Author: tille Date: 2013-11-05 19:50:22 +0000 (Tue, 05 Nov 2013) New Revision: 15114
Added: trunk/packages/sibsim4/trunk/debian/README.Debian Modified: trunk/packages/sibsim4/trunk/debian/changelog trunk/packages/sibsim4/trunk/debian/copyright Log: DEP5; Add some historic notes about the origin to README.Debian where this information belongs to Added: trunk/packages/sibsim4/trunk/debian/README.Debian =================================================================== --- trunk/packages/sibsim4/trunk/debian/README.Debian (rev 0) +++ trunk/packages/sibsim4/trunk/debian/README.Debian 2013-11-05 19:50:22 UTC (rev 15114) @@ -0,0 +1,25 @@ +SIBsim4 for Debian +================== + +The SIBsim4 project is based on sim4[1], which is a program designed to +align an expressed DNA sequence with a genomic sequence, allowing for +introns. Sim4 was written by Liliana Florea while working in Webb +Miller's lab at the Pennsylvania State University. Here is the paper[2] +describing sim4 (source code is also available). + +The name was chosen to denote the fact the SIBsim4 is a derivative work +from sim4. SIB[3] stands for the Swiss Institute of Bioinformatics. Some +code modifications were written by Claudio Lottaz, while working at SIB. +SIBsim4 is currently developed and maintained by Christian Iseli, from +the Ludwig Institute for Cancer Research LICR[4], Information Technology +Office in Lausanne. LICR is a SIB partner. + +[1] http://globin.cse.psu.edu/html/docs/sim4.html +[2] http://www.genome.org/cgi/content/full/8/9/967 + L. Florea, G. Hartzell, Z. Zhang, G. Rubin, and W. Miller (1998) + "A computer program for aligning a cDNA sequence with a genomic DNA sequence." + Genome Research 8, 967-974. +[3] http://www.isb-sib.ch/ +[4] http://www.licr.org/ + + -- Andreas Tille <[email protected]> Tue, 05 Nov 2013 18:43:45 +0100 Modified: trunk/packages/sibsim4/trunk/debian/changelog =================================================================== --- trunk/packages/sibsim4/trunk/debian/changelog 2013-11-05 19:34:16 UTC (rev 15113) +++ trunk/packages/sibsim4/trunk/debian/changelog 2013-11-05 19:50:22 UTC (rev 15114) @@ -5,6 +5,9 @@ - canonical Vcs URLs - debhelper 7 * debian/rules: cdbs -> dh + * debian/README.Debian: Took over some information from debian/copyright + which actually belongs here + * debian/copyright: DEP5 -- Andreas Tille <[email protected]> Tue, 05 Nov 2013 18:43:45 +0100 Modified: trunk/packages/sibsim4/trunk/debian/copyright =================================================================== --- trunk/packages/sibsim4/trunk/debian/copyright 2013-11-05 19:34:16 UTC (rev 15113) +++ trunk/packages/sibsim4/trunk/debian/copyright 2013-11-05 19:50:22 UTC (rev 15114) @@ -1,44 +1,34 @@ -This package was debianized by Nelson A. de Oliveira <[email protected]> on -Wed, 10 Jan 2007 02:13:20 -0200. +Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: SIBsim4 +Upstream-Contact: Christian Iseli <[email protected]> +Source: http://sourceforge.net/projects/sibsim4/files/ -It was downloaded from http://sourceforge.net/projects/sibsim4/ +Files: * +Copyright: © 2001-2010 Christian Iseli <[email protected]>, + Claudio Lottaz + Swiss Institute of Bioinformatics, and Ludwig + Institute for Cancer Research (LICR) +License: GPL2+ -Upstream Authors: Christian Iseli <[email protected]> - Claudio Lottaz - -Copyright: 2001-2006 Swiss Institute of Bioinformatics, and Ludwig Institute - for Cancer Research (LICR) - -This package implements the Sim4 algorithm for aligning expressed DNA -with genomic sequences, described in the paper: - -L. Florea, G. Hartzell, Z. Zhang, G. Rubin, and W. Miller (1998) -"A computer program for aligning a cDNA sequence with a genomic DNA sequence." -Genome Research 8, 967-974. - -Portions copyright by: - -Copyright (C) 1998-2001 Liliana Florea -Copyright (C) 1998-2001 Scott Schwartz - -License: - +License: GPL2+ 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 2 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 package; if not, write to the Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA + . + On Debian systems, the complete text of the GNU General + Public License can be found in `/usr/share/common-licenses/GPL-2'. -On Debian systems, the complete text of the GNU General -Public License can be found in `/usr/share/common-licenses/GPL'. - -The Debian packaging is (C) 2007, Nelson A. de Oliveira <[email protected]> and -is licensed under the GPL, see above. +Files: debian/* +Copyright: © 2007-2008 Nelson A. de Oliveira <[email protected]> + © 2010-2012 Andreas Tille <[email protected]> +License: GPL2+ _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
