debian/0000755000000000000000000000000011777576070007207 5ustar debian/rules0000755000000000000000000000003611777576070010266 0ustar #!/usr/bin/make -f %: dh $@ debian/control0000644000000000000000000000200611777576070010610 0ustar Source: libnhgri-blastall-perl Section: perl Priority: optional Maintainer: Debian Perl Group Uploaders: Laszlo Kajan , Jens Preussner Build-Depends: debhelper (>= 8), perl Vcs-Git: git://git.debian.org/pkg-perl/packages/libnhgri-blastall-perl.git Vcs-Browser: http://anonscm.debian.org/gitweb/?p=pkg-perl/packages/libnhgri-blastall-perl.git Standards-Version: 3.9.3 Homepage: ftp://ftp.nhgri.nih.gov/pub/software/blastall/ Package: libnhgri-blastall-perl Architecture: all Depends: ${perl:Depends}, ${misc:Depends} Description: Perl extension for running and parsing NCBI's BLAST 2.x NHGRI::Blastall will enable usage of BLAST out of a Perl script, if BLAST2 or WU-BLAST are installed locally. Main features are: * run BLAST (also via network, which requires blastcl3) * BLAST single sequences against each other or against a given library * format databases * mask out repetitive DNA * read, parse and filter existing BLAST reports debian/source/0000755000000000000000000000000011777576070010507 5ustar debian/source/format0000644000000000000000000000001411777576070011715 0ustar 3.0 (quilt) debian/changelog0000644000000000000000000000041611777576070011062 0ustar libnhgri-blastall-perl (0.66-1) unstable; urgency=low * Initial release (Closes: 680177). [Laszlo Kajan ] * Changed debian/* license to 'like Perl' (Artistic or GPL-1+) -- Laszlo Kajan Tue, 10 Jul 2012 16:53:42 +0200 debian/compat0000644000000000000000000000000211777576070010405 0ustar 8 debian/patches/0000755000000000000000000000000011777576070010636 5ustar debian/patches/series0000644000000000000000000000001611777576070012050 0ustar manpage-patch debian/patches/manpage-patch0000644000000000000000000000106311777576070013266 0ustar Description: Fixes a pod syntax error. A =over was not followed immediately by a =item as suggested by perlpod. Author: Jens Preußner Forwarded: no Last-Update: 2012-07-10 --- a/Blastall.pm +++ b/Blastall.pm @@ -952,8 +952,6 @@ =head1 SYNOPSIS -=over 4 - =head1 DESCRIPTION If you have NCBI's BLAST2 or WU-BLAST installed locally and your @@ -970,6 +968,7 @@ these databases. You can then use either the filter or result methods to parse the report and access the various elements of the data. +=over 4 =item RUNNING NEW BLASTS debian/copyright0000644000000000000000000000420711777576070011145 0ustar Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Contact: Joseph Ryan Source: ftp://ftp.nhgri.nih.gov/pub/software/blastall/NHGRI-Blastall-0.66.tar.gz Files: debian/* Copyright: 2009 Laszlo Kajan 2012 Jens Preußner License: Artistic or GPL-1+ Files: * Copyright: public-domain License: public-domain PUBLIC DOMAIN NOTICE This software/database is ``United States Government Work'' under the terms of the United States Copyright Act. It was written as part of the authors' official duties for the United States Government and thus cannot be copyrighted. This software/database is freely available to the public for use without a copyright notice. Restrictions cannot be placed on its present or future use. Although all reasonable efforts have been taken to ensure the accuracy and reliability of the software and data, the National Human Genome Research Institute (NHGRI) and the U.S. Government does not and cannot warrant the performance or results that may be obtained by using this software or data. NHGRI and the U.S. Government disclaims all warranties as to performance, merchantability or fitness for any particular purpose. In any work or product derived from this material, proper attribution of the authors as the source of the software or data should be made, using http://genome.nhgri.nih.gov/webblast as the citation. License: Artistic This program is free software; you can redistribute it and/or modify it under the terms of the Artistic License, which comes with Perl. . On Debian systems, the complete text of the Artistic License can be found in `/usr/share/common-licenses/Artistic'. License: GPL-1+ 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 1, or (at your option) any later version. . On Debian systems, the complete text of version 1 of the GNU General Public License can be found in `/usr/share/common-licenses/GPL-1'. debian/watch0000644000000000000000000000013011777576070010232 0ustar version=3 ftp://ftp.nhgri.nih.gov/pub/software/blastall/NHGRI-Blastall-([0-9.]+).tar.gz