[med-svn] r17532 - in trunk/packages/prodigal/trunk: . debian
Olivier Sallou
osallou at moszumanska.debian.org
Mon Jul 28 14:23:28 UTC 2014
Author: osallou
Date: 2014-07-28 14:23:28 +0000 (Mon, 28 Jul 2014)
New Revision: 17532
Added:
trunk/packages/prodigal/trunk/debian/
trunk/packages/prodigal/trunk/debian/changelog
trunk/packages/prodigal/trunk/debian/compat
trunk/packages/prodigal/trunk/debian/control
trunk/packages/prodigal/trunk/debian/copyright
trunk/packages/prodigal/trunk/debian/docs
trunk/packages/prodigal/trunk/debian/install
trunk/packages/prodigal/trunk/debian/rules
trunk/packages/prodigal/trunk/debian/watch
Log:
[svn-inject] Applying Debian modifications (2.60-1) to trunk
Property changes on: trunk/packages/prodigal/trunk/debian
___________________________________________________________________
Added: mergeWithUpstream
+ 1
Added: trunk/packages/prodigal/trunk/debian/changelog
===================================================================
--- trunk/packages/prodigal/trunk/debian/changelog (rev 0)
+++ trunk/packages/prodigal/trunk/debian/changelog 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1,5 @@
+prodigal (2.60-1) UNRELEASED; urgency=low
+
+ * Initial release (Closes: #756291).
+
+ -- Olivier Sallou <osallou at debian.org> Mon, 28 Jul 2014 09:21:35 +0200
Added: trunk/packages/prodigal/trunk/debian/compat
===================================================================
--- trunk/packages/prodigal/trunk/debian/compat (rev 0)
+++ trunk/packages/prodigal/trunk/debian/compat 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1 @@
+9
Added: trunk/packages/prodigal/trunk/debian/control
===================================================================
--- trunk/packages/prodigal/trunk/debian/control (rev 0)
+++ trunk/packages/prodigal/trunk/debian/control 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1,28 @@
+Source: prodigal
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Olivier Sallou <osallou at debian.org>,
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/prodigal/trunk/
+Vcs-Browser: http://anonscm.debian.org/svn/debian-med/trunk/packages/prodigal/trunk/
+Homepage: http://prodigal.ornl.gov/
+Build-Depends: debhelper (>= 9)
+Standards-Version: 3.9.5
+
+Package: prodigal
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: Microbial (bacterial and archaeal) gene finding program
+ Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program developed at Oak Ridge National Laboratory and the University of Tennessee. Key features of Prodigal include:
+ .
+ Speed: Prodigal is an extremely fast gene recognition tool (written in very vanilla C). It can analyze an entire microbial genome in 30 seconds or less.
+ .
+ Accuracy: Prodigal is a highly accurate gene finder. It correctly locates the 3' end of every gene in the experimentally verified Ecogene data set (except those containing introns). It possesses a very sophisticated ribosomal binding site scoring system that enables it to locate the translation initiation site with great accuracy (96% of the 5' ends in the Ecogene data set are located correctly).
+ .
+ Specificity: Prodigal's false positive rate compares favorably with other gene identification programs, and usually falls under 5%.
+ .
+ GC-Content Indifferent: Prodigal performs well even in high GC genomes, with over a 90% perfect match (5'+3') to the Pseudomonas aeruginosa curated annotations.
+ .
+ Metagenomic Version: Prodigal can run in metagenomic mode and analyze sequences even when the organism is unknown.
+ .
+ Ease of Use: Prodigal can be run in one step on a single genomic sequence or on a draft genome containing many sequences. It does not need to be supplied with any knowledge of the organism, as it learns all the properties it needs to on its own.
Added: trunk/packages/prodigal/trunk/debian/copyright
===================================================================
--- trunk/packages/prodigal/trunk/debian/copyright (rev 0)
+++ trunk/packages/prodigal/trunk/debian/copyright 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1,30 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: prodigal
+Source: https://code.google.com/p/prodigal/downloads/list
+
+Files: *
+Copyright: 2007-2011 University of Tennessee / UT-Battelle
+ 2007-2011 Doug Hyatt
+License: GPL-3
+
+Files: debian/*
+Copyright: 2014 Olivier Sallou <olivier.sallou at irisa.fr>
+License: GPL-3
+
+License: GPL-3
+ This package 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 3 of the License, or
+ (at your option) any later version.
+ .
+ This package 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/>
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 3 can be found in "/usr/share/common-licenses/GPL-3".
+
Added: trunk/packages/prodigal/trunk/debian/docs
===================================================================
--- trunk/packages/prodigal/trunk/debian/docs (rev 0)
+++ trunk/packages/prodigal/trunk/debian/docs 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1,2 @@
+CHANGES
+README
Added: trunk/packages/prodigal/trunk/debian/install
===================================================================
--- trunk/packages/prodigal/trunk/debian/install (rev 0)
+++ trunk/packages/prodigal/trunk/debian/install 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1 @@
+prodigal usr/bin/
Added: trunk/packages/prodigal/trunk/debian/rules
===================================================================
--- trunk/packages/prodigal/trunk/debian/rules (rev 0)
+++ trunk/packages/prodigal/trunk/debian/rules 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1,7 @@
+#!/usr/bin/make -f
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+%:
+ dh $@
Property changes on: trunk/packages/prodigal/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/prodigal/trunk/debian/watch
===================================================================
--- trunk/packages/prodigal/trunk/debian/watch (rev 0)
+++ trunk/packages/prodigal/trunk/debian/watch 2014-07-28 14:23:28 UTC (rev 17532)
@@ -0,0 +1,6 @@
+# Compulsory line, this is a version 3 file
+version=3
+
+opts=downloadurlmangle=s/prodigal/Prodigal/\
+ http://code.google.com/p/prodigal/downloads/list //prodigal.googlecode.com/files/[Pp]rodigal-(.*)\.tar.gz
+
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