stacks (2.66+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version * d/patches: Refresh patches (change_program_exit_to_success.patch, fix_spelling_errors.patch, script-exe-paths) -- Lance Lin Tue, 23 Jan 2024 19:32:21 +0700 stacks (2.65+dfsg-2) unstable; urgency=medium * Team upload. * d/bin/stacks: Fix path to be libexec for executables * d/control: Add python3 and bsdextrautils to Depends Remove python3 from Recommends Add gdb to Suggests * d/tests: Add superficial autopkgtest (needs test data) * d/patches/change_program_exit_to_success.patch: Fix exit codes to be successful and output to stdout * d/patches/offer_help_option_for_stacks_gdb.patch: Gives usage information for options -h, --help, and --version -- Lance Lin Fri, 01 Sep 2023 20:40:42 +0700 stacks (2.65+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version 2.65+dfsg * Standards-Version: 4.6.2 (routine-update) * d/copyright: Update year to 2023 for debian/* * d/patches/RisR.patch: Add patch description * d/patches/script-exe-paths: Update path to be libexec, not lib * d/rules: Update install and links paths for libexec * d/patches/fix_spelling_errors.patch: Fix spelling errors in generated binaries -- Lance Lin Tue, 29 Aug 2023 20:53:01 +0700 stacks (2.62+dfsg-1) unstable; urgency=medium * New upstream version * Standards-Version: 4.6.1 (routine-update) -- Andreas Tille Tue, 27 Sep 2022 12:38:01 +0200 stacks (2.60+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version 2.60+dfsg * Run cme -- Nilesh Patra Tue, 02 Nov 2021 00:08:37 +0530 stacks (2.59+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version 2.59+dfsg -- Nilesh Patra Sun, 15 Aug 2021 19:19:04 +0530 stacks (2.55+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version * Standards-Version: 4.5.1 (routine-update) -- Nilesh Patra Sun, 10 Jan 2021 17:37:28 +0530 stacks (2.54+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version * debhelper-compat 13 (routine-update) * Lintian warned: d/NEWS.Debian -> d/NEWS -- Steffen Moeller Tue, 15 Sep 2020 03:16:02 +0200 stacks (2.53+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version * Updated bio.tools entry to lower-case * Added dependency on littler to allow execution of R script -- Steffen Moeller Sun, 26 Apr 2020 01:41:49 +0200 stacks (2.52+dfsg-1) unstable; urgency=medium * Team upload. * New upstream version * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 12 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Use secure URI in Homepage field. (routine-update) * Removed additional autogenerated files from upstream -- Steffen Moeller Thu, 26 Mar 2020 02:25:20 +0100 stacks (2.41+dfsg-1) unstable; urgency=medium * New upstream version * debhelper 12 * Standards-Version: 4.4.0 * Secure URI in copyright format * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target * dh_auto_install --no-parallel * Removed stacks-web package since the code for the web service was removed from upstream source and the package has no active users according to popcon anyway * Python3 port of two simple scripts using 2to3 -- Andreas Tille Fri, 12 Jul 2019 20:40:33 +0200 stacks (2.2+dfsg-1) unstable; urgency=medium * New upstream version * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * Fix path for Perl interpreter -- Andreas Tille Thu, 13 Sep 2018 09:51:56 +0200 stacks (2.0Beta9+dfsg-1) unstable; urgency=medium * New upstream Beta release -- Andreas Tille Mon, 19 Mar 2018 12:10:23 +0100 stacks (2.0Beta8c+dfsg-1) unstable; urgency=medium * New upstream version * Remove code copy of htslib and use Debian packaged version of htslib instead * Standards-Version: 4.1.3 * debhelper 11 -- Andreas Tille Sun, 18 Feb 2018 17:15:06 +0100 stacks (1.46-1) unstable; urgency=medium * New upstream version * Standards-Version: 4.0.0 (no changes needed) * do not disable PIE Closes: #865668 * d/rules: use DEB_SOURCE -- Andreas Tille Sat, 24 Jun 2017 08:20:24 +0200 stacks (1.44-2) unstable; urgency=medium * d/watch: version=4 * debhelper 10 * stacks-web: Depends s/ | mysql-server/ | virtual-mysql-server/ Closes: #848464 -- Andreas Tille Sat, 17 Dec 2016 17:34:44 +0100 stacks (1.44-1) unstable; urgency=medium [ Kevin Murray ] * Fix script executable paths to reflect debian install directory [ Andreas Tille ] * New upstream version * stacks-web Depends: default-mysql-server | mysql-server -- Andreas Tille Sat, 22 Oct 2016 21:04:24 +0200 stacks (1.42-1) unstable; urgency=medium * New upstream version * hardening -pie -- Andreas Tille Sat, 13 Aug 2016 10:49:42 +0200 stacks (1.40-1) unstable; urgency=medium * New upstream version * cme fix dpkg-control * Build-Depends: samtools to ensure that package builds only on those architectures where samtools is available -- Andreas Tille Thu, 19 May 2016 12:55:47 +0200 stacks (1.38-1) unstable; urgency=medium * New upstream version * debian/control: s/php5/php/ Closes: #821664 * Better hardening -- Andreas Tille Tue, 19 Apr 2016 10:45:21 +0200 stacks (1.37-1) unstable; urgency=medium * New upstream version * Moved from SVN to Git * cme fix dpkg-control -- Andreas Tille Thu, 10 Mar 2016 23:31:22 +0100 stacks (1.35-1) unstable; urgency=medium * New upstream version -- Andreas Tille Tue, 22 Sep 2015 21:05:58 +0200 stacks (1.34-1) unstable; urgency=medium * New upstream version -- Andreas Tille Mon, 27 Jul 2015 17:58:43 +0200 stacks (1.32-1) unstable; urgency=medium * New upstream version -- Andreas Tille Mon, 13 Jul 2015 19:52:06 +0200 stacks (1.25-1) unstable; urgency=medium * Initial upload to Debian Closes: #778832 -- Andreas Tille Thu, 19 Feb 2015 18:31:48 +0100 stacks (1.25-0biolinux2) trusty; urgency=medium * Correct silly cut-and-paste-o in control file -- Tim Booth Thu, 19 Feb 2015 16:52:53 +0000 stacks (1.25-0biolinux1) trusty; urgency=medium * New upstream * Re-work stacks-setup-database to make databases named by project * ...and to enable database deletion * Improve the help you get from "stacks help" -- Tim Booth Wed, 18 Feb 2015 11:34:22 +0000 stacks (1.24-0ubuntu4) trusty; urgency=medium * Change web path back to /stacks rather than stacks-web, just leaving the Apache config fragment with that name. -- Tim Booth Thu, 29 Jan 2015 11:06:58 +0000 stacks (1.24-0ubuntu3) trusty; urgency=low * Set PATH before calling any Stacks program in the wrapper -- Tim Booth Fri, 23 Jan 2015 14:10:55 +0000 stacks (1.24-0ubuntu2) trusty; urgency=medium * Initial release. * Make stacks package plus stack-web for the web stuff * Require sparsehash >2 -- Tim Booth Thu, 15 Jan 2015 18:50:45 +0000