[med-svn] [sortmerna] 10/14: Upload to new

[Andreas Tille]

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tille pushed a commit to branch master
in repository sortmerna.

commit 0175117500e241e3c9167a6679b88d2452680713
Author: Andreas Tille <tille at debian.org>
Date:   Tue Aug 11 09:12:10 2015 +0000

    Upload to new
---
 debian/changelog         |  2 +-
 debian/copyright         | 29 +++++++++++++++--------------
 debian/doc-base          | 20 ++++++++++++++++++++
 debian/lintian-overrides |  2 ++
 debian/rules             |  3 +++
 5 files changed, 41 insertions(+), 15 deletions(-)

diff --git a/debian/changelog b/debian/changelog
index 80970c4..24a311d 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,4 +1,4 @@
-sortmerna (2.0-1) UNRELEASED; urgency=medium
+sortmerna (2.0-1) unstable; urgency=medium
 
   * Initial upload to Debian (Closes: #794607)
 
diff --git a/debian/copyright b/debian/copyright
index 61f7788..cf6448c 100644
--- a/debian/copyright
+++ b/debian/copyright
@@ -46,20 +46,6 @@ Copyright: 2015 Tim Booth <tbooth at ceh.ac.uk>
            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 @@ License: expat
    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.
+
diff --git a/debian/doc-base b/debian/doc-base
new file mode 100644
index 0000000..1a53c48
--- /dev/null
+++ b/debian/doc-base
@@ -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
diff --git a/debian/lintian-overrides b/debian/lintian-overrides
new file mode 100644
index 0000000..af37e9c
--- /dev/null
+++ b/debian/lintian-overrides
@@ -0,0 +1,2 @@
+# no intend to change the original copyright text
+sortmerna: spelling-error-in-copyright offical official
diff --git a/debian/rules b/debian/rules
index 6e4516b..d6df7b0 100755
--- a/debian/rules
+++ b/debian/rules
@@ -35,3 +35,6 @@ override_dh_fixperms:
 	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

-- 
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