mdanalysis (2.7.0-5) unstable; urgency=medium * debian/tests: fix i386 test skips -- Drew Parsons Sat, 10 Aug 2024 19:37:15 +0200 mdanalysis (2.7.0-4) unstable; urgency=medium * i386: skip test_ramachandran, test_hbond_analysis, test_clustering_three_ensembles_two_identical -- Drew Parsons Sat, 10 Aug 2024 10:53:09 +0200 mdanalysis (2.7.0-3) unstable; urgency=medium * use debian/tests/test-mdanalysis to control debci tests - test over all supported python versions - i386: skip test_multiprocess_COG[u4] - s390x: skip many tests. Big-endian support is incomplete. See upstream Issue#1829. -- Drew Parsons Fri, 09 Aug 2024 11:59:17 +0200 mdanalysis (2.7.0-2) unstable; urgency=medium * python3-gsd is only available on little-endian systems (not s390x and other big-endian arches) * run build tests on i386 verbose (-v) to catch stalling tests * debian/tests: run CI verbose -v (again, to catch i386 failure) Closes: #1063325. -- Drew Parsons Thu, 08 Aug 2024 13:01:08 +0200 mdanalysis (2.7.0-1) unstable; urgency=medium [ Andreas Tille ] * New upstream version - supports Python 3.12. Closes: #1071800, #1061811. * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update) * Rules-Requires-Root: no (routine-update) * No tab in license text (routine-update) * Fix field name typo in debian/copyright (Comments ⇒ Comment). * Add upstream metadata [ Drew Parsons ] * Build-Depends: python3-mda-xdrlib * debian patch xdr_type_PR4408.patch applies upstream PR#4408 to fix XDR types. See upstream Issue#4589. * remove generated timestep.cpp during clean. Closes: #1045215. * debian patchdoc_no_mdanalysis_sphinx.patch disables use of custom sphinx theme * Standards-Version: 4.7.0 -- Drew Parsons Sun, 28 Jul 2024 16:38:17 +0200 mdanalysis (2.5.0+dfsg1-2) unstable; urgency=medium * debian patches gsd3_PR4153.diff and gsd3_PR4174.diff apply upstream PR#4153 and #4174 to enable support for gsd 3. -- Drew Parsons Fri, 28 Jul 2023 12:43:14 +0200 mdanalysis (2.5.0+dfsg1-1) unstable; urgency=medium * New upstream release. - Depends: python3-numpy (>= 1.21.0~) - drop Build-Depends: python3-mock (now uses unittest.mock) * reorder Build-Depends by order in setup.py -- Drew Parsons Sun, 18 Jun 2023 00:13:39 +0200 mdanalysis (2.4.2+dfsg1-1) unstable; urgency=medium * New upstream release. - fixes DensityAnalysis for numpy 1.24. Closes: #1027227, -- Drew Parsons Mon, 09 Jan 2023 17:54:02 +0100 mdanalysis (2.4.1+dfsg1-1) unstable; urgency=medium * New upstream release. - update Build-Depends: python3-biopython (>= 1.80) * mark python-mdanalysis-doc as Multi-Arch: foreign * Standards-Version: 4.6.2 -- Drew Parsons Fri, 23 Dec 2022 11:52:12 +0100 mdanalysis (2.3.0+dfsg1-1) unstable; urgency=medium * New upstream release. - applies debian patch tests_floating_point.patch * Build-Depends: pybuild-plugin-pyproject to use pyproject.toml - update Build-Depends: python3-numpy (>= 1.20.0~), python3-networkx (>= 2.0), python3-scipy (>= 1.5.0), python3-gsd (>= 1.9.3~), python3-packaging, python3-fasteners - drop Build-Depends: python3-six * Build-Depends-Indep: python3-pybtex, python3-sphinx-rtd-theme, python3-sphinx-sitemap, python3-sphinxcontrib.bibtex - drop debian patch docs_missing_sphinx_sitemap.patch * Standards-Version: 4.6.1 -- Drew Parsons Mon, 07 Nov 2022 23:10:36 +0100 mdanalysis (2.0.0+dfsg1-4) unstable; urgency=medium * source upload to allow python-mdanalysis-doc to migrate to testing -- Drew Parsons Fri, 18 Feb 2022 17:17:45 +0100 mdanalysis (2.0.0+dfsg1-3) unstable; urgency=medium * provide docs in python-mdanalysis-doc package - Build-Depends: python3-sphinx, python3-msmb-theme, libjs-mathjax - add debian privacy patches * docs_local_mathjax.patch use local mathjax.js script * docs_privacy.patch removes goat counter from footer -- Drew Parsons Sun, 13 Feb 2022 11:48:11 +0100 mdanalysis (2.0.0+dfsg1-2) unstable; urgency=medium * Build with -ffloat-store on i386 to workaround x87 excess precision causing test failures. Thanks Adrian Bunk. * add debian patches to enable successful build of docs - docs_no_logo.patch skips use of logo image files (upstream does not give permission to use them) - docs_missing_sphinx_sitemap.patch skips sphinx_sitemap (not yet packaged for Debian) - docs_sphinx_warnings_are_not_errors.patch stops treating sphinx warnings as errors (needed to ignore inconsistent documentation of analysis.density) - note that the doc package itself is not yet provided * debian patch tests_floating_point.patch fixes test of floating point numbers (upstream Issue#3524) * execute dh_numpy3 after dh_python3 to assign python3-numpy-abi * remove autogenerated files left after dh_auto_clean and pytest -- Drew Parsons Thu, 10 Feb 2022 19:36:31 +0100 mdanalysis (2.0.0+dfsg1-1) unstable; urgency=medium * New upstream release. - Build-Depends: python3-h5py, python3-numpy (>= 1.16.0~), python3-netcdf4 (>= 1.0~), python3-seaborn, python3-sklearn, python3-threadpoolctl - applies debian patch fix_matplotlib_PR2763.patch * Standards-Version: 4.6.0 * add detailed copyright entries (GPL-2 and GPL-3) to debian/copyright, identified by :Copyright: tag in files. CODE_OF_CONDUCT.md is CCA-3.0. * debian/rules override_dh_clean: remove .c cython files * run tests with MPLBACKEND=agg to avoid Xserver (Xvfb) errors * Note that logo files are not used in source (+dfsg) since they are non-free (not free to alter and redistribute alterations) -- Drew Parsons Fri, 03 Sep 2021 03:12:37 +0200 mdanalysis (1.0.0+dfsg1-2) unstable; urgency=medium * Build-Depends: python3-all-dev (needs Python.h), cython3 python3-hypothesis, python3-sklearn (debian/tests also) * python3-mdanalysis Depends: python3-duecredit, Recommends: python3-sklearn * use testsuite for build-time tests with pytest (over all python versions) -- Drew Parsons Wed, 30 Dec 2020 01:56:26 +1100 mdanalysis (1.0.0+dfsg1-1) unstable; urgency=medium * Initial release (Closes: #962440) * debian/rules: pybuild source dir PYBUILD_DIR=package * Build-Depends: python3-numpy (>=1.13.3), python3-biopython (>= 1.71), python3-networkx (>= 1.0), python3-griddataformats (>= 0.4.0), python3-six (>= 1.4.0), python3-mmtf (>= 1.0.0), python3-joblib, python3-scipy (>= 1.0.0), python3-matplotlib (>= 1.5.1), python3-mock, python3-gsd (>= 1.4.0) * Build-Depends: tox, python3-duecredit (to run build-time tests) * debian patches: - docs_use_built_module.patch stops doc build from using raw (unbuilt) source to build docs. Set PYTHONPATH to .pybuild dir. - fix_matplotlib_PR2763.patch applies upstream PR2763 to fix matplotlib API. * But docs are not built yet pending packaging of python3-sphinx-sitemap (see RFP#970811). -- Drew Parsons Thu, 24 Sep 2020 22:21:26 +0800