qiime (1.7.0+dfsg-1) unstable; urgency=low * Upload preparations done for BioLinux to Debian -- Andreas Tille Mon, 17 Jun 2013 18:28:26 +0200 qiime (1.7.0-0biolinux1) precise; urgency=low * New usptream * Adopt new naming convention for bl releases * Add usearch script to match uclust warning message * Re-fix biom-format script aliases (as links, needed for script to see them) * Clean out old patches * Patch to fix significant typo in error message * Patch to stop warning for matplotlib * Depend on newer Pynast (Pynast now maintained along with QIIME) -- Tim Booth Tue, 11 Jun 2013 16:49:19 +0100 qiime (1.6.0-0ubuntu2) precise; urgency=low * Add some aliases so that the python-biom-format tools can be called with .py extensions inside the qiime shell, because this is consistent with what QIIME users expect. -- Tim Booth Thu, 02 May 2013 15:05:34 +0100 qiime (1.6.0-0ubuntu1) precise; urgency=low * New upstream release * Don't bother re-packing the tarball for PPA. Package now builds the same with re-packed or pristine. * Remove t-test bug patch as this is in upstream * Re-jig RDP version patch which is simplified but still needed * Note the upstream no longer includes an example parameters.txt -- Tim Booth Fri, 04 Jan 2013 12:51:49 +0000 qiime (1.5.0+repack-2ubuntu11) precise; urgency=low [Tim Booth] * The support_files patch only solved part of the problem, so trying a different, and simpler, tack. * Changes from Debian: [Andreas Tille] * debian/rules: Use xz compression for binary packages -- Tim Booth Tue, 20 Nov 2012 12:26:24 +0000 qiime (1.5.0+dfsg-1) unstable; urgency=low * debian/copyright: - Add Files-Excluded to document what was removed from original source * debian/watch: Enable '+dfsg' / '+repack' suffix in Debian versions * debian/control: - Remove DM-Upload-Allowed - Standards-Version: 3.9.4 (no changes needed) - Priority: optional (per Debian Med policy) - normalised format - Build-Depends: ghc (instead of ghc6) Closes: #710774 -- Andreas Tille Wed, 29 Aug 2012 14:30:02 +0200 qiime (1.5.0+repack-2ubuntu10) precise; urgency=low * Made QIIME accept RDP classifier >2.2 though the patch is a total hack. Solves issue reported by MJC. * Add patch to make QIIME look in the Debian standard location for king.jar and other support_files * Added patch to fix alpha diversity bug and tested by running test_compare_alpha_diversities.py * QIIME now needs python-cogent 1.5.3 -- Tim Booth Wed, 14 Nov 2012 09:59:24 +0000 qiime (1.5.0+repack-2ubuntu5) precise; urgency=low * Tweaked startup script to report the QIIME version -- Tim Booth Thu, 11 Oct 2012 13:49:35 +0100 qiime (1.5.0+repack-2ubuntu4) precise; urgency=low * Remove python26_trim_sff_primers.patch as Qiime now requires 2.7 anyway * Avoid calling dh_auto_clean at all as it triggers a partial rebuild * Added various support files in /usr/share/qiime/support_files * Added various symlinks as Qiime wants everything in one place * Set python-biom-format as a hard dependency because even built-in self-test won't start without it * Added patch to self-test where it looks for default config file * Modified to work with new RDP-classifier package -- Tim Booth Tue, 14 Aug 2012 17:53:13 +0100 qiime (1.5.0-2) unstable; urgency=low * debian/control: - Recommends: python-biom-format Closes: #682199 - Depends: python >= 2.7 Closes: #682198 * debian/get-orig-source: For next release use xz compression of repackaged source * debian/rules: use xz compression -- Andreas Tille Mon, 06 Aug 2012 09:22:42 +0200 qiime (1.5.0-1) unstable; urgency=low * New upstream version (adapted patches + remove patch that was applied upstream) * debian/get-orig-source: Strip *.jar file from upstream source which should never have been there * debian/upstream: - more complete authors information in BibTeX conform format - Moved DOI+PMID to References * debian/qiime.links: Link to king.jar * debian/control: Depends: king * debhelper 9 (control+compat) -- Andreas Tille Tue, 08 May 2012 18:07:56 +0200 qiime (1.4.0-2) unstable; urgency=low * debian/qiime.install: Include *.py files Closes: #668999 -- Andreas Tille Mon, 16 Apr 2012 15:39:02 +0200 qiime (1.4.0-1) unstable; urgency=low * New upstream version (updated patches) * debian/patches/fix_shebang_lines.patch: Removed because file to patch was removed upstream * debian/copyright: rewritten to confirm DEP5 and verified using cme fix dpkg-copyright -- Andreas Tille Tue, 20 Mar 2012 14:41:20 +0100 qiime (1.3.0-3) unstable; urgency=low [ Charles Plessy ] * renamed debian/upstream-metadata.yaml to debian/upstream [ Andreas Tille ] * Standards-Version: 3.9.3 (no changes needed) * debian/patches/ghc_7.4.2_compatibility.patch: Fix build problem based on illegal use of 'import System' (Thanks to Joachim Breitner ) for the patch Closes: #663889 -- Andreas Tille Sat, 17 Mar 2012 19:19:38 +0100 qiime (1.3.0-2) unstable; urgency=low * debian/control: - Added myself to uploaders - moved from contrib/science to science because there are no non-free components used any more - Removed duplicated entry ${misc:Depends} - Extra package qiime-doc arch all to avoid - Provides/Replaces/Conflicts denoiser - Fix Vcs fields - DM-Upload-Allowed: yes - Build-Depends: + python-all-dev (>= 2.6) (instead of python-central) + python-sphinx to create python documentation * debian/rules: - short dh notation instead of cdbs Closes: #639389 - allow overriding python2 by environemnt which helps backporters like Tim for BioLinux - use calculated $(pkg) variable instead of fixed string 'qiime' * debian/{rules,qiime.install}: Adapted to new binary package layout * debian/qiime.{doc,links}: Move documentation into place and use packaged JavaScript libraries * debian/qiime-doc.doc-base * debian/upstream-metadata.yaml -- Andreas Tille Tue, 29 Nov 2011 09:23:18 +0100 qiime (1.3.0-0ubuntu6) lucid; urgency=low * Attempt to fix some errors reported by print_qiime_config -t Fixes to environment, configuration and small patches -- Tim Booth Wed, 02 Nov 2011 18:06:37 +0000 qiime (1.3.0-1) unstable; urgency=low * Bringing qiime to Debian [Steffen] * Some reformatting of debian/control -- Tim Booth Fri, 26 Aug 2011 17:48:30 +0200 qiime (1.3.0-0ubuntu5) lucid; urgency=low * Very minor fix to scripts/shell/qiime_environment -- Tim Booth Tue, 16 Aug 2011 12:35:06 +0100 qiime (1.3.0-0ubuntu4) lucid; urgency=low * New upstream release. Needs newer Python-Cogent and includes built-in denoiser, so I have now aliased denoiser to run the qiime wrapper. * As the upstream now contains a tiny compiled package I've had to make it arch dependent (support_files/denoiser/FlowgramAlignment code written in Haskell). * Added build dep on ghc6 for the same reson -- Tim Booth Tue, 19 Jul 2011 17:38:28 +0100 qiime (1.2.1-ubuntu5) lucid; urgency=low * Fixed silly error in qiime wrapper script * Added uclust wrapper to deal with uclust being expected but missing -- Tim Booth Thu, 24 Mar 2011 16:52:43 +0000 qiime (1.2.1-ubuntu4) lucid; urgency=low * Fixed dependency - needs python-cogent >= 1.5 -- Tim Booth Thu, 24 Mar 2011 15:33:03 +0000 qiime (1.2.1-ubuntu3) lucid; urgency=low * Moved .py scripts out of /usr/bin * Added /usr/bin/qiime wrapper script as per Bio-Linux * Added default configuration file * Cleaned up documentation * Added many dependencies (some of which are still not packaged) -- Tim Booth Thu, 24 Mar 2011 11:35:58 +0000 qiime (1.2.1-ubuntu2) lucid; urgency=low * Pulled 1.2.1 source and tried a rebuild. * Fixed Lintian changelog warning. -- Tim Booth Tue, 22 Mar 2011 13:55:49 +0000 qiime (1.2.1-2) experimental; urgency=low * Initial release (Closes: #587275) * Fixed Python 2.6 incompatibility. -- Steffen Moeller Wed, 02 Mar 2011 22:33:45 +0100 qiime (1.2.1-1) experimental; urgency=low * Corrected home page * Updated policy to 3.9.1 * Updated debian/README.Debian -- Steffen Moeller Wed, 02 Mar 2011 18:19:39 +0100 qiime (1.1.0-1) experimental; urgency=low * Initial release. -- Sri Girish Srinivasa Murthy Tue, 20 Jul 2010 00:03:02 +0200