pymatgen (2022.11.7+dfsg1-11+deb12u1) bookworm-security; urgency=medium * CVE-2024-23346 (Closes: #1064514) -- Moritz Mühlenhoff Wed, 28 Aug 2024 15:15:13 +0200 pymatgen (2022.11.7+dfsg1-11) unstable; urgency=medium * debian/tests: run tests verbose to help identify tests that timeout * debian/tests: skip test_rotor_search_rrs (not test_localopt) from test_babel.py. "7th item" for #1031705 was incorrectly identified. -- Drew Parsons Sun, 26 Feb 2023 14:09:26 +0100 pymatgen (2022.11.7+dfsg1-10) unstable; urgency=medium * debian/tests: skip test_localopt from io test_babel.py, which intermittently times out. Closes: #1031705. -- Drew Parsons Sat, 25 Feb 2023 14:07:46 +0100 pymatgen (2022.11.7+dfsg1-9) unstable; urgency=medium * hurd-i386: skip failing build tests, test_pca test_get_info_cohps_to_neighbors test_get_parchg test_as_dict_from_dict test_ir_spectra * clean .c files generated from .pyx -- Drew Parsons Tue, 14 Feb 2023 00:33:10 +0100 pymatgen (2022.11.7+dfsg1-8) unstable; urgency=medium * debian patch stress_fp_approx_2839.patch fixes floating point comparison in test_stress.py for hurd-i386. See https://github.com/materialsproject/pymatgen/issues/2839 * resolve pymatgen/mp_api circular dependency by removing python3-mp-api from Build-Depends and set python3-pymatgen Recommends: python3-mp-api instead of Depends: Skip build-time test_matproj.py (mp_api is only used by ext/matproj.py) and add Depends: python3-mp-api to debian/tests. In practice the matproj tests are skipped anyway since an MP API key is not available. - reinstate debian patch no_mp_api.patch to enable tests to run without mp_api -- Drew Parsons Mon, 13 Feb 2023 11:49:16 +0100 pymatgen (2022.11.7+dfsg1-7) unstable; urgency=medium * skip failing tests - s390x, ppc64: test__generate_nbmax test_evaluate_wavefunc test_fft_mesh_advanced test_fft_mesh_basic test_get_parchg test_n2_45210 test_n2_spin test_standard test_write_unks test_consistency (tests from io/vasp) - hurd-i386: skip all plot tests (matplotlib on hurd fails with _tkinter.TclError: no display name and no $DISPLAY environment variable -- Drew Parsons Wed, 08 Feb 2023 17:07:44 +0100 pymatgen (2022.11.7+dfsg1-6) unstable; urgency=medium * skip failing tests - s390x, ppc64: skip test__generate_G_points - hurd-i386: test_plot * debian/tests: ease maintenance by only skipping run-time tests on debci-tested arches (release arches and riscv64) -- Drew Parsons Wed, 08 Feb 2023 11:54:37 +0100 pymatgen (2022.11.7+dfsg1-5) unstable; urgency=medium * skip failing build tests - s390x, ppc64: test_optics - hurd-i386: test_pca -- Drew Parsons Wed, 08 Feb 2023 09:32:07 +0100 pymatgen (2022.11.7+dfsg1-4) unstable; urgency=medium * skip failing tests - mips64el: test_pca - s390x, ppc64: test_from_file - hurd-i386: test_get_plot -- Drew Parsons Tue, 07 Feb 2023 11:35:19 +0100 pymatgen (2022.11.7+dfsg1-3) unstable; urgency=medium * skip failing tests - arm64, i386, ppc64el, riscv64: test_get_parchg - s390x, ppc64: test_spillage_from_vasprun - hurd-i386: test_structure_environments * Build-Depends: python3-mp-api - drop debian/patches/no_mp_api.patch -- Drew Parsons Mon, 06 Feb 2023 20:01:01 +0100 pymatgen (2022.11.7+dfsg1-2) unstable; urgency=medium * add debian patches - numpy_1.24.patch replaces deprecated (dropped) numpy.int with int and np.complex with complex - no_mp_api.patch uses MPResterLegacy if mp_api is not available - test_piezo_4538090.patch applies upstream commit 4538090 - test_piezo_sensitivity_99b5cd7.patch applies upstream commit 99b5cd7 to fix test_piezo_sensitivity - openbabel_OBAlign.patch fixes path to openbabel - test_lammps_sorted.patch fixes api accessing properties of lammps data objects - skip_nonfree_testfile.patch skips test_CifParserSpringerPauling, since non-free PF*.cif test files are not available - fix_phonon_bandstructures_7ba41e0.patch applies upstream commit 7ba41e0 to fix handling of data structures in phonon bandstructures * pymatgen-test-files is now available, activate build-time and run-time tests * io/qchem is partly broken, skip failing tests: - input: test_from_multi_jobs_file test_from_string test_read_molecule test_read_nbo test_read_negative test_read_plots test_read_write_nbo7 - output: test_all test_custom_smd_write - test_sets.py (all) * skip io tests that fail in chroot: test_CifWriter test_read_write test_init test_get_site_symmetries * Standards-Version: 4.6.2 * use dh-sequences for python3 and sphinxdoc and the make doc build conditional (arch-indep build only) -- Drew Parsons Mon, 06 Feb 2023 01:22:16 +0100 pymatgen (2022.11.7+dfsg1-1) unstable; urgency=medium * New upstream release. - applies/deprecates debian patches test_h5py_byte_string.patch and test_no_internet.patch - Build-Depends: cython3, python3-spglib (>= 2.0.2~) - Build-Depends: pybuild-plugin-pyproject to use pyproject.toml - supports python 3.11 (Closes: #1024075) * drop debian patch skip_tests.patch (tests now fixed) * mark python-pymatgen-doc as Multi-Arch: foreign * Standards-Version: 4.6.1 -- Drew Parsons Sat, 26 Nov 2022 00:25:13 +0100 pymatgen (2022.0.17+dfsg1-1) unstable; urgency=medium * New upstream release - fixes BSPlotterProjectedTest tests. Closes: #1000419. * exclude test_files in debian/copyright (they are now included in the new pymatgen-test-files package) - drop debian patch run_test_local_path.patch * skip tests until the pymatgen-test-file package becomes available * debian patch docs_mathjax_local.patch configures docs to use local mathjax (see Bug#989649) * debian/copyright: list detailed authors for docs_rst/_static/team-map.html (a blend of functions from different projects, all MIT licensed) -- Drew Parsons Tue, 14 Dec 2021 18:28:48 +0100 pymatgen (2022.0.16+dfsg1-1) unstable; urgency=medium * New upstream release. * Build-Depends: python3-phonopy. Closes: 1000432. * update debian patch skip_tests.patch to skip BSPlotterProjectedTest in electronic_structure test_plotter.py (incompatible with matplotlib 3.5). See Bug#1000419. -- Drew Parsons Wed, 24 Nov 2021 15:02:21 +0100 pymatgen (2022.0.14+dfsg1-1) unstable; urgency=medium * New upstream release. - applies debian patches install_data_files.patch and use_TEST_FILES_DIR.patch * update versioned Build-Depends: python3-numpy (>= 1.20.1~), python3-monty (>= 3.0.2~), python3-matplotlib (>= 1.5~), python3-palettable (>= 3.1.1~), python3-spglib (>= 1.9.9.44~), python3-networkx (>= 2.2~), python3-plotly (>= 4.5.0~), python3-ase (>= 3.3~) * debian/rules: remove deprecated replacement of mathjax url * only build docs in arch-independent build * Build-Depends: python3-openbabel (optional supported package) python3-pymatgen Recommends: python3-openbabel -- Drew Parsons Thu, 14 Oct 2021 01:15:42 +0200 pymatgen (2022.0.11+dfsg1-1) unstable; urgency=medium * New upstream release. - applies debian patches drop_feff_input_generation_f67cf7a.patch, skip_phonopy_tests.patch, test_filename_MoS.patch - docs no longer use badge-analysis.svg, badge-main.svg - docs use official ORCID-iD 32x32 logo (orcid.svg), licensed under Creative Commons CC0 1.0 Universal licence * Standards-Version: 4.6.0 * use triple-slash for mathjax reference in docs * run build-time tests using pytest-3, with PMG_TEST_FILES_DIR pointing at toplevel test_files * update debian patch test_no_internet.patch to catch Exceptions (ConnectionError) if internet is not available * add debian patches - use_TEST_FILES_DIR.patch fixes tests to use TEST_FILES_DIR - install_data_files.patch installs missing data files (analysis/solar/am1.5G.dat, io/lammps/templates/md.txt) - skip_tests.patch skips tests (or code) that inappropriately triggers failures * image files in debian/images have been created by Drew Parsons using inkscape to serve in place of github image files for the purpose of preserving privacy in locally installed documentation Licenced under the MIT licence used for the rest of the debian dir (and the pymatgen project) * add debian/tests (autopkgtest) * run tests strictly with pytest-3. "python3.9 -m pytest" fails. * update debian patch test_no_internet.patch to test connection to aiida.materialscloud.org in test_optimade.py -- Drew Parsons Mon, 23 Aug 2021 09:59:25 +0200 pymatgen (2020.12.18+dfsg2-1) unstable; urgency=medium * Initial release (Closes: #962268) * copy test input files for running tests * add debian patches: - test_filename_MoS.patch identifies test file as MoS2_single.pdf not MOS2_single.pdf - skip_failing_WulffShapeTest.patch skips test_get_plotly to avoid index error in WulffShapeTest (test_wulff.py), see https://github.com/materialsproject/pymatgen/issues/2023 - test_no_internet.patch skips tests requiring an internet connection (forbidden by Debian policy for privacy reasons) - skip_phonopy_tests.patch skips TestPhonopyFromForceConstants if phonopy is not present - test_h5py_byte_string.patch treats h5py string data as byte arrays (for h5py v3) - docs_no_local_python.patch removes local source dirs from python system path when building docs - drop_feff_input_generation_f67cf7a.patch applies upstream commit f67cf7a to drop the feff_input_generation executable script - run_test_local_path.patch accesses Vasp test file using full path to enable the test to be launched from other directories - test_lammps_regex_path.patch escapes '+' in path used to find lammps test files (e.g. with DFSG version "+dfsg2" in path) * man pages generated using help2man * remote image files used in docs have been predownloaded into debian/images and installed in html/_images to avoid privacy breaches in online documentation. -- Drew Parsons Tue, 29 Dec 2020 21:17:19 +1100