Author: tille Date: 2011-01-30 15:52:20 +0000 (Sun, 30 Jan 2011) New Revision: 5826
Modified: trunk/packages/bowtie/trunk/debian/copyright trunk/packages/bowtie/trunk/debian/get-orig-source trunk/packages/bowtie/trunk/debian/rules Log: Final polishing in copyright file; check whether Debian packaged version of SeqAn would work but failed and documented this issue in the code Modified: trunk/packages/bowtie/trunk/debian/copyright =================================================================== --- trunk/packages/bowtie/trunk/debian/copyright 2011-01-30 15:15:03 UTC (rev 5825) +++ trunk/packages/bowtie/trunk/debian/copyright 2011-01-30 15:52:20 UTC (rev 5826) @@ -1,49 +1,23 @@ -This work was packaged for Debian by: +Format: http://dep.debian.net/deps/dep5/ +Upstream-Name: Bowtie +Upstream-Contact: Ben Langmead <[email protected]> +Source: http://sourceforge.net/projects/bowtie-bio/files/bowtie/ - Steffen Moeller <[email protected]> on Thu, 25 Nov 2010 17:04:39 +0100 - -It was downloaded from: - - http://bowtie-bio.sf.net - Files: * - -Upstream Authors: - - Ben Langmead <email?> - -Copyright: - - Copyright (C) 2009-2010 Ben Langmead - Copyright (C) 2009-2010 C. Trapnell - Copyright (C) 2009-2010 M. Pop - Copyright (C) 2009-2010 Steven L. Salzberg - +Copyright: © 2009-2010 Ben Langmead, C. Trapnell, M. Pop, Steven L. Salzberg License: - This program is free software; you can redistribute it and/or modify it under the terms of the "Artistic License" which comes with Debian. THIS PACKAGE IS PROVIDED "AS IS" AND WITHOUT ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF MERCHANTIBILITY AND FITNESS FOR A PARTICULAR PURPOSE. + + On Debian systems, the complete text of the Artistic License + can be found in "/usr/share/common-licenses/Artistic". -Publication: - - It is not a requirement of the license, but when you use this - package for your research, you should cite - - Langmead B, Trapnell C, Pop M, Salzberg SL. - Ultrafast and memory-efficient alignment of short DNA - sequences to the human genome. Genome Biology 10:R25. - -On Debian systems, the complete text of the Artistic License -can be found in "/usr/share/common-licenses/Artistic". - Files: SeqAn-1.1 - Upstream Authors: - Andreas Döring <[email protected]> David Weese <[email protected]> Tobias Rausch <[email protected]> @@ -52,19 +26,14 @@ Carsten Kemena <[email protected]> Konrad Ludwig Moritz Rudolph <[email protected]> Marcel H. Schulz. <[email protected]> - Copyright: - If not otherwise stated Copyright (C) 2007-2009 the Seqan authors. - - License: - 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 3 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 @@ -73,14 +42,11 @@ On Debian systems, you can find the LGPL license in: /usr/share/common-licenses/LGPL - -File: SeqAn-1.1/seqan/index/index_sa_lss.h - +File: SeqAn-1.1/seqan/index/index_sa_lss.h Copyright: - Copyright 1999 N. Jesper Larsson <[email protected]> Copyright 2007 David Weese. - +License: This software may be used freely for any purpose. However, when distributed, the original source must be clearly stated, and, when the source code is distributed, the copyright notice must be retained @@ -88,9 +54,10 @@ is given regarding the quality of this software. -The Debian packaging is: - - Copyright (C) 2010 Steffen Moeller <[email protected]> - -and is licensed under the same license. - +Files: debian/* +Copyright: © 2010 Files: * +Copyright: © 2011 Steffen Moeller <[email protected]>, + Yask Gupta <[email protected]> + © 2011 Andreas Tille <[email protected]> +License: PD + The packaging work is in the public domain unless stated otherwise. Modified: trunk/packages/bowtie/trunk/debian/get-orig-source =================================================================== --- trunk/packages/bowtie/trunk/debian/get-orig-source 2011-01-30 15:15:03 UTC (rev 5825) +++ trunk/packages/bowtie/trunk/debian/get-orig-source 2011-01-30 15:52:20 UTC (rev 5826) @@ -13,6 +13,10 @@ UPSTREAMDIR=${PKG}-${VERSION} unzip ../"${UPSTREAMDIR}-src.zip" +## remove copy of SeqAn library - unfortunately the package does not compile +## with the Debian packaged version 1.2 +#rm -rf "${UPSTREAMDIR}"/SeqAn-1.1 + GZIP="--best --no-name" tar -czf "$PKG"_"$VERSION".orig.tar.gz "${UPSTREAMDIR}" rm -rf "${UPSTREAMDIR}" Modified: trunk/packages/bowtie/trunk/debian/rules =================================================================== --- trunk/packages/bowtie/trunk/debian/rules 2011-01-30 15:15:03 UTC (rev 5825) +++ trunk/packages/bowtie/trunk/debian/rules 2011-01-30 15:52:20 UTC (rev 5826) @@ -1,10 +1,7 @@ #!/usr/bin/make -f -# -*- makefile -*- -# Sample debian/rules that uses debhelper. -# This file was originally written by Joey Hess and Craig Small. -# As a special exception, when this file is copied by dh-make into a -# dh-make output file, you may use that output file without restriction. -# This special exception was added by Craig Small in version 0.37 of dh-make. +# debian/rules for bowtie +# Andreas Tille <[email protected]> +# GPL # Uncomment this to turn on verbose mode. #export DH_VERBOSE=1 _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
