +++ trunk/packages/samtools/trunk/debian/rules 2009-07-10 09:38:27 UTC (rev 3603) @@ -3,3 +3,5 @@ include /usr/share/cdbs/1/rules/debhelper.mk include /usr/share/cdbs/1/class/makefile.mk +DEB_MAKE_BUILD_TARGET = all razip lib +DEB_MAKE_CHECK_TARGET = -C examples all Added: trunk/packages/samtools/trunk/debian/samtools-examples.examples =================================================================== --- trunk/packages/samtools/trunk/debian/samtools-examples.examples (rev 0) +++ trunk/packages/samtools/trunk/debian/samtools-examples.examples 2009-07-10 09:38:27 UTC (rev 3603) @@ -0,0 +1,3 @@ +examples/ex1.bam +examples/ex1.fa +examples/00README.txt Copied: trunk/packages/samtools/trunk/debian/samtools.docs (from rev 3602, trunk/packages/samtools/trunk/debian/docs) =================================================================== --- trunk/packages/samtools/trunk/debian/samtools.docs (rev 0) +++ trunk/packages/samtools/trunk/debian/samtools.docs 2009-07-10 09:38:27 UTC (rev 3603) @@ -0,0 +1,2 @@ +debian/reference +NEWS Property changes on: trunk/packages/samtools/trunk/debian/samtools.docs ___________________________________________________________________ Added: svn:mergeinfo + Copied: trunk/packages/samtools/trunk/debian/samtools.install (from rev 3602, trunk/packages/samtools/trunk/debian/install) =================================================================== --- trunk/packages/samtools/trunk/debian/samtools.install (rev 0) +++ trunk/packages/samtools/trunk/debian/samtools.install 2009-07-10 09:38:27 UTC (rev 3603) @@ -0,0 +1,3 @@ +#bgzip usr/bin +razip usr/bin +samtools usr/bin Property changes on: trunk/packages/samtools/trunk/debian/samtools.install ___________________________________________________________________ Added: svn:mergeinfo + Copied: trunk/packages/samtools/trunk/debian/samtools.manpages (from rev 3602, trunk/packages/samtools/trunk/debian/manpages) =================================================================== --- trunk/packages/samtools/trunk/debian/samtools.manpages (rev 0) +++ trunk/packages/samtools/trunk/debian/samtools.manpages 2009-07-10 09:38:27 UTC (rev 3603) @@ -0,0 +1 @@ +samtools.1 Property changes on: trunk/packages/samtools/trunk/debian/samtools.manpages ___________________________________________________________________ Added: svn:mergeinfo + _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
