[med-svn] r9648 - in trunk/packages/ssake/tags: . 3.8-2/debian
Charles Plessy
plessy at alioth.debian.org
Sat Feb 11 13:35:04 UTC 2012
Author: plessy
Date: 2012-02-11 13:35:04 +0000 (Sat, 11 Feb 2012)
New Revision: 9648
Added:
trunk/packages/ssake/tags/3.8-2/
trunk/packages/ssake/tags/3.8-2/debian/changelog
trunk/packages/ssake/tags/3.8-2/debian/copyright
trunk/packages/ssake/tags/3.8-2/debian/ssake.docs
trunk/packages/ssake/tags/3.8-2/debian/upstream
Removed:
trunk/packages/ssake/tags/3.8-2/debian/changelog
trunk/packages/ssake/tags/3.8-2/debian/copyright
trunk/packages/ssake/tags/3.8-2/debian/reference
trunk/packages/ssake/tags/3.8-2/debian/ssake.docs
Log:
[svn-buildpackage] Tagging ssake 3.8-2
Deleted: trunk/packages/ssake/tags/3.8-2/debian/changelog
===================================================================
--- trunk/packages/ssake/trunk/debian/changelog 2012-02-10 22:53:56 UTC (rev 9643)
+++ trunk/packages/ssake/tags/3.8-2/debian/changelog 2012-02-11 13:35:04 UTC (rev 9648)
@@ -1,81 +0,0 @@
-ssake (3.8-2) UNRELEASED; urgency=low
-
- [ A. Costa ]
- * Corrected a typo in debian/ssake.1 (Closes: #650469).
-
- [ Charles Plessy ]
- * Depend on libperl4-corelibs-perl | perl (<< 5.12.3-7).
- See Lintian's script-uses-perl4-libs-without-dep tag.
-
- -- Charles Plessy <plessy at debian.org> Wed, 30 Nov 2011 23:19:21 +0900
-
-ssake (3.8-1) unstable; urgency=low
-
- * New upstream version 30% faster than the previous release. Additional
- assembly control has been implemented (-w) that limits the generation of
- low depth of coverage contigs.
- * Use Debhelper 8 (debian/control, debian/compat).
- * Corrected VCS URLs (debian/control).
- * Incremented Standards-Version to indicate conformance with Policy 3.9.2.
- (debian/control, changes needed.)
- * Implement rudimentary regression tests (debian/rules).
-
- -- Charles Plessy <plessy at debian.org> Mon, 15 Aug 2011 14:10:18 +0900
-
-ssake (3.7-1) unstable; urgency=low
-
- * New upstream version
- * Standards-Version: 3.9.1 (no changes needed)
- * debian/rules: reflect upstream renamed testdir
-
- -- Andreas Tille <tille at debian.org> Thu, 25 Nov 2010 15:18:09 +0100
-
-ssake (3.5-1) unstable; urgency=low
-
- * New upstream version
- * debian/source/format: Switched to source format 3.0 (quilt)
- * debian/control:
- - Standards-Version: 3.8.4 (no changes needed)
- * debian/rules
- - fixed cut-n-pasto
-
- -- Andreas Tille <tille at debian.org> Thu, 24 Jun 2010 14:06:08 +0200
-
-ssake (3.4-1) unstable; urgency=low
-
- * New upstream release.
- - Fixed a bug in PET routine. User can now track read position and
- individual base coverage for reads *fully embedded* within contigs,
- using the -c option.
- - Version 3.4 exploits paired-end reads to explore possible contig merges
- within scaffolds (Consecutive contigs >= -z bases must overlap by -m
- bases or more).
- * debian/control:
- - Incremented Standards-Version to indicate conformance with Policy 3.8.2.
- (No changes needed.)
- - Using the Unicode ‘prime’ character for the 3′ direction (cosmetic).
- * Simplified debian/copyright according to latest discussions about the
- machine-readable format.
-
- -- Charles Plessy <plessy at debian.org> Tue, 23 Jun 2009 13:58:49 +0900
-
-ssake (3.2.1-2) unstable; urgency=low
-
- * debian/control:
- - ssake and ssake-exmamples now depend on ${misc:Depends}.
- - ssake-examples suggests ssake instead of depending.
- - Reduced redundancy in the description of ssake.
- - Gave a specific description to ssake-examples.
- * debian/ssake.docs, debian/reference: added BibTeX-formatted reference.
- * debian/copyright:
- - Corrected the identity of the upstream maintainer.
- - Points to the version 2 of the GNU GPL.
- - added myself to the Hall of Fame.
-
- -- Charles Plessy <plessy at debian.org> Sat, 07 Mar 2009 13:42:47 +0900
-
-ssake (3.2.1-1) unstable; urgency=low
-
- * Initial release (Closes: #506752)
-
- -- Andreas Tille <tille at debian.org> Mon, 24 Nov 2008 13:12:38 +0100
Copied: trunk/packages/ssake/tags/3.8-2/debian/changelog (from rev 9647, trunk/packages/ssake/trunk/debian/changelog)
===================================================================
--- trunk/packages/ssake/tags/3.8-2/debian/changelog (rev 0)
+++ trunk/packages/ssake/tags/3.8-2/debian/changelog 2012-02-11 13:35:04 UTC (rev 9648)
@@ -0,0 +1,81 @@
+ssake (3.8-2) unstable; urgency=low
+
+ [ A. Costa ]
+ * Corrected a typo in debian/ssake.1 (Closes: #650469).
+
+ [ Charles Plessy ]
+ * Depend on libperl4-corelibs-perl | perl (<< 5.12.3-7).
+ Closes: #659428.
+
+ -- Charles Plessy <plessy at debian.org> Sat, 11 Feb 2012 22:13:43 +0900
+
+ssake (3.8-1) unstable; urgency=low
+
+ * New upstream version 30% faster than the previous release. Additional
+ assembly control has been implemented (-w) that limits the generation of
+ low depth of coverage contigs.
+ * Use Debhelper 8 (debian/control, debian/compat).
+ * Corrected VCS URLs (debian/control).
+ * Incremented Standards-Version to indicate conformance with Policy 3.9.2.
+ (debian/control, changes needed.)
+ * Implement rudimentary regression tests (debian/rules).
+
+ -- Charles Plessy <plessy at debian.org> Mon, 15 Aug 2011 14:10:18 +0900
+
+ssake (3.7-1) unstable; urgency=low
+
+ * New upstream version
+ * Standards-Version: 3.9.1 (no changes needed)
+ * debian/rules: reflect upstream renamed testdir
+
+ -- Andreas Tille <tille at debian.org> Thu, 25 Nov 2010 15:18:09 +0100
+
+ssake (3.5-1) unstable; urgency=low
+
+ * New upstream version
+ * debian/source/format: Switched to source format 3.0 (quilt)
+ * debian/control:
+ - Standards-Version: 3.8.4 (no changes needed)
+ * debian/rules
+ - fixed cut-n-pasto
+
+ -- Andreas Tille <tille at debian.org> Thu, 24 Jun 2010 14:06:08 +0200
+
+ssake (3.4-1) unstable; urgency=low
+
+ * New upstream release.
+ - Fixed a bug in PET routine. User can now track read position and
+ individual base coverage for reads *fully embedded* within contigs,
+ using the -c option.
+ - Version 3.4 exploits paired-end reads to explore possible contig merges
+ within scaffolds (Consecutive contigs >= -z bases must overlap by -m
+ bases or more).
+ * debian/control:
+ - Incremented Standards-Version to indicate conformance with Policy 3.8.2.
+ (No changes needed.)
+ - Using the Unicode ‘prime’ character for the 3′ direction (cosmetic).
+ * Simplified debian/copyright according to latest discussions about the
+ machine-readable format.
+
+ -- Charles Plessy <plessy at debian.org> Tue, 23 Jun 2009 13:58:49 +0900
+
+ssake (3.2.1-2) unstable; urgency=low
+
+ * debian/control:
+ - ssake and ssake-exmamples now depend on ${misc:Depends}.
+ - ssake-examples suggests ssake instead of depending.
+ - Reduced redundancy in the description of ssake.
+ - Gave a specific description to ssake-examples.
+ * debian/ssake.docs, debian/reference: added BibTeX-formatted reference.
+ * debian/copyright:
+ - Corrected the identity of the upstream maintainer.
+ - Points to the version 2 of the GNU GPL.
+ - added myself to the Hall of Fame.
+
+ -- Charles Plessy <plessy at debian.org> Sat, 07 Mar 2009 13:42:47 +0900
+
+ssake (3.2.1-1) unstable; urgency=low
+
+ * Initial release (Closes: #506752)
+
+ -- Andreas Tille <tille at debian.org> Mon, 24 Nov 2008 13:12:38 +0100
Deleted: trunk/packages/ssake/tags/3.8-2/debian/copyright
===================================================================
--- trunk/packages/ssake/trunk/debian/copyright 2012-02-10 22:53:56 UTC (rev 9643)
+++ trunk/packages/ssake/tags/3.8-2/debian/copyright 2012-02-11 13:35:04 UTC (rev 9648)
@@ -1,28 +0,0 @@
-Format: http://dep.debian.net/deps/dep5/
-Source: http://www.bcgsc.ca/platform/bioinfo/software/ssake/releases/3.8/ssake_v3-8-tar.gz
-
-Files: *
-Copyright: © 2006-2011 Canada's Michael Smith Genome Science Centre
- © 2006–2011 Rene Warren <rwarren at bcgsc.ca>
-License: GPL-2+
- 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/>.
-Comment: On Debian systems, the complete text of the GNU Public License version 2
- can be found in ‘/usr/share/common-licenses/GPL-2’.
-
-Files: debian/*
-Copyright: © 2008 Andreas Tille <tille at debian.org>
- © 2009 Charles Plessy <plessy at debian.org>
-License: Same-as-SSAKE-itelf
- (see above)
-
Copied: trunk/packages/ssake/tags/3.8-2/debian/copyright (from rev 9644, trunk/packages/ssake/trunk/debian/copyright)
===================================================================
--- trunk/packages/ssake/tags/3.8-2/debian/copyright (rev 0)
+++ trunk/packages/ssake/tags/3.8-2/debian/copyright 2012-02-11 13:35:04 UTC (rev 9648)
@@ -0,0 +1,28 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Source: http://www.bcgsc.ca/platform/bioinfo/software/ssake/releases/3.8/ssake_v3-8-tar.gz
+
+Files: *
+Copyright: © 2006-2011 Canada's Michael Smith Genome Science Centre
+ © 2006–2011 Rene Warren <rwarren at bcgsc.ca>
+License: GPL-2+
+ 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/>.
+Comment: On Debian systems, the complete text of the GNU General Public
+ License version 2 can be found in ‘/usr/share/common-licenses/GPL-2’.
+
+Files: debian/*
+Copyright: © 2008 Andreas Tille <tille at debian.org>
+ © 2009 Charles Plessy <plessy at debian.org>
+License: Same-as-SSAKE-itelf
+ (see above)
+
Deleted: trunk/packages/ssake/tags/3.8-2/debian/reference
===================================================================
--- trunk/packages/ssake/trunk/debian/reference 2012-02-10 22:53:56 UTC (rev 9643)
+++ trunk/packages/ssake/tags/3.8-2/debian/reference 2012-02-11 13:35:04 UTC (rev 9648)
@@ -1,13 +0,0 @@
- at article{ReneL. Warren02152007,
-author = {Warren, Rene L. and Sutton, Granger G. and Jones, Steven J. M. and Holt, Robert A.},
-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/abstract/23/4/500},
-eprint = {http://bioinformatics.oxfordjournals.org/cgi/reprint/23/4/500.pdf}
-}
-
Deleted: trunk/packages/ssake/tags/3.8-2/debian/ssake.docs
===================================================================
--- trunk/packages/ssake/trunk/debian/ssake.docs 2012-02-10 22:53:56 UTC (rev 9643)
+++ trunk/packages/ssake/tags/3.8-2/debian/ssake.docs 2012-02-11 13:35:04 UTC (rev 9648)
@@ -1,3 +0,0 @@
-SSAKE.readme
-tools/TQS.readme
-debian/reference
Copied: trunk/packages/ssake/tags/3.8-2/debian/ssake.docs (from rev 9646, trunk/packages/ssake/trunk/debian/ssake.docs)
===================================================================
--- trunk/packages/ssake/tags/3.8-2/debian/ssake.docs (rev 0)
+++ trunk/packages/ssake/tags/3.8-2/debian/ssake.docs 2012-02-11 13:35:04 UTC (rev 9648)
@@ -0,0 +1,2 @@
+SSAKE.readme
+tools/TQS.readme
Copied: trunk/packages/ssake/tags/3.8-2/debian/upstream (from rev 9645, trunk/packages/ssake/trunk/debian/upstream)
===================================================================
--- trunk/packages/ssake/tags/3.8-2/debian/upstream (rev 0)
+++ trunk/packages/ssake/tags/3.8-2/debian/upstream 2012-02-11 13:35:04 UTC (rev 9648)
@@ -0,0 +1,19 @@
+Homepage: http://www.bcgsc.ca/platform/bioinfo/software/ssake
+Name: SSAKE
+Reference:
+ author: Warren, Rene L. and Sutton, Granger G. and Jones, Steven J. M. and Holt, Robert A.
+ title: Assembling millions of short DNA sequences using SSAKE
+ journal: Bioinformatics
+ volume: 23
+ number: 4
+ pages: 500-501
+ doi: 10.1093/bioinformatics/btl629
+ PMID: 17158514
+ year: 2007
+ URL: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/23/4/500
+ eprint: http://bioinformatics.oxfordjournals.org/cgi/reprint/23/4/500.pdf
+Watch: |
+ 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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