Author: plessy Date: 2012-04-28 03:00:29 +0000 (Sat, 28 Apr 2012) New Revision: 2246
Added: packages-metadata/f/fastdnaml.upstream packages-metadata/f/fastlink.upstream packages-metadata/m/maqview.upstream Modified: packages-metadata/m/maqview.copyright Log: Daily automatic umegaya push Added: packages-metadata/f/fastdnaml.upstream =================================================================== --- packages-metadata/f/fastdnaml.upstream (rev 0) +++ packages-metadata/f/fastdnaml.upstream 2012-04-28 03:00:29 UTC (rev 2246) @@ -0,0 +1,12 @@ +Reference: + Author: Gary J. Olsen and Hideo Matsuda and Ray Hagstrom and Ross Overbeek + Title: "fastDNAml: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood" + Journal: Comput Appl Biosci + Year: 1994 + Volume: 10 + Number: 1 + Pages: 41-48 + DOI: 10.1093/bioinformatics/10.1.41 + PMID: 8193955 + URL: http://bioinformatics.oxfordjournals.org/content/10/1/41.abstract + eprint: http://bioinformatics.oxfordjournals.org/content/10/1/41.full.pdf+html Added: packages-metadata/f/fastlink.upstream =================================================================== --- packages-metadata/f/fastlink.upstream (rev 0) +++ packages-metadata/f/fastlink.upstream 2012-04-28 03:00:29 UTC (rev 2246) @@ -0,0 +1,11 @@ +Reference: + Author: R. W. Cottingham Jr. and R. M. Idury and A. A. Schaffer + Title: Faster Sequential Genetic Linkage Computations + Journal: American Journal of Human Genetics + Year: 1993 + Volume: 53 + Number: 1 + Pages: 252-263 + PMID: 8317490 + URL: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1682239/ + eprint: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1682239/pdf/ajhg00052-0258.pdf Modified: packages-metadata/m/maqview.copyright =================================================================== --- packages-metadata/m/maqview.copyright 2012-04-27 03:00:29 UTC (rev 2245) +++ packages-metadata/m/maqview.copyright 2012-04-28 03:00:29 UTC (rev 2246) @@ -1,57 +1,75 @@ -Machine-readable license summary, see ‘http://dep.debian.net/deps/dep5/’. +Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: MaqView +Upstream-Contact: Jue Ruan <[email protected]>, Heng Li <[email protected]>, + Mengyao Zhao <[email protected]> +Source: http://sourceforge.net/projects/maq/files/ -Name : MaqView: Mapping and Assembly with Qualities -Contact : Jue Ruan <[email protected]>, Heng Li <[email protected]>, - Mengyao Zhao <[email protected]> -Source : http://sourceforge.net/projects/maq/files/ - -License: GPL2 +Files: * Copyright: 2007-2008, Jue Ruan <[email protected]> +License: GPL-2 - This program 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 3 of the License, or - (at your option) any later version. - - This program 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 program. If not, see <http://www.gnu.org/licenses/>. +Files: adler32.c crc32.c infback.c inffast.* inflate.* inftrees.* +Copyright: © 1995-2005 Mark Adler +License: ZIP -On Debian systems, the complete text of the GNU General Public License version -2 can be found in ‘/usr/share/common-licenses/GPL-2’. +Files: compress.c deflate.* gzio.c trees.c uncompr.c zconf.c zutil.* +Copyright: © 1995-2005 Jean-loup Gailly +License: ZIP - -Files: adler32.c, crc32.c, infback.c, inffast.[ch], inflate.[ch], inftrees.[ch] -Copyright: © 1995-2005 Mark Adler -Files: compress.c, deflate.[ch], gzio.c, trees.c, uncompr.c, zconf.c, zutil.[ch] -Copyright: © 1995-2005 Jean-loup Gailly Files: zlib.h: Copyright: © 1995-2005 Jean-loup Gailly and Mark Adler - This software is provided 'as-is', without any express or implied - warranty. In no event will the authors be held liable for any damages - arising from the use of this software. +License: ZIP - Permission is granted to anyone to use this software for any purpose, - including commercial applications, and to alter it and redistribute it - freely, subject to the following restrictions: +Files: kstream.h +Copyright: © 2008, Attractive Chaos <[email protected]> +License: MIT - 1. The origin of this software must not be misrepresented; you must not - claim that you wrote the original software. If you use this software - in a product, an acknowledgment in the product documentation would be - appreciated but is not required. - 2. Altered source versions must be plainly marked as such, and must not be - misrepresented as being the original software. - 3. This notice may not be removed or altered from any source distribution. +Files: stdhash.* +Copyright: © 2006, Heng Li <[email protected]> +License: LGPL-2.1 +Comment: Copy of code in maq package +Files: debian/* +Copyright: © 2010, Andreas Tille <[email protected]> +License: LGPL-2.1 -Files: kstream.h -Copyright: © 2008, Attractive Chaos <[email protected]> -Source: http://attractivechaos.wordpress.com/programs/ -License: The MIT License +License: GPL-2 + This program 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 3 of the License, or + (at your option) any later version. + . + This program 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 program. If not, see <http://www.gnu.org/licenses/>. + . + On Debian systems, the complete text of the GNU General Public License version + 2 can be found in ‘/usr/share/common-licenses/GPL-2’. + +License: LGPL-2.1 + 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 General Public License + along with this program. If not, see <http://www.gnu.org/licenses/>. + . + On Debian systems, the complete text of the GNU Lesser General Public + License version 2.1 can be found in ‘/usr/share/common-licenses/LGPL-2.1’. + +License: MIT + The MIT License + . 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 @@ -59,10 +77,10 @@ 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 @@ -72,27 +90,20 @@ CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. -Files: stdhash.[ch]* -Copyright: © 2006, Heng Li <[email protected]> -Remark: Copy of code in maq package -License: LGPL 2.1 - 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. +License: ZIP + This software is provided 'as-is', without any express or implied + warranty. In no event will the authors be held liable for any damages + arising from the use of this software. + . + Permission is granted to anyone to use this software for any purpose, + including commercial applications, and to alter it and redistribute it + freely, subject to the following restrictions: + . + 1. The origin of this software must not be misrepresented; you must not + claim that you wrote the original software. If you use this software + in a product, an acknowledgment in the product documentation would be + appreciated but is not required. + 2. Altered source versions must be plainly marked as such, and must not be + misrepresented as being the original software. + 3. This notice may not be removed or altered from any source distribution. - 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 General Public License - along with this program. If not, see <http://www.gnu.org/licenses/>. - - On Debian systems, the complete text of the GNU Lesser General Public - License version 2.1 can be found in ‘/usr/share/common-licenses/LGPL-2.1’. - -Files: debian/* -Copyright: © 2010, Andreas Tille <[email protected]> -License: Same as MaqView itelf - (see above) Added: packages-metadata/m/maqview.upstream =================================================================== --- packages-metadata/m/maqview.upstream (rev 0) +++ packages-metadata/m/maqview.upstream 2012-04-28 03:00:29 UTC (rev 2246) @@ -0,0 +1,12 @@ +Reference: + author: Li, Heng and Ruan, Jue and Durbin, Richard + title: Mapping short DNA sequencing reads and calling variants using mapping quality scores + journal: Genome Research + volume: 18 + number: 11 + pages: 1851-1858 + doi: 10.1101/gr.078212.108 + PMID: 18714091 + year: 2008 + URL: http://genome.cshlp.org/content/18/11/1851.abstract + eprint: http://genome.cshlp.org/content/18/11/1851.full.pdf+html _______________________________________________ Collab-qa-commits mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/collab-qa-commits
