Charlie Li
4f0eba1efd
EXT_SUFFIX, according to PEP 3149, refers to the full tag and extension for compiled extension module objects, eg .cpython-311.so, .cpython-313t.so, etc. We do not use the correct semantic meaning, and this usage becomes ambiguous and confusing when tags do not match between bytecode and compiled extension module objects. Rename our PYTHON_EXT_SUFFIX to PYTHON_TAG to align with PEP 3147's specification of a magic tag, which consists of implementation name and shorthand version only. This is meant for bytecode and other files containing this tag in their filename that do not depend on a specific Python ABI for the same version. Chase all existing consumers. Introduce PYTHON_SOABI to align with PEP 3149's specification of a tag, which consists of implementation name, shorthand version and any ABI flags present (this and PYTHON_TAG are identical without ABI flags). This is meant for compiled extension module objects and other files that depend on a specific Python ABI for the same version. Add documentation for these variables that our PYTHON_EXT_SUFFIX never had. PR: 274671 Event: Kitchener-Waterloo Hackathon 202506
39 lines
1.1 KiB
Makefile
39 lines
1.1 KiB
Makefile
PORTNAME= pysam
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DISTVERSIONPREFIX= v
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DISTVERSION= 0.23.0
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PORTREVISION= 1
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CATEGORIES= biology python
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#MASTER_SITES= PYPI # no tests
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PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
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MAINTAINER= yuri@FreeBSD.org
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COMMENT= Python module for reading, manipulating and writing genomic data sets
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WWW= https://github.com/pysam-developers/pysam
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LICENSE= MIT
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LICENSE_FILE= ${WRKSRC}/COPYING
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LIB_DEPENDS= libhts.so:biology/htslib
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RUN_DEPENDS= bcftools:biology/bcftools \
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samtools:biology/samtools
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USES= gmake python
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USE_PYTHON= distutils autoplist cython cython_run pytest # 2 failed, 155 errors, see https://github.com/pysam-developers/pysam/issues/1284
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USE_GITHUB= yes
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GH_ACCOUNT= pysam-developers
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BINARY_ALIAS= make=${GMAKE}
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MAKE_ENV= HTSLIB_MODE=external \
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HTSLIB_LIBRARY_DIR=${LOCALBASE}/lib \
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HTSLIB_INCLUDE_DIR=${LOCALBASE}/include
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TEST_ENV= ${MAKE_ENV} PYTHONPATH=${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}
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TEST_WRKSRC= ${WRKSRC}/tests
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post-install:
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@${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/pysam/lib*${PYTHON_TAG}.so
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# tests as of 0.23.0: 958 passed, 13 skipped, 1 warning in 502.60s (0:08:22)
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.include <bsd.port.mk>
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