[med-svn] r3153 - trunk/packages/ssake/trunk/debian

plessy at alioth.debian.org plessy at alioth.debian.org
Sat Mar 7 05:28:02 UTC 2009 

Author: plessy
Date: 2009-03-07 05:28:01 +0000 (Sat, 07 Mar 2009)
New Revision: 3153

Modified:
   trunk/packages/ssake/trunk/debian/changelog
   trunk/packages/ssake/trunk/debian/control
   trunk/packages/ssake/trunk/debian/copyright
   trunk/packages/ssake/trunk/debian/reference
   trunk/packages/ssake/trunk/debian/ssake.docs
Log:
Minor revision polishing details and correcting the identity of the upstream maintainer.

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.


Modified: trunk/packages/ssake/trunk/debian/changelog
===================================================================
--- trunk/packages/ssake/trunk/debian/changelog	2009-03-06 15:37:01 UTC (rev 3152)
+++ trunk/packages/ssake/trunk/debian/changelog	2009-03-07 05:28:01 UTC (rev 3153)
@@ -1,3 +1,18 @@
+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)

Modified: trunk/packages/ssake/trunk/debian/control
===================================================================
--- trunk/packages/ssake/trunk/debian/control	2009-03-06 15:37:01 UTC (rev 3152)
+++ trunk/packages/ssake/trunk/debian/control	2009-03-07 05:28:01 UTC (rev 3153)
@@ -13,12 +13,9 @@
 
 Package: ssake
 Architecture: all
-Depends: ${perl:Depends}, python
+Depends: ${misc:Depends}, ${perl:Depends}, python
 Suggests: ssake-examples
-Description: assembling millions of very short DNA sequences
- SSAKE is a genomics application for assembling millions of very short
- DNA sequences.
- .
+Description: 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
@@ -29,17 +26,11 @@
 
 Package: ssake-examples
 Architecture: all
-Depends: ssake
-Description: assembling millions of very short DNA sequences
- SSAKE is a genomics application for assembling millions of very short
- DNA sequences.
+Depends: ${misc:Depends}
+Suggests: ssake
+Description: example data for SSAKE, a genomic assembler of short reads
+ This package contains test sequences for SSAKE, 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.
+ Instructions about how to use the test data can be found in
+ /usr/share/doc/ssake/SSAKE.readme.gz after the package `ssake' is installed.

Modified: trunk/packages/ssake/trunk/debian/copyright
===================================================================
--- trunk/packages/ssake/trunk/debian/copyright	2009-03-06 15:37:01 UTC (rev 3152)
+++ trunk/packages/ssake/trunk/debian/copyright	2009-03-07 05:28:01 UTC (rev 3153)
@@ -1,11 +1,11 @@
 Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat
-Upstream-Author: Heng Li <lh3 at sanger.ac.uk>
+Upstream-Author: Rene Warren <rwarren at bcgsc.ca>
 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
+Upstream-Source: http://www.bcgsc.ca/platform/bioinfo/software/ssake/releases/3.2.1/ssake_v3-2-1-tar.gz
 
 Files: *
-License: GPL2+
+License: GPL-2+
 Copyright: © 2006-2008 Rene Warren <rwarren at bcgsc.ca>
  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
@@ -20,9 +20,10 @@
  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'.
+ License 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)

Modified: trunk/packages/ssake/trunk/debian/reference
===================================================================
--- trunk/packages/ssake/trunk/debian/reference	2009-03-06 15:37:01 UTC (rev 3152)
+++ trunk/packages/ssake/trunk/debian/reference	2009-03-07 05:28:01 UTC (rev 3153)
@@ -1,12 +1,13 @@
- 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}},
+ 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 },
+doi = {10.1093/bioinformatics/btl629},
 year = {2007},
-},
-URL = {http://bioinformatics.oxfordjournals.org/cgi/content/full/23/4/500}
+URL = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/23/4/500},
+eprint = {http://bioinformatics.oxfordjournals.org/cgi/reprint/23/4/500.pdf}
 }
+

Modified: trunk/packages/ssake/trunk/debian/ssake.docs
===================================================================
--- trunk/packages/ssake/trunk/debian/ssake.docs	2009-03-06 15:37:01 UTC (rev 3152)
+++ trunk/packages/ssake/trunk/debian/ssake.docs	2009-03-07 05:28:01 UTC (rev 3153)
@@ -1,2 +1,3 @@
 SSAKE.readme
 tools/TQS.readme
+debian/reference

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