[med-svn] r19912 - trunk/packages/sortmerna/trunk/debian

[Andreas Tille]

Author: tille
Date: 2015-08-11 09:12:10 +0000 (Tue, 11 Aug 2015)
New Revision: 19912

Added:
   trunk/packages/sortmerna/trunk/debian/doc-base
   trunk/packages/sortmerna/trunk/debian/lintian-overrides
Modified:
   trunk/packages/sortmerna/trunk/debian/changelog
   trunk/packages/sortmerna/trunk/debian/copyright
   trunk/packages/sortmerna/trunk/debian/rules
Log:
Upload to new


Modified: trunk/packages/sortmerna/trunk/debian/changelog
===================================================================
--- trunk/packages/sortmerna/trunk/debian/changelog	2015-08-09 07:53:57 UTC (rev 19911)
+++ trunk/packages/sortmerna/trunk/debian/changelog	2015-08-11 09:12:10 UTC (rev 19912)
@@ -1,4 +1,4 @@
-sortmerna (2.0-1) UNRELEASED; urgency=medium
+sortmerna (2.0-1) unstable; urgency=medium
 
   * Initial upload to Debian (Closes: #794607)
 

Modified: trunk/packages/sortmerna/trunk/debian/copyright
===================================================================
--- trunk/packages/sortmerna/trunk/debian/copyright	2015-08-09 07:53:57 UTC (rev 19911)
+++ trunk/packages/sortmerna/trunk/debian/copyright	2015-08-11 09:12:10 UTC (rev 19912)
@@ -46,20 +46,6 @@
            2015 Andreas Tille <tille at debian.org>
 License: LGPL-3+
 
-License: LGPL-3+
- SortMeRNA is free software: you can redistribute it and/or modify
- it under the terms of the GNU Lesser General Public License as published by
- the Free Software Foundation, either version 3 of the License, or
- (at your option) any later version.
- .
- SortMeRNA 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 Lesser General Public License for more details.
- .
- On Debian systems you can find a copy of the GNU Lesser General
- Public License in /usr/share/common-licenses/LGPL.
-
 Files: src/ssw.c
 Copyright: 2012-1015 Boston College.
            Mengyao Zhao <zhangmp at bc.edu>
@@ -83,3 +69,18 @@
    ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
    CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
    SOFTWARE.
+
+License: LGPL-3+
+ SortMeRNA is free software: you can redistribute it and/or modify
+ it under the terms of the GNU Lesser General Public License as published by
+ the Free Software Foundation, either version 3 of the License, or
+ (at your option) any later version.
+ .
+ SortMeRNA 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 Lesser General Public License for more details.
+ .
+ On Debian systems you can find a copy of the GNU Lesser General
+ Public License in /usr/share/common-licenses/LGPL.
+

Added: trunk/packages/sortmerna/trunk/debian/doc-base
===================================================================
--- trunk/packages/sortmerna/trunk/debian/doc-base	                        (rev 0)
+++ trunk/packages/sortmerna/trunk/debian/doc-base	2015-08-11 09:12:10 UTC (rev 19912)
@@ -0,0 +1,20 @@
+Document: sortmerna
+Title: SortMeRNA User Manual
+Author: Evguenia Kopylova <jenya.kopylov at gmail.com>
+Abstract: tool for filtering, mapping and OTU-picking NGS reads
+ SortMeRNA is a biological sequence analysis tool for filtering, mapping and
+ OTU-picking NGS reads. The core algorithm is based on approximate seeds and
+ allows for fast and sensitive analyses of nucleotide sequences. The main
+ application of SortMeRNA is filtering rRNA from metatranscriptomic data.
+ Additional applications include OTU-picking and taxonomy assignation available
+ through QIIME v1.9+ (http://qiime.org - v1.9.0-rc1).
+ SortMeRNA takes as input a file of reads (fasta or fastq format) and one or
+ multiple rRNA database file(s), and sorts apart rRNA and rejected reads into
+ two files specified by the user. Optionally, it can provide high quality local
+ alignments of rRNA reads against the rRNA database. SortMeRNA works with
+ Illumina, 454, Ion Torrent and PacBio data, and can produce SAM and
+ BLAST-like alignments.
+Section: Science/Biology
+
+Format: pdf
+Files: /usr/share/doc/sortmerna/SortMeRNA-User-Manual-2.0.pdf

Added: trunk/packages/sortmerna/trunk/debian/lintian-overrides
===================================================================
--- trunk/packages/sortmerna/trunk/debian/lintian-overrides	                        (rev 0)
+++ trunk/packages/sortmerna/trunk/debian/lintian-overrides	2015-08-11 09:12:10 UTC (rev 19912)
@@ -0,0 +1,2 @@
+# no intend to change the original copyright text
+sortmerna: spelling-error-in-copyright offical official

Modified: trunk/packages/sortmerna/trunk/debian/rules
===================================================================
--- trunk/packages/sortmerna/trunk/debian/rules	2015-08-09 07:53:57 UTC (rev 19911)
+++ trunk/packages/sortmerna/trunk/debian/rules	2015-08-11 09:12:10 UTC (rev 19912)
@@ -35,3 +35,6 @@
 	dh_fixperms
 	find debian/sortmerna -name '*.sh' -exec chmod +x '{}' ';'
 	find debian/sortmerna -name '*.py' -exec chmod -x '{}' ';'
+
+override_dh_compress:
+	dh_compress --exclude=.pdf