Date: Sun, 17 Dec 2023 19:01:52 GMT From: Yuri Victorovich <yuri@FreeBSD.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org Subject: git: a9aeb9e24985 - main - science/py-dipy: update 1.7.0 =?utf-8?Q?=E2=86=92?= 1.8.0 Message-ID: <202312171901.3BHJ1qAd055376@gitrepo.freebsd.org>
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The branch main has been updated by yuri: URL: https://cgit.FreeBSD.org/ports/commit/?id=a9aeb9e2498534106633e6510e029bd86be77928 commit a9aeb9e2498534106633e6510e029bd86be77928 Author: Yuri Victorovich <yuri@FreeBSD.org> AuthorDate: 2023-12-17 19:01:28 +0000 Commit: Yuri Victorovich <yuri@FreeBSD.org> CommitDate: 2023-12-17 19:01:49 +0000 science/py-dipy: update 1.7.0 → 1.8.0 Reported by: portscout --- science/py-dipy/Makefile | 18 +- science/py-dipy/distinfo | 6 +- science/py-dipy/files/patch-pyproject.toml | 24 + science/py-dipy/pkg-plist | 1118 +++++++++++++++++++++++++++- 4 files changed, 1153 insertions(+), 13 deletions(-) diff --git a/science/py-dipy/Makefile b/science/py-dipy/Makefile index 77cf214c7636..5df423531231 100644 --- a/science/py-dipy/Makefile +++ b/science/py-dipy/Makefile @@ -1,5 +1,5 @@ PORTNAME= dipy -DISTVERSION= 1.7.0 +DISTVERSION= 1.8.0 CATEGORIES= science python MASTER_SITES= PYPI PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} @@ -15,8 +15,11 @@ PY_DEPENDS= ${PYTHON_PKGNAMEPREFIX}h5py>0:science/py-h5py@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}nibabel>0:science/py-nibabel@${PY_FLAVOR} \ ${PYNUMPY} \ ${PYTHON_PKGNAMEPREFIX}scipy>0:science/py-scipy@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}tqdm>0:misc/py-tqdm@${PY_FLAVOR} -BUILD_DEPENDS= ${PY_DEPENDS} + ${PYTHON_PKGNAMEPREFIX}tqdm>0:misc/py-tqdm@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}trx-python>0:science/py-trx-python@${PY_FLAVOR} +BUILD_DEPENDS= ${PY_DEPENDS} \ + ${PYTHON_PKGNAMEPREFIX}meson-python>0:devel/meson-python@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}wheel>0:devel/py-wheel@${PY_FLAVOR} RUN_DEPENDS= ${PY_DEPENDS} TEST_DEPENDS= ${PYTHON_PKGNAMEPREFIX}pandas>0:math/py-pandas@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}scikit-learn>0:science/py-scikit-learn@${PY_FLAVOR} \ @@ -27,14 +30,17 @@ TEST_DEPENDS+= ${PYTHON_PKGNAMEPREFIX}fury>0:graphics/py-fury@${PY_FLAVOR} \ TEST_DEPENDS+= ${PYTHON_PKGNAMEPREFIX}cvxpy>0:math/py-cvxpy@${PY_FLAVOR} # "doc" extra dependencies, see dipy/info.py USES= python shebangfix -USE_PYTHON= distutils cython concurrent autoplist pytest # pkg-plist also exists and contains files missing from the python-generated plist +USE_PYTHON= pep517 concurrent cython pytest # autoplist is broken: it produces incorrect entries and unnecessary files are also placed under doc/ -SHEBANG_GLOB= *.sh +SHEBANG_GLOB= *.sh *.py TEST_ENV= ${MAKE_ENV} PYTHONPATH=${STAGEDIR}${PYTHONPREFIX_SITELIBDIR} post-install: - ${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/${PORTNAME}/*/*.so + # strip binaries + @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/${PORTNAME}/*/*.so + # remove doc files + @${RM} -rf ${STAGEDIR}${PREFIX}/doc do-test: cd ${WRKSRC} && ${SETENV} ${TEST_ENV} tools/ci/run_tests.sh diff --git a/science/py-dipy/distinfo b/science/py-dipy/distinfo index d31d0a143861..2abe0c2f1a9e 100644 --- a/science/py-dipy/distinfo +++ b/science/py-dipy/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1686151055 -SHA256 (dipy-1.7.0.tar.gz) = 59bb647128aae7793215c813bb8ea35dae260ac9f0d938c724064f0af5a05cc3 -SIZE (dipy-1.7.0.tar.gz) = 12389209 +TIMESTAMP = 1702799716 +SHA256 (dipy-1.8.0.tar.gz) = cc3845585b6ccd5d7bf43094d52a00eb73111072eee36c2149fabdb1b071f008 +SIZE (dipy-1.8.0.tar.gz) = 6494141 diff --git a/science/py-dipy/files/patch-pyproject.toml b/science/py-dipy/files/patch-pyproject.toml new file mode 100644 index 000000000000..d37ccaa7aeb2 --- /dev/null +++ b/science/py-dipy/files/patch-pyproject.toml @@ -0,0 +1,24 @@ +--- pyproject.toml.orig 2023-12-17 07:57:19 UTC ++++ pyproject.toml +@@ -137,10 +137,10 @@ requires = [ + "packaging>21.0", + "wheel", + "numpy==1.19.5; python_version=='3.8' and platform_python_implementation != 'PyPy'", +- "numpy==1.22.4; python_version=='3.9' and platform_python_implementation != 'PyPy'", +- "numpy==1.22.4; python_version=='3.10' and platform_system=='Windows' and platform_python_implementation != 'PyPy'", +- "numpy==1.22.4; python_version=='3.10' and platform_system != 'Windows' and platform_python_implementation != 'PyPy'", +- "numpy==1.23.3; python_version=='3.11' and platform_python_implementation != 'PyPy'", ++ "numpy>=1.22.4; python_version=='3.9' and platform_python_implementation != 'PyPy'", ++ "numpy>=1.22.4; python_version=='3.10' and platform_system=='Windows' and platform_python_implementation != 'PyPy'", ++ "numpy>=1.22.4; python_version=='3.10' and platform_system != 'Windows' and platform_python_implementation != 'PyPy'", ++ "numpy>=1.23.3; python_version=='3.11' and platform_python_implementation != 'PyPy'", + "numpy>=1.26.0b1; python_version>='3.12'", + "numpy; python_version>='3.8' and platform_python_implementation=='PyPy'", + ] +@@ -177,4 +177,4 @@ Metrics = [ + addopts = "--ignore=dipy/testing/decorators.py --ignore-glob='bench*.py' --ignore-glob=**/benchmarks/*" + filterwarnings = [ + 'ignore:.*You do not have FURY installed.*:UserWarning', +-] +\ No newline at end of file ++] diff --git a/science/py-dipy/pkg-plist b/science/py-dipy/pkg-plist index a0aa59d2df04..7c8789a9ee0c 100644 --- a/science/py-dipy/pkg-plist +++ b/science/py-dipy/pkg-plist @@ -1,4 +1,1114 @@ -%%PYTHON_SITELIBDIR%%/dipy/COMMIT_INFO.txt -%%PYTHON_SITELIBDIR%%/dipy/__config__.py -%%PYTHON_SITELIBDIR%%/dipy/__pycache__/__config__.cpython-%%PYTHON_SUFFIX%%.opt-1.pyc -%%PYTHON_SITELIBDIR%%/dipy/__pycache__/__config__.cpython-%%PYTHON_SUFFIX%%.pyc +bin/dipy_align_affine +bin/dipy_align_syn +bin/dipy_apply_transform +bin/dipy_buan_lmm +bin/dipy_buan_profiles +bin/dipy_buan_shapes +bin/dipy_bundlewarp +bin/dipy_correct_motion +bin/dipy_denoise_lpca +bin/dipy_denoise_mppca +bin/dipy_denoise_nlmeans +bin/dipy_denoise_patch2self +bin/dipy_evac_plus +bin/dipy_fetch +bin/dipy_fit_csa +bin/dipy_fit_csd +bin/dipy_fit_dki +bin/dipy_fit_dti +bin/dipy_fit_ivim +bin/dipy_fit_mapmri +bin/dipy_gibbs_ringing +bin/dipy_horizon +bin/dipy_info +bin/dipy_labelsbundles +bin/dipy_mask +bin/dipy_median_otsu +bin/dipy_recobundles +bin/dipy_reslice +bin/dipy_slr +bin/dipy_snr_in_cc +bin/dipy_split +bin/dipy_track +bin/dipy_track_pft +%%PYTHON_SITELIBDIR%%/dipy-1.8.0.dist-info/LICENSE +%%PYTHON_SITELIBDIR%%/dipy-1.8.0.dist-info/METADATA +%%PYTHON_SITELIBDIR%%/dipy-1.8.0.dist-info/RECORD +%%PYTHON_SITELIBDIR%%/dipy-1.8.0.dist-info/WHEEL +%%PYTHON_SITELIBDIR%%/dipy-1.8.0.dist-info/entry_points.txt +%%PYTHON_SITELIBDIR%%/dipy/__init__.py +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/__init__%%PYTHON_EXT_SUFFIX%%.opt-1.pyc +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/__init__%%PYTHON_EXT_SUFFIX%%.pyc +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/conftest%%PYTHON_EXT_SUFFIX%%.opt-1.pyc +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/conftest%%PYTHON_EXT_SUFFIX%%.pyc +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/pkg_info%%PYTHON_EXT_SUFFIX%%.opt-1.pyc +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/pkg_info%%PYTHON_EXT_SUFFIX%%.pyc +%%PYTHON_SITELIBDIR%%/dipy/__pycache__/version%%PYTHON_EXT_SUFFIX%%.opt-1.pyc 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