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 <crusoe@debian.org> 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 <tille@debian.org> Sun, 11 Feb 2024 21:24:22 +0100
python-skbio (0.5.9-3) unstable; urgency=medium
* Fix cython issue
Closes: #1056047
-- Andreas Tille <tille@debian.org> Fri, 26 Jan 2024 13:44:30 +0100
python-skbio (0.5.9-2) unstable; urgency=medium
* Add loong64 support
Closes: #1059214
-- Andreas Tille <tille@debian.org> 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 <tille@debian.org> 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 <ginggs@debian.org> 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 <crusoe@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <nilesh@debian.org> 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 <ginggs@debian.org> 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 <tille@debian.org> 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 <crusoe@debian.org> 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 <stefanor@debian.org> 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 <tille@debian.org> 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 <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <!nodoc> and <!nocheck>, as appropriate
-- Michael R. Crusoe <michael.crusoe@gmail.com> 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 <michael.crusoe@gmail.com> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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
<andy@hammerhartes.de>)
Closes: #878820
-- Andreas Tille <tille@debian.org> 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 <tille@debian.org> 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 <tille@debian.org> 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 <kdmfoss@gmail.com> 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 <tille@debian.org> 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 <kdmfoss@gmail.com> 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 <kdmfoss@gmail.com> 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 <kdmfoss@gmail.com> 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 <scott@kitterman.com> 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 <kevin@kdmurray.id.au> to uploaders
-- Andreas Tille <tille@debian.org> 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 <tbooth@ceh.ac.uk> Mon, 23 Feb 2015 17:46:31 +0000