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Mon, 26 Sep 2022 08:18:33 GMT (envelope-from git) Date: Mon, 26 Sep 2022 08:18:33 GMT Message-Id: <202209260818.28Q8IXPp098407@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: Yuri Victorovich Subject: git: fdebc5b7b2eb - main - biology/py-PySCeS: Update 1.0.2 -> 1.0.3 List-Id: Commits to the main branch of the FreeBSD ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-main List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-dev-commits-ports-main@freebsd.org X-BeenThere: dev-commits-ports-main@freebsd.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: yuri X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: fdebc5b7b2eb21430f474c42198869e82faf059e Auto-Submitted: auto-generated ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; 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mx1.freebsd.org; none X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by yuri: URL: https://cgit.FreeBSD.org/ports/commit/?id=fdebc5b7b2eb21430f474c42198869e82faf059e commit fdebc5b7b2eb21430f474c42198869e82faf059e Author: Yuri Victorovich AuthorDate: 2022-09-26 08:17:38 +0000 Commit: Yuri Victorovich CommitDate: 2022-09-26 08:18:31 +0000 biology/py-PySCeS: Update 1.0.2 -> 1.0.3 Reported by: portscout --- biology/py-PySCeS/Makefile | 18 ++++++++++-------- biology/py-PySCeS/distinfo | 6 +++--- biology/py-PySCeS/files/patch-setup.py | 15 --------------- 3 files changed, 13 insertions(+), 26 deletions(-) diff --git a/biology/py-PySCeS/Makefile b/biology/py-PySCeS/Makefile index 22d55f31307b..e9648cf6acfc 100644 --- a/biology/py-PySCeS/Makefile +++ b/biology/py-PySCeS/Makefile @@ -1,5 +1,5 @@ PORTNAME= PySCeS -DISTVERSION= 1.0.2 +DISTVERSION= 1.0.3 CATEGORIES= biology python MASTER_SITES= CHEESESHOP PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} @@ -13,25 +13,27 @@ LICENSE= BSD3CLAUSE LICENSE_FILE= ${WRKSRC}/LICENCE.txt PY_DEPENDS= ${PYNUMPY} \ - ${PYTHON_PKGNAMEPREFIX}ipython>0:devel/ipython@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}matplotlib>0:math/py-matplotlib@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}nose>0:devel/py-nose@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}python-libsbml>0:biology/py-python-libsbml@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}scipy>0:science/py-scipy@${PY_FLAVOR} -BUILD_DEPENDS= ${PY_DEPENDS} -RUN_DEPENDS= ${PY_DEPENDS} +PY_EXTRA= ${PYTHON_PKGNAMEPREFIX}python-libsbml>0:biology/py-python-libsbml@${PY_FLAVOR} +BUILD_DEPENDS= ${PYTHON_PKGNAMEPREFIX}scikit-build>0:devel/py-scikit-build@${PY_FLAVOR} \ + cmake:devel/cmake-core \ + ${PY_DEPENDS} +RUN_DEPENDS= ${PY_DEPENDS} ${PY_EXTRA} USES= fortran python USE_PYTHON= distutils autoplist LDFLAGS+= -lpython${PYTHON_VER} -shared # see https://github.com/PySCeS/pysces/issues/29 +TEST_ENV= ${MAKE_ENV} PYTHONPATH=${STAGEDIR}${PYTHONPREFIX_SITELIBDIR} + post-install: @${STRIP_CMD} \ ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/pysces/pitcon/pitcon.cpython-${PYTHON_SUFFIX}.so \ ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/pysces/nleq2/nleq2.cpython-${PYTHON_SUFFIX}.so -do-test: install # from section 2.1 Loading PySCeS in http://pysces.sourceforge.net/pdf/userguide.pdf - @${PYTHON_CMD} -c "import pysces; pysces.test();" +do-test: # from section 2.1 Loading PySCeS in http://pysces.sourceforge.net/pdf/userguide.pdf + @${SETENV} ${TEST_ENV} ${PYTHON_CMD} -c "import pysces; pysces.test();" .include diff --git a/biology/py-PySCeS/distinfo b/biology/py-PySCeS/distinfo index 90859705afa6..431efae39ed0 100644 --- a/biology/py-PySCeS/distinfo +++ b/biology/py-PySCeS/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1653078460 -SHA256 (pysces-1.0.2.tar.gz) = da49a292c50152890c8359a0e0b3b6e8204f161fc45960318dbee9798436562f -SIZE (pysces-1.0.2.tar.gz) = 1606306 +TIMESTAMP = 1664176747 +SHA256 (pysces-1.0.3.tar.gz) = 19bb2da5a02b9e5b3e4ef77924d4eaa62505e6ac8c4373f9f3704f2118db0059 +SIZE (pysces-1.0.3.tar.gz) = 1014531 diff --git a/biology/py-PySCeS/files/patch-setup.py b/biology/py-PySCeS/files/patch-setup.py deleted file mode 100644 index c7f868849c6b..000000000000 --- a/biology/py-PySCeS/files/patch-setup.py +++ /dev/null @@ -1,15 +0,0 @@ ---- setup.py.orig 2021-09-14 08:51:28 UTC -+++ setup.py -@@ -284,9 +284,9 @@ mydata_files.append((os.path.join('pysces'), [os.path. - mydata_files.append(('', [os.path.join('pysces', 'pysces.pth')])) - - # JR 2021-08 userguide.pdf included as a symlink to built docs in submodule --mydata_files.append( -- (os.path.join("pysces", "docs"), [os.path.join("pysces", "docs", "userguide.pdf")]) --) -+#mydata_files.append( -+# (os.path.join("pysces", "docs"), [os.path.join("pysces", "docs", "userguide.pdf")]) -+#) - mydata_files.append( - ( - os.path.join('pysces', 'examples'),