clustalw (2.0.12-1) unstable; urgency=low * New upstream release fixing many bugs (see /usr/share/doc/clustalw/CHANGELOG). * Updated debian/watch to latest upstream names (Closes: #550895). * debian/control: - Added ${misc:Depends} substitition variable. - Incremented Standards-Version to reflect conformance with Policy 3.8.3 (no changes needed). - Removed the citation information from the package long description. * Manpages debian/clustalw.1* refreshed. * Updated debian/copyright to the latest experimentation on the format. * Added various Upstream informations in debian/upstream-metadata.yaml. * Moved the upstream changelog and the test data to the debian directory. (debian/rules, debian/clustalw.examples). -- Charles Plessy Wed, 14 Oct 2009 13:47:28 +0900 clustalw (2.0.10-1) unstable; urgency=low * New upstream release: - New -quiet and -stats= command line flags. - command separator can now be mixed "/" and "-" on all platforms. * debian/clustalw.1*: - added new option and incremented version number. - using Docbook 4.5. * Added bibliographic information in BibTeX format in debian/reference. * Using Debhelper 7 (debian/control, debian/compat). * Enhances: bioperl-run (it has a wrapper for clustalw). * debian/overrides/clustalw renamed debian/clustalw.lintian-overrides, and is not anymore installed by dh_install (dh_lintian, called by CDBS, takes care of it). -- Charles Plessy Sun, 07 Dec 2008 19:37:06 +0900 clustalw (2.0.9-1) unstable; urgency=low * New upstream release. * debian/patches/to_build_with_g++-4.3.patch was accepted upstream and therefore removed here. * debian/copyright: added a disclaimer clarifying that this package is not part of the Debian operating system (requirement of Policy 3.8.0). * debian/control: - Updated Standards-Version to 3.8.0. - Enhances: emboss (EMBOSS has a wrapper for clustalw, `emma'.) * debian/clustaw.1*: incremented version number. -- Charles Plessy Tue, 24 Jun 2008 13:28:22 +0900 clustalw (2.0.8-1) unstable; urgency=low * New upstream release. - Implemented maxseqlen cmdline switch. - Updated help-file. - Fixed various bugs and possible memory leaks (see /usr/share/doc/clustalw/CHANGELOG) * debian/clustalw.1*: - Added new option; - incremented version number. * debian/copyright lifted to the latest draft format version. * debian/patches/to_build_with_g++-4.3.patch. (Submitted and accepted upstream for 2.0.9). -- Charles Plessy Wed, 04 Jun 2008 18:04:17 +0900 clustalw (2.0.7-1) unstable; urgency=low * New upstream release. - Fixes bug 121: CRLF in sequence names (Pearson) are not trimmed. - Fixes bug 122: convert option broken. - Fixes reopened bug 114: profile alignment input didn't work with new getSeqRange routines. - Fixes bug 119: build with g++ 4.3. * Removed debian/patches/bug_119_gpp4.3-autoptr.patch, obsoleted by the above correction. * Incremented version number in debian/clustalw.1* * Uptated debian/copyright to the latest draft of the format. -- Charles Plessy Wed, 14 May 2008 09:07:26 +0900 clustalw (2.0.6-1) unstable; urgency=low [Charles Plessy] * New upstream release: - Bugs fixed (fasta input performance, segfault with secondary structure mask) - Allows mixed-case command line options. - Removed unncessary id console output in EMBLFileParser.cpp * Updated my email address (debian/control, debian/copyright, debian/clustaw.1*). * debian/patches/bug_119_gpp4.3-autoptr.patch: upstream patch to build clustalw with g++-4.3. [Morten Kjeldgaard] * debian/clustalw.1*: restored the introduction from Stéphane Bortzmeyer original manpage. * debian/copyright: updated information about the manpage. -- Charles Plessy Fri, 02 May 2008 10:38:25 +0900 clustalw (2.0.5-1) unstable; urgency=low * New upstream release (fixes problems with gaps). * debian/copyright: Added a X-Non-Free-Autobuild field to fullfill requirements from http://lists.debian.org/msgid-search/20061129152824.GT2560@mails.so.argh.org * Updated CHANGELOG from http://www.clustal.org/download/current/CHANGELOG * debian/clustalw.1.xml, rewritten from scratch. * debian/clustalw.q: updated from the DocBook sources (Closes: #463591). -- Charles Plessy Thu, 20 Mar 2008 15:42:38 +0900 clustalw (2.0.4-1) unstable; urgency=low [ Steffen Moeller ] * New upstream release - Includes new code for UPGMA guide trees. (v. 2.0.0) - Includes iterative alignment facility. (v. 2.0.0) - fixed bug where Pseudo -FASTA format files were not being processed as previously in v1.83 (v. 2.0.3) - fixed other bugs to behave more like 1.83, and introduced a new '-fullhelp' option. (v 2.0.4) * updated debian/watch * moved clustalw.1 into debian folder (easier to work with svn-buildpackage) * removed README and LICENSE from svn since these are now distributed with the upstream sources [ Charles Plessy ] * debian/copyright made machine-readable. * Clustal X is now built in a separate source package. (Closes: #469442, #469443) * Switched to CDBS. * Added lintian override for the presence of /usr/share/doc/clustalw/LICENSE. * debian/control: - Allowed upload by Debian maintainers. - Checked conformance with Policy 3.7.3 (no changes needed). [ David Paleino ] * debian/control: - fixed Debian capitalisation (see bug #456582) -- Charles Plessy Sun, 09 Mar 2008 22:28:10 +0900 clustalw (1.83-3) unstable; urgency=low [ Nelson A. de Oliveira ] * Added watch file, debian/rules get-orig-source should be used to download the orig.tar.gz, not uscan. [ Charles Plessy ] * Build-depend on libncbi6-dev instead of ncbi-tools6-dev. [ Steffen Moeller ] * Added dependency to later version lesstif2 (Closes:#429480). * The recompilation against libvibrant6 was probably already fixed in an earlier version, certainly it is now (Closes:#378483). -- Charles Plessy Wed, 12 Sep 2007 16:50:37 +0900 clustalw (1.83-2) unstable; urgency=low [ Steffen Moeller ] * Help now works in ClustalX (Closes:#215414). * debian/control: - removed [biology] tag and improved debtags - better formatting/wording - suggesting alignment pretty-printers [ Charles Plessy ] * Add Subversion repository URL to debian/control. * FreeDesktop menu added (Closes: #380715) * Acknowledge NMU, thanks to Kai and Fabio. (Closes: #374241, #359712) * Collaborative maintainance: the maintainer is a mailing list, Steffen Moëller and Charles Plessy are uploaders. * Upgraded to debhelper 5. * Modified the copyright file to mention that it is not disallowed to use autobuilders to create binary packages. * Debian Menu transition: Apps/Science becomes Applications/Science/Biology. * Fixed a typo in clustalw.menu (Closes: #428518) * Updated Steffen's email adress. * Using quilt to manage the changes to the sources. -- Charles Plessy Sun, 12 Aug 2007 23:06:39 +0900 clustalw (1.83-1.2) unstable; urgency=high * Non-maintainer upload. * No changes, let's try to trigger again the builders. -- Fabio Tranchitella Fri, 10 Nov 2006 09:16:45 +0100 clustalw (1.83-1.1) unstable; urgency=low * Non-maintainer upload. * lesstif1 is deprecated, transition to lesstif2 (Closes: #374241) * Dead link in the package description (Closes: #359712) * Updated standards version, binary-indep rule required -- Kai Hendry Mon, 10 Jul 2006 11:04:05 +0900 clustalw (1.83-1) unstable; urgency=low * New upstream version * New maintainer * Reapplied patches from 1.82-3 * Removed calls to insecure gets * Cosmetics to makefile * Extension of description * Standards-Version: 3.5.10 * Increased version of debhelper: Build-Depends: debhelper (>= 4) * Used debian/compat for debhelper version * Replaces *.files by *.install, *.docs, *.manpages and used the apropriate tools in debian/rules * Moved clustalx to /usr/bin because it does not *belong* to the X11 system * Moved the manpage clustalx.1x to clustalx.1 accordingly. * Removed debian/dirs * Added menu entries -- Steffen Moeller Mon, 23 Jun 2003 19:26:29 +0100 clustalw (1.82-3) unstable; urgency=low * "My-wifes-Katrin-Birthday"-release (even if I doubt that she is very interested in Debian packaging details) * Fix a buffer override closes: #135255 -- Andreas Tille Wed, 27 Feb 2002 07:26:29 +0100 clustalw (1.82-2) unstable; urgency=low * also compile GUI clustalx which is included in the sources now -- Andreas Tille Sat, 3 Nov 2001 14:41:50 +0100 clustalw (1.82-1) unstable; urgency=low * New maintainer closes: #100213 * New upstream version closes: #40904 * Standards-Version: 3.5.6 * Moved help file to /usr/share/clustalw/clustalw_help because it is architecture independend * Added URL to the package description because I consider this as "good style" to have an upstream link without installing the package * Fixed a typo in the examples Makefile which was shiped with the Debian package: clustalw -profile -profile1=nuc.aln -profile2=nuc2.aln -outfile=profile.aln ^ this 2 was missing -- Andreas Tille Mon, 29 Oct 2001 21:40:20 +0100 clustalw (1.7-9) unstable; urgency=low * Maintainer set to Debian QA Group . -- Adrian Bunk Fri, 24 Aug 2001 21:09:56 +0200 clustalw (1.7-8) unstable; urgency=low * Adopted by new maintainer; closes: #92790 * Updated to latest standards version and added Build-Depends (changed makefile, control, dirs, docs, and rules); closes: #91132, #91411 * Deleted empty README.Debian file. * Corrected doc path in manpage. * Moved package to section non-free/science, because it is a tool that is exclusively useful for molecular biologists. -- Dr. Guenter Bechly Fri, 20 Apr 2001 19:08:00 +0200 clustalw (1.7-7) unstable; urgency=low * Better extended description. Closes #31475. * Manual page. Closes #31382. -- Stephane Bortzmeyer Wed, 31 Mar 1999 10:50:02 +0200 clustalw (1.7-6) unstable; urgency=low * Yet another attempt to get past rejection :-) Licence is now included in the copyright file. -- Stephane Bortzmeyer Sat, 19 Dec 1998 15:29:40 +0100 clustalw (1.7-5) unstable; urgency=low * A LICENCE is now included, non-free unfortunately. -- Stephane Bortzmeyer Thu, 17 Dec 1998 14:48:43 +0100 clustalw (1.7-4) unstable; urgency=low * Compiles with -mieee on the Alpha: otherwise, floating exception since ClustalW divides by zero (yuck!) -- Stephane Bortzmeyer Wed, 2 Dec 1998 16:16:02 +0100 clustalw (1.7-3) unstable; urgency=low * Tests and samples added * On line help file added -- Stephane Bortzmeyer Tue, 1 Dec 1998 15:57:50 +0100 clustalw (1.7-2) unstable; urgency=low * Switch to dh_make * First public release -- Stephane Bortzmeyer Tue, 1 Dec 1998 15:25:13 +0100 clustalw (1.7-1) unstable; urgency=low * Initial Release. -- Stephane Bortzmeyer Fri, 28 Aug 1998 16:09:48 +0200