[med-svn] [emboss] 05/06: Cleanup debian/copyright from not existing files and not DEP5 conform issues
Andreas Tille
tille at debian.org
Tue Dec 1 16:51:41 UTC 2015
This is an automated email from the git hooks/post-receive script.
tille pushed a commit to branch master
in repository emboss.
commit 6434b61c3bd4824c8f8ea27355196d1100cd3368
Author: Andreas Tille <tille at debian.org>
Date: Tue Dec 1 17:14:20 2015 +0100
Cleanup debian/copyright from not existing files and not DEP5 conform issues
---
debian/changelog | 6 ++--
debian/copyright | 84 ++++++++++++++++----------------------------------------
2 files changed, 27 insertions(+), 63 deletions(-)
diff --git a/debian/changelog b/debian/changelog
index f223faf..aa8863c 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,4 +1,4 @@
-emboss (6.6.0+dfsg-2) UNRELEASED; urgency=medium
+emboss (6.6.0+dfsg-3) UNRELEASED; urgency=medium
* Make sure we will not delete documentation files from new upstream
version
@@ -9,8 +9,10 @@ emboss (6.6.0+dfsg-2) UNRELEASED; urgency=medium
* Make sure data are really in th directory where they will be copied from
Closes: #806022
* Ignore false lintian positives about package-contains-timestamped-gzip
+ * Cleanup debian/copyright from not existing files and not DEP5 conform
+ issues
- -- Andreas Tille <tille at debian.org> Sat, 25 Oct 2014 20:08:17 +0200
+ -- Andreas Tille <tille at debian.org> Tue, 01 Dec 2015 16:03:42 +0100
emboss (6.6.0+dfsg-2biolinux1) trusty; urgency=medium
diff --git a/debian/copyright b/debian/copyright
index 5a92874..935f506 100644
--- a/debian/copyright
+++ b/debian/copyright
@@ -165,7 +165,6 @@ Files: doc/programs/html/antigenic.html
doc/programs/html/pasteseq.html
doc/programs/html/showpep.html
doc/programs/master/emboss/apps/inc/acdc.input
- doc/programs/master/emboss/apps/inc/acdlog.input
doc/programs/master/emboss/apps/inc/acdtrace.input
doc/programs/master/emboss/apps/inc/antigenic.input
doc/programs/master/emboss/apps/inc/pasteseq.input
@@ -173,7 +172,6 @@ Files: doc/programs/html/antigenic.html
doc/programs/text/antigenic.txt
doc/programs/text/pasteseq.txt
doc/programs/text/showpep.txt
- emboss/data/dbxref.txt
test/data/amir.swiss
test/data/uniprotft.sw
test/swiss/seq.dat
@@ -194,56 +192,6 @@ Files: ajax/core/ajvarbcf.c
Copyright: © 2010 Broad Institute
© The EMBOSS developers
License: LGPL-2.1+ and MIT
- /* @source ajvarbcf ***********************************************************
- **
- ** BCF files reading/writing functions
- **
- ** @version $Revision: 1.5 $
- ** @modified 2011 Mahmut Uludag ported from bcftools project (samtools.sf.net)
- ** @modified $Date: 2012/07/14 14:52:39 $ by $Author: rice $
- ** @@
- **
- ** This library 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 2.1 of the License, or (at your option) any later version.
- **
- ** This library 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.
- **
- ** You should have received a copy of the GNU Lesser General Public
- ** License along with this library; if not, write to the Free Software
- ** Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
- ** MA 02110-1301, USA.
- **
- ******************************************************************************/
- .
- /* The MIT License
- .
- Copyright (c) 2010 Broad Institute
- .
- Permission is hereby granted, free of charge, to any person obtaining
- a copy of this software and associated documentation files (the
- "Software"), to deal in the Software without restriction, including
- without limitation the rights to use, copy, modify, merge, publish,
- distribute, sublicense, and/or sell copies of the Software, and to
- permit persons to whom the Software is furnished to do so, subject to
- the following conditions:
- .
- The above copyright notice and this permission notice shall be
- included in all copies or substantial portions of the Software.
- .
- THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
- EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
- MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
- NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
- BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
- 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.
- */
Files: emboss/data/TAXONOMY/*.dmp
Homepage: http://www.ncbi.nlm.nih.gov/taxonomy
@@ -251,18 +199,11 @@ Copyright: Probably public domain (under investigation).
License: CC-BY-3.0
Files: emboss/data/OBO/*.obo
-Homepage: http://code.google.com/p/obo-relations/
+Homepage: https://github.com/oborel/obo-relations
Copyright: 2008-2013 Chris Mungall <cjmungall at lbl.gov> et all
License: CC-BY-3.0
Comment: see http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=694908
-Files: emboss/data/OBO/gene_ontology*.obo
-Homepage: http://www.geneontology.org/GO.cite.shtml
-Copyright: 1999–2013 Gene Ontology Consortium
-Comment: License is clarified at
- https://www.ebi.ac.uk/panda/jira/browse/GOHELP-147
-License: CC-BY-3.0
-
Files: emboss/data/OBO/chebi.obo
Homepage: http://www.ebi.ac.uk/chebi/
Copyright: Public domain according to answer or authors available at
@@ -287,7 +228,7 @@ License: CC-BY-3.0
Comment: See ftp://rgd.mcw.edu/pub/data_release/PathwayOntology_introduction.doc
Files: emboss/data/OBO/eco.obo
-Homepage: https://code.google.com/p/evidenceontology/
+Homepage: https://github.com/evidenceontology/evidenceontology
Copyright: 2009-2013 Marcus Chibucos <mchibucos at gmail.com>,
Michelle Giglio <mgiglio at som.umaryland.edu>
License: GPL-3+
@@ -660,3 +601,24 @@ License: LGPL-2.1+
Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
Comment: On Debian systems, the complete text of the GNU Lesser General Public
License version 2.1 can be found at /usr/share/common-licenses/LGPL-2.1.
+
+License: MIT
+ Permission is hereby granted, free of charge, to any person obtaining
+ a copy of this software and associated documentation files (the
+ "Software"), to deal in the Software without restriction, including
+ without limitation the rights to use, copy, modify, merge, publish,
+ distribute, sublicense, and/or sell copies of the Software, and to
+ permit persons to whom the Software is furnished to do so, subject to
+ the following conditions:
+ .
+ The above copyright notice and this permission notice shall be
+ included in all copies or substantial portions of the Software.
+ .
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+ EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+ MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+ NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
+ BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
+ 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.
--
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