diff --git a/biology/py-scikit-bio/Makefile b/biology/py-scikit-bio/Makefile index c2d78cbcac7b..2d1d90692cca 100644 --- a/biology/py-scikit-bio/Makefile +++ b/biology/py-scikit-bio/Makefile @@ -1,43 +1,49 @@ PORTNAME= scikit-bio -PORTVERSION= 0.5.7 -PORTREVISION= 2 +DISTVERSION= 0.5.7 CATEGORIES= biology education python MASTER_SITES= PYPI PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} MAINTAINER= yuri@FreeBSD.org COMMENT= Data structures, algorithms, educational resources for bioinformatics WWW= http://scikit-bio.org/ LICENSE= BSD3CLAUSE LICENSE_FILE= ${WRKSRC}/COPYING.txt BROKEN_aarch64= fails to build: invalid conversion between vector type '__m64' (vector of 1 'long long' value) and integer type 'int' of different size, see https://github.com/biocore/scikit-bio/issues/1816 BUILD_DEPENDS= ${PYNUMPY} RUN_DEPENDS= ${PYNUMPY} \ ${PYTHON_PKGNAMEPREFIX}CacheControl>=0.11.5:www/py-cachecontrol@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}decorator>=3.4.2:devel/py-decorator@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}h5py>=2.9.0:science/py-h5py@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}hdmedians>=0.14.1:math/py-hdmedians@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}ipython>=3.2.0:devel/ipython@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}lockfile>=0.10.2:devel/py-lockfile@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}matplotlib>=1.4.3:math/py-matplotlib@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}natsort>=4.0.3:devel/py-natsort@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}pandas>=1.0.0:math/py-pandas@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}scikit-learn>=0.19.1:science/py-scikit-learn@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}scipy>=1.3.0:science/py-scipy@${PY_FLAVOR} USES= python:3.7+ -USE_PYTHON= distutils cython autoplist +USE_PYTHON= distutils cython autoplist pytest # tests fail to run, see https://github.com/biocore/scikit-bio/issues/1846 + +TEST_ENV= ${MAKE_ENV} PYTHONPATH=${STAGEDIR}${PYTHONPREFIX_SITELIBDIR} CONFLICTS_INSTALL= ${PYTHON_PKGNAMEPREFIX}ddtrace # lib/python3.8/site-packages/benchmarks/__init__.py .include .if ${ARCH} == i386 CFLAGS+= -msse2 # workaround for https://github.com/biocore/scikit-bio/issues/1727 CXXFLAGS+= -msse2 .endif +post-install: + @${STRIP_CMD} \ + ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/skbio/*/*${PYTHON_EXT_SUFFIX}.so \ + ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/skbio/*/*/*${PYTHON_EXT_SUFFIX}.so + .include