ampliconnoise (1.29-15) unstable; urgency=medium * d/t/Run.sh: remove openmpi specific --use-hwthread-cpu argument. * d/rules: do not enforce openmpi compiler. * d/bin_override/mpicc: remove now unneeded wrapper. * d/{,t}/control: migrate to mpi-default- packages. This replaces the use of openmpi specifically. (Closes: #1087997) MPICH4 seems to be operating properly with ampliconnoise. -- Étienne Mollier Tue, 26 Nov 2024 22:12:39 +0100 ampliconnoise (1.29-14) unstable; urgency=medium [ Andreas Tille ] * Remove Tim Booth since address is bouncing (Thank you for your work on this package, Tim) [ Étienne Mollier ] * d/rules: build i386 binaries with -ffloat-store. This fixes slignt result mismatches on i386 caught by autopkgtest. * d/patches/*: normalize dep3 header, notably timestamps. * d/control: add myself to uploaders. -- Étienne Mollier Mon, 18 Nov 2024 22:02:59 +0100 ampliconnoise (1.29-13) unstable; urgency=medium * Team upload. * Rename bin/.gitignore to bin/.placeholder. Should make the package to build again from source. -- Santiago Vila Thu, 08 Aug 2024 02:20:00 +0200 ampliconnoise (1.29-12) unstable; urgency=medium * Team upload. * gcc-14.patch: new: fix functions implicitly typed. (Closes: #1077153) * hardening.patch: also propagate CPPFLAGS for fortify support. -- Étienne Mollier Wed, 07 Aug 2024 14:20:46 +0200 ampliconnoise (1.29-11) unstable; urgency=medium * Fix the sequence of function definitions to make sure UpdateMinCacheForRow() is known before its first usage Closes: #1066300 * Adjust DEP3 headers and add Forwarded: No (orphaned upstream) * Add missing header file * Standards-Version: 4.7.0 (routine-update) -- Andreas Tille Thu, 11 Apr 2024 09:56:08 +0200 ampliconnoise (1.29-10) unstable; urgency=medium * Fix watchfile to detect new versions on github * Standards-Version: 4.6.0 (routine-update) -- Andreas Tille Fri, 08 Oct 2021 23:00:19 +0200 ampliconnoise (1.29-9) unstable; urgency=medium [ Andreas Tille ] * Fix edam syntax input+output is singular * SEQwiki is deprecated [ Steffen Moeller ] * d/u/metadata: yamllint [ Pranav Ballaney ] * Install example and reference data * Add autopkgtests * Install docs * Add Pranav Ballaney to Uploaders [ Andreas Tille ] * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Remove trailing whitespace in debian/changelog (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Trim trailing whitespace. * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. -- Pranav Ballaney Sun, 19 Jul 2020 13:06:00 +0530 ampliconnoise (1.29-8) unstable; urgency=medium * Set Homepage to automatic clone from googlecode to Github * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 -- Andreas Tille Fri, 19 Oct 2018 14:20:25 +0200 ampliconnoise (1.29-7) unstable; urgency=medium * Moved packaging from SVN to Git * Standards-Version: 4.1.1 -- Andreas Tille Mon, 13 Nov 2017 14:56:48 +0100 ampliconnoise (1.29-6) unstable; urgency=medium [ Steffen Moeller and Jon Ison ] * Introduction of EDAM annotation in debian/upstream/edam [ Andreas Tille ] * Add README.source with status of code copies on Github * Sort out most sensible location for source on Gitgub and point d/watch as well as Source field in d/control to it * cme fix dpkg-control * debhelper 10 * hardening=+all -- Andreas Tille Thu, 17 Nov 2016 11:02:49 +0100 ampliconnoise (1.29-5) unstable; urgency=medium * Fix Mayhem issues by making reading fasta files more robust Closes: #715593, #715594 * Fix remaining hardening issue -- Andreas Tille Fri, 18 Dec 2015 16:05:09 +0100 ampliconnoise (1.29-4) unstable; urgency=medium [ Bas Couwenberg ] * Drop explicit dependency on libgsl0ldbl, rely on ${shlibs:Depends}. Closes: #807177 [ Andreas Tille ] * Verified Mayhem bugs (bugs in Perseus and PerseusD remain) Closes: #715585 -- Andreas Tille Mon, 07 Dec 2015 16:45:40 +0100 ampliconnoise (1.29-3) unstable; urgency=medium [ Bas Couwenberg ] * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. Closes: #804246 [ Andreas Tille ] * cme fix dpkg-control * DEP5 fix -- Andreas Tille Sun, 06 Dec 2015 21:57:05 +0100 ampliconnoise (1.29-2) unstable; urgency=low [ Arthur Marble ] * Fix the FTBFS with clang: - Fixed the non-void function should return a value in FCluster/FCluster.c SplitClusterEven/SplitClusterEven.c Closes: #740029 [ James McCoy ] * Moved debian/upstream to debian/upstream/metadata -- Andreas Tille Tue, 25 Feb 2014 08:57:09 +0100 ampliconnoise (1.29-1) unstable; urgency=medium * New upstream version * debian/control: - cme fix dpkg-control - shorter short decription -- Andreas Tille Sun, 12 Jan 2014 21:14:08 +0100 ampliconnoise (1.28-1) unstable; urgency=low * New upstream version uploaded to Debian * debian/control - cme fix dpkg-control - no need to Build-Depend from quilt - debhelper 9 - Priority: optional - Normalised Vcs fields - Remove duplicated publication information from long description * debian/get-orig-source: Removed because upstream stripped off their tarball * debian/README.source: Removed because it became now unneeded. * debian/doc-base: created * debian/rules: - do not compress pdf files * debian/patches/hardening.patch: Propagate hardening options -- Andreas Tille Tue, 30 Jul 2013 09:49:02 +0200 ampliconnoise (1.28-0ubuntu2) precise; urgency=low * Apply patch for segfault on attempt to load non-FASTA files -- Tim Booth Thu, 27 Jun 2013 18:06:14 +0100 ampliconnoise (1.28-0ubuntu1) precise; urgency=low * New upstream * Upstream tarball now free of junk so using pristine version * MPI versions of most things have now vanished -- Tim Booth Thu, 14 Mar 2013 16:40:12 +0000 ampliconnoise (1.25-2) UNRELEASED; urgency=low * debian/upstream: Add citation information * debian/watch: Fixed googlecode URL * debian/copyright: - DEP5 - Add Files-Excluded to document what was removed from original source -- Andreas Tille Wed, 16 May 2012 16:22:08 +0200 ampliconnoise (1.25-1) unstable; urgency=low [ Steffen sponsoring Tim's update ] * Removed Steffen from uploader's list * Removing emacs-typical backup files from source tree -- Tim Booth Sun, 21 Aug 2011 13:06:37 +0200 ampliconnoise (1.25-1) lucid; urgency=low * Rebuild for new version - minor fix from upstream -- Tim Booth Wed, 17 Aug 2011 16:11:35 +0100 ampliconnoise (1.24-1) unstable; urgency=low * debian/watch: Use googlecode.debian.net to make sure the source tarball will be really found * debian/get-orig-source: Make sure temporary dir will be created, less noisy * debian/copyright: DEP5 format -- Andreas Tille Mon, 11 Jul 2011 19:22:16 +0200 ampliconnoise (1.24-1ubuntu2) lucid; urgency=low * Fix build to use OpenMPI explicitly. Explicitly made build use mpicc.openmpi even if MPICH2 is installed and set as default. * More tweaks to ugly tarball repacking. -- Tim Booth Thu, 07 Jul 2011 17:39:42 +0100 ampliconnoise (1.24-1ubuntu1) lucid; urgency=low * New upstream -- Tim Booth Fri, 20 May 2011 17:04:15 +0100 ampliconnoise (1.22-2) unstable; urgency=low * Initial upload (Closes: #624362). * Helped the (still too complicated) update script. * Added myself to uploaders. [ Tim Booth ] * Included scripts dir, that had been left out -- Steffen Moeller Tue, 03 May 2011 10:55:36 +0200 ampliconnoise (1.22-1ubuntu4) lucid; urgency=low [ Tim Booth ] * Included required data and set paths to find it. * Fixed build dependency on libmpich2-dev * Added a rule to repack the upstream source * Cleanups of boilerplate text in patches and dh files * Added basic manpage (generated from POD) * Included scripts dir, that had been left out [ Andreas Tille ] * debian/control: - Moved package to Debian Med team maintenance and added myself as Uploader - Standards-Version: 3.9.2 (no changes needed) - VCS fields -- Tim Booth Wed, 04 May 2011 16:43:53 +0100 ampliconnoise (1.22-1ubuntu2) lucid; urgency=low * Build for Lucid. -- Tim Booth Wed, 27 Apr 2011 17:40:28 +0100 ampliconnoise (1.22-1) UNRELEASED; urgency=low * Initial packaging. -- Tim Booth Wed, 27 Apr 2011 14:48:11 +0100