python-skbio (0.6.2-4) unstable; urgency=medium * Team upload. * Cherry-picked patch from upstream to fix test that failed under Python 3.13. Closes: #1087690 -- Michael R. Crusoe Tue, 19 Nov 2024 00:02:18 +0100 python-skbio (0.6.2-3) unstable; urgency=medium * Team upload. * Upgrade to cython 3.x. Closes: #1078527 * Cleanup patch metadata to work nicely with gbp pq * Drop many unneeded patches. * Cherry-pick patch from upstream to fix cython segmentation error. * Switch to pybuild-autopkgtest -- Michael R. Crusoe Sat, 28 Sep 2024 11:37:58 +0200 python-skbio (0.6.2-2) unstable; urgency=medium * Team upload. * Remove dependency on python3-lockfile -- Alexandre Detiste Fri, 13 Sep 2024 10:21:12 +0200 python-skbio (0.6.2-1) unstable; urgency=medium * Team upload. * New upstream version 0.6.2 * Add a new dependency on python3-statsmodels * Remove patch applied upstream -- Alexandre Detiste Mon, 12 Aug 2024 22:37:14 +0200 python-skbio (0.6.1-3) unstable; urgency=medium * fix-test_shannon.patch: new: relax floating point comparison. (Closes: #1074745) * d/control: add myself to uploaders. * d/control: declare compliance to standards version 4.7.0. -- Étienne Mollier Wed, 10 Jul 2024 21:38:07 +0200 python-skbio (0.6.1-2) unstable; urgency=medium * Team upload. * d/rules: run dh_numpy3 * d/control: breaks the older packages of unifrac -- Michael R. Crusoe Sat, 29 Jun 2024 17:47:14 +0200 python-skbio (0.6.1-1) experimental; urgency=medium * Team upload. * d/control: simplify architecture specifications by using provisions from the architecture-properties package. * d/salsi-ci.yml: skip i386 build, add link to salsa-ci docs. Stop building in "experimental". * Refreshed patches, removed 3 that were applied upstream * Add new dependency: python3-biom-format * d/control: the docs now need python3-{numpydoc,sphinx-design,sphinx-copybutton} * docs: Added patch to skip the version switcher theme element -- Michael R. Crusoe Tue, 25 Jun 2024 10:48:11 +0200 python-skbio (0.5.9-4) unstable; urgency=medium * Import upstream pull request to make tests working with scipy 1.11 Closes: #1063584 * Remove autogenerated *.c files Closes: #1048510 * Make sure backup of simde-sse2.h Closes: #1049511 -- Andreas Tille Sun, 11 Feb 2024 21:24:22 +0100 python-skbio (0.5.9-3) unstable; urgency=medium * Fix cython issue Closes: #1056047 -- Andreas Tille Fri, 26 Jan 2024 13:44:30 +0100 python-skbio (0.5.9-2) unstable; urgency=medium * Add loong64 support Closes: #1059214 -- Andreas Tille Sun, 24 Dec 2023 12:15:43 +0100 python-skbio (0.5.9-1) unstable; urgency=medium * New upstream version * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update) * Remove patch numpy-1.24_32bit.patch that is missing from debian/patches/series. * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. -- Andreas Tille Sun, 10 Dec 2023 11:16:54 +0100 python-skbio (0.5.8-4.1) unstable; urgency=medium * Non-maintainer upload * Xfail tests known to fail with Python 3.12, see #1056047 * Build with cython3-legacy for now (Closes: #1056873) -- Graham Inggs Sun, 10 Dec 2023 07:58:34 +0000 python-skbio (0.5.8-4) unstable; urgency=medium * Team upload. * Use debian package of SIMDe instead of the snapshot in simde-sse2.h -- Michael R. Crusoe Sun, 12 Feb 2023 11:41:27 +0100 python-skbio (0.5.8-3) unstable; urgency=medium * Exclude 32bit architectures be explicitly setting architectures where package is building properly -- Andreas Tille Mon, 30 Jan 2023 17:29:50 +0100 python-skbio (0.5.8-2exp1) experimental; urgency=medium * Deactivate patch that builds against scipy 1.81. and building against scipy 1.10 Closes: #1029697 -- Andreas Tille Thu, 26 Jan 2023 14:00:40 +0100 python-skbio (0.5.8-2) unstable; urgency=medium [ Michael R. Crusoe ] * d/control,d/patches/local_inventory: python-numpy-doc is no longer built, so remove the build-dep and reference [ Nilesh Patra ] * Adapt to numpy 1.24 Closes: #1029452 -- Andreas Tille Wed, 25 Jan 2023 16:31:24 +0100 python-skbio (0.5.8-1) unstable; urgency=medium [ Étienne Mollier ] * simde patch: remove; implemented upstream. * soften_test patch: remove; implemented upstream. * pandas1.1-ordination-fix.patch: remove; applied upstream. * pandas1.1-valueerror.patch: remove; applied upstream. * local_inventory patch: unfuzz. * sphinx_add_javascript.patch: remove; fixed upstream. * fix-dtype-precision-warnings.patch: remove; applied upstream. * d/rules: include build root in CPPFLAGS; allow source code to find the simde-sse2.h wrapper. [ Nilesh Patra ] * d/watch: Use tags instead of releases as the latter is hard to maintain * New upstream version 0.5.8 * Drop precision_bug.patch, which has been accounted for upstream * Re-diff patches * Add patch to build with older scipy * Add B-D and Depends on python3-h5py * Add patch to work-around a test * Remove override_dh_python3 which is not needed now * Remove B-D on python-matplotlib-doc, update patch to not reference it in intersphinx docs (Closes: #1027826) * Disable i386 in salsa-ci.yml [ Andreas Tille ] * Standards-Version: 4.6.2 (routine-update) * Automated changes by lintian-brush * Update lintian override info format in d/python3-skbio.lintian-overrides on line 5. -- Andreas Tille Thu, 05 Jan 2023 07:57:37 +0100 python-skbio (0.5.6-7) unstable; urgency=medium * Team Upload. * Add patch to fix FTBFS (Closes: #1026474) -- Nilesh Patra Wed, 21 Dec 2022 13:44:41 +0530 python-skbio (0.5.6-6) unstable; urgency=medium * Team upload [ Andreas Tille ] * Remove Tim Booth from Uploaders (Thanks to Tim for all his work) [ Graham Inggs ] * Regenerate the .c files at build time by cython3 Closes: #1000864 * Cherry-pick upstream commit to fix dtypes and warnings Closes: #992676, #999523 * Drop skip_tests_failung_due_to_scipy.patch, no longer needed -- Graham Inggs Fri, 03 Dec 2021 15:24:18 +0000 python-skbio (0.5.6-5) unstable; urgency=medium [ Steffen Moeller ] * Team upload. * d/u/metadata: Added refs to registries * Standards-Version: 4.6.0 * d/rules: - Not installing /usr/lib/python3/dist-packages/benchmarks/ (Closes: #991981) - Improved cleaning to allow repeated builds [ Andreas Tille ] * Replace add_javascript() and add_stylesheet() in sphinx config * For the moment the 4 tests that are broken due to bug #992676 are excluded -- Andreas Tille Wed, 13 Oct 2021 09:17:09 +0200 python-skbio (0.5.6-4) unstable; urgency=medium * Team upload. * debian/control: add depends on various python doc packages to fix intersphinx linking * debian/patches/ignore_failing_patches.patch: drop unneeded patch * Standards-Version: 4.5.1 (routine-update) * Update renamed lintian tag names in lintian overrides. * Silence some lintian false-positives -- Michael R. Crusoe Mon, 01 Feb 2021 11:54:35 +0100 python-skbio (0.5.6-3.1) unstable; urgency=medium * Non-maintainer upload. * Patches: Support Pandas 1.1. (Closes: #972548) -- Stefano Rivera Tue, 20 Oct 2020 11:00:59 -0700 python-skbio (0.5.6-3) unstable; urgency=medium * debhelper-compat 13 (routine-update) * Versioned Build-Depends: python3-hdmedians (>= 0.14.1) Closes: #969649 -- Andreas Tille Tue, 29 Sep 2020 09:20:23 +0200 python-skbio (0.5.6-2) unstable; urgency=medium * Team upload. * Switch from copy of SIMDe to the libsimde-dev package -- Michael R. Crusoe Sun, 19 Apr 2020 17:37:56 +0200 python-skbio (0.5.6-1) unstable; urgency=medium * Team upload. * New upstream version * Remove patches incorporated upstream * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target (routine- update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Run the tests in the autopkgtest the same way we do during build-time: using pytest. Closes: #951222 -- Michael R. Crusoe Tue, 07 Apr 2020 16:07:58 +0200 python-skbio (0.5.5-7) unstable; urgency=medium * Team upload. * Soften the equality test in NjTests.test_nj_dm1 -- Michael R. Crusoe Fri, 28 Feb 2020 15:18:57 +0100 python-skbio (0.5.5-6) unstable; urgency=medium * Team upload. * Need sphinx-common for all builds * Only attempt to build docs in --indep builds * Upsteam uses pytest, so should we -- Michael R. Crusoe Fri, 28 Feb 2020 10:43:48 +0100 python-skbio (0.5.5-5) unstable; urgency=medium * Team upload. * Sort build dependencies into common, -arch, and -indep. * Marked some build-deps as and , as appropriate -- Michael R. Crusoe Sat, 22 Feb 2020 12:55:14 +0100 python-skbio (0.5.5-4) unstable; urgency=medium * Team upload. * Build on any architecture * Add compatability for pandas >= 1.0 (Closes: #950930) * -doc: add ${sphinxdoc:Built-Using} and mark as Multi-Arch: foreign * Standards-Version: 4.5.0 (routine-update) * Set upstream metadata fields: Bug-Submit. -- Michael R. Crusoe Fri, 21 Feb 2020 14:08:14 +0100 python-skbio (0.5.5-3) unstable; urgency=medium * Apply patch from upstream titled "WIP: Build fixes for pandas 0.25.0 and scipy 1.3.0" * Versioned Build-Depends: python3-scipy (>= 1.3.3) * debhelper-compat 12 * Standards-Version: 4.4.1 * Set upstream metadata fields: Repository, Repository-Browse. * Set upstream metadata fields: Bug-Database, Repository. * Ignore 4 tests to not block Python3 migration Closes: #943619, #944042, #945346 * Drop python3-httpretty from Test-Depends since there is no point in trying to run tests that need internet access. * Drop two tests from autopkgtest that are failing due to rounding errors despite this is fixed in build time test by a patch -- Andreas Tille Wed, 18 Dec 2019 16:02:13 +0100 python-skbio (0.5.5-2) unstable; urgency=medium * Upstream has fixed numpy issue Closes: #917693, #918213 * debhelper 12 * Standards-Version: 4.3.0 -- Andreas Tille Tue, 12 Feb 2019 19:34:10 +0100 python-skbio (0.5.5-1) unstable; urgency=medium * New upstream version Closes: #906156 * Standards-Version: 4.2.1 * Build-Depends: python3-hdmedians * Secure URI in copyright format * No override for dh_auto_test * Test-Depends: python3-pytest -- Andreas Tille Mon, 17 Dec 2018 12:03:10 +0100 python-skbio (0.5.2-1) unstable; urgency=medium * New upstream version * Point Vcs fields to salsa.debian.org * Standards-Version: 4.1.4 * debhelper 11 * Fix PYTHONPATH according to a hint given by Piotr Ożarowski Closes: #894326 * Build-Depends: python3-sklearn -- Andreas Tille Thu, 26 Apr 2018 14:52:54 +0200 python-skbio (0.5.1-4) unstable; urgency=medium * Fix PYTHONPATH (thanks for the hint to Andreas Stührk ) Closes: #878820 -- Andreas Tille Tue, 07 Nov 2017 14:31:54 +0100 python-skbio (0.5.1-3) unstable; urgency=medium * Standards-Version: 4.1.1 * Versioned Build-Depends: python3-pandas (>= 0.19.2) * Apply upstream patch dealing with new pandas version Closes: #868962 * Remove privacy breaching logo -- Andreas Tille Fri, 06 Oct 2017 21:13:24 +0200 python-skbio (0.5.1-2) unstable; urgency=medium [ Kevin Murray ] * Pull in upstream's fix of numpy issue Closes: #849176, #848758 [ Andreas Tille ] * debhelper 10 * d/watch: version=4 -- Andreas Tille Sat, 24 Dec 2016 09:27:18 +0100 python-skbio (0.5.1-1) unstable; urgency=medium * New upstream release * Change uploader mail * Use libssw from debian, not internal source -- Kevin Murray Tue, 15 Nov 2016 18:58:14 +1100 python-skbio (0.5.0-1) unstable; urgency=medium [ Kevin Murray ] * Imported Upstream version 0.5.0. NB: This module is now compatible only with Python3. Closes: #831266 * Remove Python2 package (python-skbio) * Bump standards version [ Andreas Tille ] * hardening=+bindnow * drop unused lintian overrides * drop tests of Python2 package -- Andreas Tille Thu, 14 Jul 2016 21:57:49 +0200 python-skbio (0.4.2-1) unstable; urgency=medium * New upstream version * Fix several test failures * Add basic autopkgtests * Don't build pdf figures (fixes unreproducible build) * Secure vcs-git url * Bump Standards-Version to 3.9.7, no changes needed -- Kevin Murray Sat, 13 Feb 2016 11:06:20 -0800 python-skbio (0.4.1-1) unstable; urgency=medium [ Kevin Murray ] * New upstream version * Build documentation and create new python-skbio-doc package (Closes: #806594) [ Andreas Tille ] * Do not require lots of dependencies on local machine just to run clean target -- Kevin Murray Mon, 21 Dec 2015 16:45:00 +1100 python-skbio (0.4.0-3) unstable; urgency=low [ Kevin Murray ] * Revert deletion of CI files in d/rules clean target * Add lintian overrides for duplicated compressed files * Fix my email address in d/control -- Kevin Murray Tue, 13 Oct 2015 22:18:07 +1100 python-skbio (0.4.0-2) unstable; urgency=medium * Update python related build-depends so python3-skbio is built for all supported python3 versions to ease transitions. (Closes: #801658) -- Scott Kitterman Tue, 13 Oct 2015 01:20:31 -0400 python-skbio (0.4.0-1) unstable; urgency=medium * Initial upload to Debian (Closes: #794021) * Add Kevin Murray to uploaders -- Andreas Tille Mon, 03 Aug 2015 21:31:25 +0200 skbio (0.2.3-0biolinux2) trusty; urgency=medium * Initial release for QIIME 1.9.0 * Note that this build does include compiled code and so must be arch=any -- Tim Booth Mon, 23 Feb 2015 17:46:31 +0000