[med-svn] r2727 - in trunk/packages: . ssake ssake/trunk ssake/trunk/debian
tille at alioth.debian.org
tille at alioth.debian.org
Mon Nov 24 12:33:30 UTC 2008
Author: tille
Date: 2008-11-24 12:33:30 +0000 (Mon, 24 Nov 2008)
New Revision: 2727
Added:
trunk/packages/ssake/
trunk/packages/ssake/trunk/
trunk/packages/ssake/trunk/debian/
trunk/packages/ssake/trunk/debian/changelog
trunk/packages/ssake/trunk/debian/compat
trunk/packages/ssake/trunk/debian/control
trunk/packages/ssake/trunk/debian/copyright
trunk/packages/ssake/trunk/debian/manpages
trunk/packages/ssake/trunk/debian/reference
trunk/packages/ssake/trunk/debian/rules
trunk/packages/ssake/trunk/debian/ssake.docs
trunk/packages/ssake/trunk/debian/watch
Log:
Add ssake because it is needed here; ITP will follow
Added: trunk/packages/ssake/trunk/debian/changelog
===================================================================
--- trunk/packages/ssake/trunk/debian/changelog (rev 0)
+++ trunk/packages/ssake/trunk/debian/changelog 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1,5 @@
+ssake (3.2.1-1) unstable; urgency=low
+
+ * Initial release (Closes: #???)
+
+ -- Andreas Tille <tille at debian.org> Mon, 24 Nov 2008 13:12:38 +0100
Added: trunk/packages/ssake/trunk/debian/compat
===================================================================
--- trunk/packages/ssake/trunk/debian/compat (rev 0)
+++ trunk/packages/ssake/trunk/debian/compat 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1 @@
+7
Added: trunk/packages/ssake/trunk/debian/control
===================================================================
--- trunk/packages/ssake/trunk/debian/control (rev 0)
+++ trunk/packages/ssake/trunk/debian/control 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1,40 @@
+Source: ssake
+Section: science
+Priority: optional
+Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+DM-Upload-Allowed: yes
+Uploaders: Andreas Tille <tille at debian.org>,
+ Charles Plessy <plessy at debian.org>
+Build-Depends: cdbs, debhelper (>= 7)
+Standards-Version: 3.8.0
+Homepage: http://www.bcgsc.ca/platform/bioinfo/software/ssake
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/ssake/trunk/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/ssake/trunk/
+
+Package: ssake
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: assembling millions of very short DNA sequences
+ SSAKE is a genomics application for assembling millions of very short DNA sequences.
+ .
+ The Short Sequence Assembly by K-mer search and 3' read Extension (SSAKE) is a
+ genomics application for aggressively assembling millions of short nucleotide
+ sequences by progressively searching for perfect 3'-most k-mers using a DNA prefix
+ tree. SSAKE is designed to help leverage the information from short sequences reads
+ by stringently clustering them into contigs that can be used to characterize novel
+ sequencing targets.
+
+Package: ssake-examples
+Architecture: any
+Depends: ssake
+Description: assembling millions of very short DNA sequences
+ SSAKE is a genomics application for assembling millions of very short DNA sequences.
+ .
+ The Short Sequence Assembly by K-mer search and 3' read Extension (SSAKE) is a
+ genomics application for aggressively assembling millions of short nucleotide
+ sequences by progressively searching for perfect 3'-most k-mers using a DNA prefix
+ tree. SSAKE is designed to help leverage the information from short sequences reads
+ by stringently clustering them into contigs that can be used to characterize novel
+ sequencing targets.
+ .
+ This package contains test sequences provided by upstream.
Added: trunk/packages/ssake/trunk/debian/copyright
===================================================================
--- trunk/packages/ssake/trunk/debian/copyright (rev 0)
+++ trunk/packages/ssake/trunk/debian/copyright 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1,28 @@
+Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat
+Upstream-Author: Heng Li <lh3 at sanger.ac.uk>
+Packaged-By: Andreas Tille <tille at debian.org>
+Packaged-Date: Mon, 24 Nov 2008 13:12:38 +0100
+Upstream-Source: http://www.bcgsc.ca/platform/bioinfo/software/ssake
+
+Files: *
+License: GPL2+
+Copyright: © 2003-2008 Heng Li <lh3 at sanger.ac.uk>
+ This program is free software: you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation, either version 2 of the License, or
+ (at your option) any later version.
+ .
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>.
+X-Comment: On Debian systems, the complete text of the GNU Public
+ License can be found in `/usr/share/common-licenses/GPL'.
+
+Files: debian/*
+Copyright: © 2008 Andreas Tille <tille at debian.org>
+License: Same as Ssake itelf
+ (see above)
Added: trunk/packages/ssake/trunk/debian/manpages
===================================================================
--- trunk/packages/ssake/trunk/debian/manpages (rev 0)
+++ trunk/packages/ssake/trunk/debian/manpages 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1 @@
+maq.1
Added: trunk/packages/ssake/trunk/debian/reference
===================================================================
--- trunk/packages/ssake/trunk/debian/reference (rev 0)
+++ trunk/packages/ssake/trunk/debian/reference 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1,12 @@
+ at article{WarrenRene122006,
+author = {René L Warren, Granger G Sutton, Steven JM Jones, Robert A Holt},
+title={{Assembling millions of short DNA sequences using SSAKE}},
+journal = {Bioinformatics},
+volume = {23},
+number = {4},
+pages = {500-501},
+doi = {10.1093/bioinformatics/btl629 },
+year = {2007},
+},
+URL = {http://bioinformatics.oxfordjournals.org/cgi/content/full/23/4/500}
+}
Added: trunk/packages/ssake/trunk/debian/rules
===================================================================
--- trunk/packages/ssake/trunk/debian/rules (rev 0)
+++ trunk/packages/ssake/trunk/debian/rules 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1,6 @@
+#!/usr/bin/make -f
+# debian/rules file for maq
+# (C) Andreas Tille
+# GPL
+
+include /usr/share/cdbs/1/rules/debhelper.mk
Property changes on: trunk/packages/ssake/trunk/debian/rules
___________________________________________________________________
Name: svn:executable
+ *
Added: trunk/packages/ssake/trunk/debian/ssake.docs
===================================================================
--- trunk/packages/ssake/trunk/debian/ssake.docs (rev 0)
+++ trunk/packages/ssake/trunk/debian/ssake.docs 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1 @@
+SSAKE.readme
Added: trunk/packages/ssake/trunk/debian/watch
===================================================================
--- trunk/packages/ssake/trunk/debian/watch (rev 0)
+++ trunk/packages/ssake/trunk/debian/watch 2008-11-24 12:33:30 UTC (rev 2727)
@@ -0,0 +1,4 @@
+version=3
+
+opts="uversionmangle=s/-/\./g" \
+http://www.bcgsc.ca/platform/bioinfo/software/ssake/releases/([\d.]*)/ssake_v([-\d]*)-tar.gz
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