kalign (1:3.3.4-4~0exp0simde) experimental; urgency=medium * Team upload. * Experimental rebuild with SIMDe 0.7.3~0git20230118123246.d1e75cd -- Michael R. Crusoe Sun, 22 Jan 2023 18:32:24 +0100 kalign (1:3.3.4-3) unstable; urgency=medium * Team Upload. * d/rules: Install from obj-$(DEB_HOST_GNU_TYPE) instead of DEB_HOST_MULTIARCH in order to fix build on i386 -- Nilesh Patra Sun, 06 Nov 2022 11:40:17 +0530 kalign (1:3.3.4-2) unstable; urgency=medium * Team Upload. * install kalignfmt for other archs as well -- Nilesh Patra Sun, 06 Nov 2022 04:16:14 +0530 kalign (1:3.3.4-1) unstable; urgency=medium [ Andreas Tille ] * Team Upload. * Fix watch file * New upstream version * Standards-Version: 4.6.1 (routine-update) [ Nilesh Patra ] * d/control: + Add B-D on cmake + Remove B-D on libsimde-dev, also remove Built-Using field. * debian/patches: + Drop keep-debugging: debug flags are being passed now w/ cmake + Drop debian/patches/no-native-build: no native build anymore + Drop simde patch: no longer needed, upstream has added conditions for inclusions on higher SIMD levels of intel-specific header files + Add pass-proper-flags.patch: Set proper cflags/cxxflags for other simd levels than avx2, otherwise cflags are set to baseline for other supported simd levels. * d/rules: + Update rules layout from scratch as buildsystem changed from autotools -> cmake + Remove timescorealn as this is no longer provided/installed, change that with kalignfmt + Disable building shared lib, which is set to ON by default w/ this release. The SOLIBS should move into a new lib package anyway, and should not be here in the binary package + Install all relevant simd level binaries properly + Test binary for every simd level + Remove static lib and .cmake files which should not be present with this bin package + Install simd-dispatcher script for amd64 * d/t/run-unit-test: + Kalign no longer allows un-aligned seq to be re-formatted, hence removing test 7 * Manpage changes: + Add manpage for kalignfmt and update old manpage for kalign + Remove manpage for timescorealn * Update installing examples at right location + dev/ dir has been pruned, change that to tests/data * Add d/clean for cleaning obj-* * Update dispatcher script to supported simd levels * Remove copyright notices/mentions of autoconf stuff which has been removed * Remove author notice from manpage * Mention myself in the copyright * Disable reprotest in salsa CI -- Nilesh Patra Sat, 05 Nov 2022 22:20:20 +0000 kalign (1:3.3.2-1) unstable; urgency=medium * New upstream version * Refresh SIMDE patch -- Andreas Tille Mon, 02 May 2022 14:39:41 +0200 kalign (1:3.3.1-1) unstable; urgency=medium * Fix watchfile to detect new versions on github * New upstream version * Standards-Version: 4.6.0 (routine-update) -- Andreas Tille Fri, 01 Oct 2021 13:15:46 +0200 kalign (1:3.3-1) unstable; urgency=medium * Team upload. * debian/watch: fix syntax * refresh patches; drop "hardening", it was applied upstream. * Added a patch to retain debugging symbols -- Michael R. Crusoe Fri, 06 Nov 2020 10:40:38 +0100 kalign (1:3.2.3-4) unstable; urgency=medium * Team Upload. [ Michael R. Crusoe ] * patches forwarded upstream [ Nilesh Patra ] * Fix gcc-10 FTBFS (Closes: #966865) * Add manpages * compat version: 13, run wrap-and-sort -- Nilesh Patra Tue, 04 Aug 2020 21:43:28 +0000 kalign (1:3.2.3-3) unstable; urgency=medium * Team upload. * Use the libsimde-dev package instead of our code copy -- Michael R. Crusoe Mon, 20 Apr 2020 19:13:36 +0200 kalign (1:3.2.3-2) unstable; urgency=medium * Team upload. * Add non-AVX2 compatability using the SIMD Everywhere library * Compile using all levels of SIMD CPU support and restructure package with a "simd-dispatch" script * debian/patches/hardening: keep the provided CFLAGS -- Michael R. Crusoe Mon, 30 Mar 2020 20:25:57 +0200 kalign (1:3.2.3-1) unstable; urgency=medium * Team upload. [ Charles Plessy ] * New upstream version (packaging in progress). [ Andreas Tille ] * Standards-Version: 4.5.0 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Use secure URI in Homepage field. * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. * Remove obsolete fields Contact, Name from debian/upstream/metadata (already present in machine-readable debian/copyright). [ Pranav Ballaney ] * Fix autopkgtest and add more test -- Pranav Ballaney Sat, 21 Mar 2020 01:35:29 +0530 kalign (1:2.03+20110620-5) unstable; urgency=medium [ Jelmer Vernooij ] * Use secure copyright file specification URI. [ Andreas Tille ] * Fake watch file * Point Vcs fields to salsa.debian.org * Standards-Version: 4.3.0 -- Andreas Tille Tue, 08 Jan 2019 13:51:16 +0100 kalign (1:2.03+20110620-4) unstable; urgency=medium * propagate CC from ./configure to make (Thanks for the patch to Helmut Grohne ) Closes: #890256 * Standards-Version: 4.1.3 * debhelper 11 -- Andreas Tille Mon, 12 Feb 2018 16:39:29 +0100 kalign (1:2.03+20110620-3) unstable; urgency=low * Team upload [ Andreas Tille ] * debian/upstream: Added some information from debian/reference * debian/reference: Removed in favour of debian/upstream * Moved packaging from SVN to Git * cme fix dpkg-control * add hardening options [ Canberk Koç ] * Autopkgtest added -- Canberk Koç Thu, 28 Jul 2016 03:06:04 +0300 kalign (1:2.03+20110620-2) unstable; urgency=low [ Charles Plessy ] * renamed debian/upstream-metadata.yaml to debian/upstream [ Andreas Tille ] * debian/upstream: - Added another citation from tasks file - Fixed Homepage * debian/source/format: 3.0 (quilt) * debian/watch: Fixed hint to download URL * debian/control: - Fixed Homepage - Standards-Version: 3.9.3 (no changes needed) * debian/copyright: Fixed DEP5 issues and verified using cme fix dpkg-copyright * debhelper 9 (control+compat) -- Andreas Tille Thu, 29 Mar 2012 15:28:43 +0200 kalign (1:2.03+20110620-1) unstable; urgency=low * New upstream release. Using 2.04 as a version number was a mistake of mine, it should have been called 2.03+20081031 as Upstream sometimes updates the source archive ‘current.tar.gz’ without incrementing the version number. * Collected information about Upstream in ‘debian/upstream-metadata.yaml’. * Using Debhelper 8 (debian/compat, debian/control). * Corrected VCS information in debian/control. * Enhances: bioperl-run, that has a kalign wrapper (debian/control). * Incremented Standards-Version to reflect conformance with Policy 3.9.2. (debian/control, no changes needed). -- Charles Plessy Sat, 25 Jun 2011 17:23:01 +0900 kalign (2.04-2) unstable; urgency=low [ David Paleino ] * Removed myself from Uploaders [ Andreas Tille ] * debian/control: - Standards-Version: 3.8.3 - debhelper (>= 7.1) to use override facility * debian/rules: - removed code to create manpage - just keep the created one - short rules file using dh * debian/watch: - deactivated; upstream does not seem to respond to our request to enable versioned tarballs - so the watch file makes no sense Closes: #456479 * Applied patch to enable bash completion. Thanks to David Paleino Closes: #446047 -- Andreas Tille Tue, 06 Oct 2009 16:21:45 +0200 kalign (2.04-1) unstable; urgency=low * New upstream release. * debian/copyright made machine-readable. * debian/rules: replaced deprecated dh_clean -k by dh_prep. * debian/control: - Updated my email address (debian/control). - Checked compliance with Policy 3.8.0 (no changes needed). - Using debhelper 7 (also in debian/compat). - Upadated description and moved reference to debian/reference. * debian/kalign.1*: updated the manual pages. -- Charles Plessy Thu, 26 Feb 2009 00:19:44 +0900 kalign (2.03-2) unstable; urgency=low [ Charles Plessy ] * debian/control: - Add Subversion repository URL to debian/control. - Moved the Homepage: field out from the package's description. - Enhances: t-coffee. [ David Paleino ] * debian/kalign.1 added - manpages are now statically generated * debian/control: - B-D updated (see above) - added myself to Uploaders - moved XS-Vcs-* fields to Vcs-* * debian/rules: - reflecting static build of manpages - minor changes * Updated to Standards-Version 3.7.3 (no changes needed) [ Andreas Tille ] * Added myself to Uploaders -- Andreas Tille Tue, 18 Mar 2008 09:54:17 +0100 kalign (2.03-1) unstable; urgency=low * New upstream release. * Mended the watch file. * Updated the manpage. -- Charles Plessy Wed, 21 Feb 2007 09:07:33 +0900 kalign (1.04-1) unstable; urgency=low * Initial release Closes: #365344 -- Charles Plessy Sat, 29 Apr 2006 23:02:57 +0900