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2023-05-10gnu: python-scikit-optimize: Fix build with newer numpy and sklearn....* gnu/packages/patches/python-scikit-optimize-1148.patch, gnu/packages/patches/python-scikit-optimize-1150.patch: New patches. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/python-science.scm (python-scikit-optimize)[source]: Fetch with git and apply patches. Ricardo Wurmus
2023-05-08gnu: python-bottleneck: Honor #:tests? flag....* gnu/packages/python-science.scm (python-bottleneck)[arguments]: Adjust custom 'check phase to honor the #:tests? flag. Efraim Flashner
2023-05-08gnu: python-bottleneck: Update to 1.3.7....* gnu/packages/python-science.scm (python-bottleneck): Update to 1.3.7. Efraim Flashner
2023-04-26gnu: python-distributed: Fix build....* gnu/packages/python-science.scm (python-distributed)[build-system]: Use pyproject-build-system. [arguments]: Hide deprecation warnings from tornado, because they break almost all tests; disable three more tests. Ricardo Wurmus
2023-04-14Merge branch 'master' into core-updates....Conflicts: gnu/local.mk gnu/packages/build-tools.scm gnu/packages/certs.scm gnu/packages/check.scm gnu/packages/compression.scm gnu/packages/cups.scm gnu/packages/fontutils.scm gnu/packages/gnuzilla.scm gnu/packages/guile.scm gnu/packages/ibus.scm gnu/packages/image-processing.scm gnu/packages/linux.scm gnu/packages/music.scm gnu/packages/nss.scm gnu/packages/pdf.scm gnu/packages/python-xyz.scm gnu/packages/qt.scm gnu/packages/ruby.scm gnu/packages/shells.scm gnu/packages/tex.scm gnu/packages/video.scm gnu/packages/vulkan.scm gnu/packages/web.scm gnu/packages/webkit.scm gnu/packages/wm.scm Maxim Cournoyer
2023-04-11gnu: python-scipy: Update to 1.10.1....* gnu/packages/python-science.scm (python-scipy): Update to 1.10.1. [build-system]: Use pyproject-build-system. [arguments]: Add #:build-backend argument. Remove loosen-requirements, build and install phases. [native-inputs]: Remove python-pypa-build. Maxim Cournoyer
2023-03-24gnu: python-scikit-allel: Use pyproject-build-system....* gnu/packages/python-science.scm (python-scikit-allel): Move up to create alphabetic order. [build-system]: Use pyproject-build-system. [arguments]: Provide test flags instead of overriding 'check phase; split out build step into new 'build-ext phase. Disable roh_mhmm tests. Ricardo Wurmus
2023-03-24gnu: Add python-scikit-optimize....* gnu/packages/python-science.scm (python-scikit-optimize): New variable. Ricardo Wurmus
2023-03-21gnu: Add python-libneuroml....* gnu/packages/python-science.scm (python-libneuroml): New variable. Lars-Dominik Braun
2023-03-21gnu: Add python-pylems....* gnu/packages/python-science.scm (python-pylems): New variable. Lars-Dominik Braun
2023-01-08gnu: Add python-pydicom....* gnu/packages/python-science.scm (python-pydicom): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Antero Mejr
2022-12-05gnu: python-sgp4: Move to astronomy....* gnu/packages/astronomy.scm: (python-sgp4): Move here from python-science.scm. [description]: Expand description, annotate acronyms, add link to CelesTrak. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Sharlatan Hellseher
2022-12-05gnu: python-sgp4: Update to 2.21....The latest version passes build on aarch64-linux system. * gnu/packages/python-science.scm (python-sgp4): Update to 2.21. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Sharlatan Hellseher
2022-12-02gnu: python-msgpack-numpy: Update to 0.4.8....* gnu/packages/python-science.scm (python-msgpack-numpy): Update to 0.4.8. Navid Afkhami
2022-11-11gnu: Add python-tspex....* gnu/packages/python-science.scm (python-tspex): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net> Navid Afkhami
2022-11-04gnu: Add python-pyts....* gnu/packages/python-science.scm (python-pyts): New variable. Ricardo Wurmus
2022-10-18gnu: Add python-simple-pid....* gnu/packages/python-science.scm (python-simple-pid): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> jgart
2022-09-29Merge branch 'master' into stagingMarius Bakke
2022-09-28gnu: Add python-simplespectral....* gnu/packages/python-science.scm (python-simplespectral): New variable. Guillaume Le Vaillant
2022-09-27Merge branch 'master' into staging....With resolved conflicts in: gnu/local.mk gnu/packages/crates-io.scm Maxim Cournoyer
2022-09-25gnu: Add python-vaex-core....* gnu/packages/python-science.scm (python-vaex-core): New variable. Ricardo Wurmus
2022-09-18gnu: python-cython: Remove duplicate version....* gnu/packages/python-xyz.scm (python-cython-0.29.32): Remove variable. * gnu/packages/python-science.scm (python-pandas)[native-inputs]: Change from PYTHON-CYTHON-0.29.32 to PYTHON-CYTHON. Marius Bakke
2022-09-18gnu: python-pandas: Update to 1.4.4....* gnu/packages/python-science.scm (python-pandas): Update to 1.4.4. [native-inputs]: Change from PYTHON-CYTHON to PYTHON-CYTHON-0.29.32. Marius Bakke
2022-09-16gnu: python-scipy: Update to 1.9.1....* gnu/packages/python-science.scm (python-scipy): Update to 1.9.1. [source]: Switch to GIT-FETCH. [outputs]: Remove. [arguments]: Don't disable Pythran. Don't configure OpenBLAS which is now discovered by pkg-config. Do a "manual" PEP 517 style build. Make install-doc phase conditional on the presence of Sphinx. Simplify tests. [propagated-inputs]: Add PYTHON-PYTHRAN. [native-inputs]: Remove PERL, WHICH, PYTHON-NUMPYDOC, PYTHON-PYDATA-SPHINX-THEME, PYTHON-SPHINX, and PYTHON-SPHINX-PANELS. Add GCC, PKG-CONFIG, PYTHON-PYPA-BUILD and PYTHON-MESON. Marius Bakke
2022-09-14gnu: python-pingouin: Don't pin scikit-learn version....* gnu/packages/python-science.scm (python-pingouin)[arguments]: Add phase. Marius Bakke
2022-09-11gnu: python-pingouin: Update to 0.5.2....* gnu/packages/python-science.scm (python-pingouin): Update to 0.5.2. [arguments]: Adjust outdated substitution. Marius Bakke
2022-09-10gnu: Add comments to the bottom of a few package modules....This will hopefully discourage patches which add new packages to the bottom of files, as this increases the likelihood of conflicts when applying patches. If there are more specific ways that packages should be arranged in specific modules, this message can be updated accordingly. * gnu/packages/bioconductor.scm: Add comment discouraging adding packages to the bottom of the file. * gnu/packages/bioinformatics.scm: ditto. * gnu/packages/cran.scm: ditto. * gnu/packages/crates-io.scm: ditto. * gnu/packages/emacs-xyz.scm: ditto. * gnu/packages/golang.scm: ditto. * gnu/packages/guile-xyz.scm: ditto. * gnu/packages/haskell-xyz.scm: ditto. * gnu/packages/java.scm: ditto. * gnu/packages/julia-xyz.scm: ditto. * gnu/packages/lisp-xyz.scm: ditto. * gnu/packages/ocaml.scm: ditto. * gnu/packages/perl.scm: ditto. * gnu/packages/python-science.scm: ditto. * gnu/packages/python-xyz.scm: ditto. * gnu/packages/ruby.scm: ditto. * gnu/packages/tex.scm: ditto. Christopher Baines
2022-09-07gnu: python-pyvista: Update to 0.36.1....* gnu/packages/python-science.scm (python-pyvista): Update to 0.36.1. Signed-off-by: Marius Bakke <marius@gnu.org> Paul A. Patience
2022-08-02gnu: python-pyvista: Update to 0.35.2....* gnu/packages/python-science.scm (python-pyvista): Update to 0.35.2. Signed-off-by: Efraim Flashner <efraim@flashner.co.il> Paul A. Patience
2022-08-02gnu: Add python-geosketch....* gnu/packages/python-science.scm (python-geosketch): New variable. Ricardo Wurmus
2022-08-02gnu: Add python-fbpca....* gnu/packages/python-science.scm (python-fbpca): New variable. Ricardo Wurmus
2022-07-15gnu: python-pyvista: Update to 0.35.1....* gnu/packages/python-science (python-pyvista): Update to 0.35.1. Signed-off-by: Christopher Baines <mail@cbaines.net> Paul A. Patience
2022-07-08gnu: Add python-opt-einsum....* gnu/packages/python-science.scm (python-opt-einsum): New variable. Ricardo Wurmus
2022-07-03gnu: Add python-deepdish....* gnu/packages/python-science.scm (python-deepdish): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Antero Mejr
2022-06-26gnu: python-modin: Update to 0.15.1....* gnu/packages/python-science.scm (python-modin): Update to 0.15.1. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Greg Hogan
2022-06-18gnu: python-scikit-image: Update to 0.19.3....* gnu/packages/python-science.scm (python-scikit-image): Update to 0.19.3. Vinicius Monego
2022-06-08gnu: Add PyGLM....* gnu/packages/python-science.scm (python-pyglm): New variable. Eric Bavier
2022-05-31gnu: Remove python2-scipy....* gnu/packages/python-science.scm (python2-scipy): Delete variable. (python-scipy)[properties]: Delete field. Maxim Cournoyer
2022-05-31gnu: Remove python2-weave....* gnu/packages/python-science.scm (python2-weave): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pandas....* gnu/packages/python-science.scm (python2-pandas): Delete variable. (python-pandas): Delete related python2-variant property. Maxim Cournoyer
2022-05-31gnu: python-distributed: Update to 2022.05.2....* gnu/packages/python-science.scm (python-distributed): Update to 2022.05.2. [arguments]: Remove 'sanity-check phase; adjust 'check phase. [propagated-inputs]: Add python-urllib3. [native-inputs]: Add python-pytest-timeout and python-flaky. Ricardo Wurmus
2022-05-29gnu: Add python-gpy....* gnu/packages/python-science.scm (python-gpy): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Wiktor Zelazny
2022-05-29gnu: Add python-paramz....* gnu/packages/python-science.scm (python-paramz): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Wiktor Zelazny
2022-05-29gnu: Add python-climin....* gnu/packages/python-science.scm (python-climin): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Wiktor Zelazny
2022-05-23gnu: Add python-pyvista....* gnu/packages/python-science.scm (python-pyvista): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Paul A. Patience
2022-05-20gnu: Add python-aplus....* gnu/packages/python-science.scm (python-aplus): New variable. Ricardo Wurmus
2022-05-12gnu: python-pingouin: Update to 0.5.1....* gnu/packages/python-science.scm (python-pingouin): Update to 0.5.1. Maxim Cournoyer
2022-05-12gnu: python-pandas: Update to 1.4.2....* gnu/packages/python-science.scm (python-pandas): Update to 1.4.2. Maxim Cournoyer
2022-05-12gnu: python-pandas: Build and run tests in parallel....* gnu/packages/python-science.scm (python-pandas) [phases]{enable-parallel-build}: New phase. {check}: Add xdist -n option. Skip test_memory_usage test. [native-inputs]: Add python-pytest-xdist. Maxim Cournoyer
2022-05-12gnu: python-scipy: Update to 1.8.0 and enable parallel build....* gnu/packages/python-science.scm (python-scipy): Update to 1.8.0. [modules]: New argument. [phases]{disable-broken-tests}: Delete phase. {configure-openblas}: Streamline configuration template. {parallelize-build}: New phase. {install-doc}: Move before 'check phase. Remove now extraneous 'add-installed-pythonpath' call. Remove the SPHINXBUILD and PYVER Make variables, as well as conf.py patching. Provide SPHINXOPTS to build doc in parallel. Simply recursively copy the 'html' output directory to install the doc. {check}: Remove extraneous INPUTS and OUTPUTS arguments. Start tests with the 'runtests.py' launcher, which accepts a '-j' argument to run the tests in parallel. [native-inputs]: Sort inputs. Add python-pytest-xdist and python-threadpoolctl. [home-page]: Update. Maxim Cournoyer
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