diff options
author | V3n3RiX <venerix@koprulu.sector> | 2024-04-27 23:59:43 +0100 |
---|---|---|
committer | V3n3RiX <venerix@koprulu.sector> | 2024-04-27 23:59:43 +0100 |
commit | 413421048cc2b0df9a218f0ab3cb151846809eb5 (patch) | |
tree | 3fd887035aa0f5b65d7f147ab77caa98c44c148d /sci-biology/HTSeq | |
parent | 3e42d1577189af123b773dc0f11e5419035308c8 (diff) |
gentoo auto-resync : 27:04:2024 - 23:59:42
Diffstat (limited to 'sci-biology/HTSeq')
-rw-r--r-- | sci-biology/HTSeq/HTSeq-2.0.2.ebuild | 66 | ||||
-rw-r--r-- | sci-biology/HTSeq/HTSeq-9999.ebuild | 66 | ||||
-rw-r--r-- | sci-biology/HTSeq/Manifest | 4 | ||||
-rw-r--r-- | sci-biology/HTSeq/metadata.xml | 12 |
4 files changed, 0 insertions, 148 deletions
diff --git a/sci-biology/HTSeq/HTSeq-2.0.2.ebuild b/sci-biology/HTSeq/HTSeq-2.0.2.ebuild deleted file mode 100644 index b4b7974e60d0..000000000000 --- a/sci-biology/HTSeq/HTSeq-2.0.2.ebuild +++ /dev/null @@ -1,66 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_IN_SOURCE_BUILD=1 -PYTHON_COMPAT=( python3_{9..11} ) - -inherit distutils-r1 flag-o-matic - -DESCRIPTION="Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files" -HOMEPAGE="https://htseq.readthedocs.io/" - -if [[ ${PV} == *9999 ]]; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/htseq/htseq.git" -else - SRC_URI="https://github.com/htseq/htseq/archive/release_${PV}.tar.gz -> ${P}.gh.tar.gz" - - S="${WORKDIR}"/htseq-release_${PV} - KEYWORDS="~amd64" -fi - -LICENSE="GPL-3+" -SLOT="0" - -RDEPEND=" - dev-python/numpy[${PYTHON_USEDEP}] - sci-biology/pysam[${PYTHON_USEDEP}]" -DEPEND="${RDEPEND} - test? ( - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - )" -BDEPEND=" - >=dev-lang/swig-3.0.8 - dev-python/cython[${PYTHON_USEDEP}]" - -distutils_enable_tests pytest - -src_configure() { - # mask broken asserts in src/step_vector.h:72 - append-cppflags -DNDEBUG - - distutils-r1_src_configure -} - -python_test() { - distutils_install_for_testing - - # Due to the build directories creating a competing - # hierarchy, we move to the test/ dir to avoid implicitly - # injecting the root HTSeq/ dir into the PYTHONPATH, - # which leads the python module lookup astray: - # ${PWD} - # ├── build - # │ ├── lib - # │ │ └── HTSeq - # │ [...] - # ├── HTSeq - # └── test - cd test/ || die - ln -s ../example_data || die - epytest -} diff --git a/sci-biology/HTSeq/HTSeq-9999.ebuild b/sci-biology/HTSeq/HTSeq-9999.ebuild deleted file mode 100644 index b4b7974e60d0..000000000000 --- a/sci-biology/HTSeq/HTSeq-9999.ebuild +++ /dev/null @@ -1,66 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DISTUTILS_IN_SOURCE_BUILD=1 -PYTHON_COMPAT=( python3_{9..11} ) - -inherit distutils-r1 flag-o-matic - -DESCRIPTION="Python support for SAM/BAM/Bowtie/FASTA/Q/GFF/GTF files" -HOMEPAGE="https://htseq.readthedocs.io/" - -if [[ ${PV} == *9999 ]]; then - inherit git-r3 - EGIT_REPO_URI="https://github.com/htseq/htseq.git" -else - SRC_URI="https://github.com/htseq/htseq/archive/release_${PV}.tar.gz -> ${P}.gh.tar.gz" - - S="${WORKDIR}"/htseq-release_${PV} - KEYWORDS="~amd64" -fi - -LICENSE="GPL-3+" -SLOT="0" - -RDEPEND=" - dev-python/numpy[${PYTHON_USEDEP}] - sci-biology/pysam[${PYTHON_USEDEP}]" -DEPEND="${RDEPEND} - test? ( - dev-python/matplotlib[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - )" -BDEPEND=" - >=dev-lang/swig-3.0.8 - dev-python/cython[${PYTHON_USEDEP}]" - -distutils_enable_tests pytest - -src_configure() { - # mask broken asserts in src/step_vector.h:72 - append-cppflags -DNDEBUG - - distutils-r1_src_configure -} - -python_test() { - distutils_install_for_testing - - # Due to the build directories creating a competing - # hierarchy, we move to the test/ dir to avoid implicitly - # injecting the root HTSeq/ dir into the PYTHONPATH, - # which leads the python module lookup astray: - # ${PWD} - # ├── build - # │ ├── lib - # │ │ └── HTSeq - # │ [...] - # ├── HTSeq - # └── test - cd test/ || die - ln -s ../example_data || die - epytest -} diff --git a/sci-biology/HTSeq/Manifest b/sci-biology/HTSeq/Manifest deleted file mode 100644 index 052df8b8e9b4..000000000000 --- a/sci-biology/HTSeq/Manifest +++ /dev/null @@ -1,4 +0,0 @@ -DIST HTSeq-2.0.2.gh.tar.gz 48468261 BLAKE2B c68ec67906f3cf78954e94214b82fd51bc19e0c505f994a3df4bfc682d804fa26f4883e9a8fa1e8ddf1e4f8ba8690d605705ebdd2d1695470984c2f04b6a19ce SHA512 96c0b4de6c9cfa9e405f02e366ecfed63bb0dba0ab76fe872f6f48b52a4956b08fa75efa4b1e4c6e4560e34b4e2921bf1ec9671831226ad415ed421a88ec3f6d -EBUILD HTSeq-2.0.2.ebuild 1530 BLAKE2B 1a6bcac47e4f7b92e627e8982664061f6eea9961ea4bb9f3610a5d10ab75bfa87292314fdc92e7bfbc81897aea5567af7e49d27be61c7a575995bdbb35b4ac04 SHA512 4ea3d3733f87952b0c46449f95d740ed5be7abdf92f951f6c2773173d319508552baf744c9619d6859eb84aa730f0e265f7a0c15be095063adec2e41ca685a37 -EBUILD HTSeq-9999.ebuild 1530 BLAKE2B 1a6bcac47e4f7b92e627e8982664061f6eea9961ea4bb9f3610a5d10ab75bfa87292314fdc92e7bfbc81897aea5567af7e49d27be61c7a575995bdbb35b4ac04 SHA512 4ea3d3733f87952b0c46449f95d740ed5be7abdf92f951f6c2773173d319508552baf744c9619d6859eb84aa730f0e265f7a0c15be095063adec2e41ca685a37 -MISC metadata.xml 381 BLAKE2B 3f734f3608731ea9d4e893965a96d3abceddbdff04309350ede193ef721eb8faec3e6050850fb4410557536058d9852ae5b02e0d99b9eb79f4b2091b58bcb6f2 SHA512 227191a1fd9fc0e5cbf9091a48eb51baa5bfe97637b5fc27c419b2b2225c03759ca98bc84b7974338bd2b52db5dbf848b084c2b2f1f300b70b94fb209528fe91 diff --git a/sci-biology/HTSeq/metadata.xml b/sci-biology/HTSeq/metadata.xml deleted file mode 100644 index 6ada1a530737..000000000000 --- a/sci-biology/HTSeq/metadata.xml +++ /dev/null @@ -1,12 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="project"> - <email>sci-biology@gentoo.org</email> - <name>Gentoo Biology Project</name> - </maintainer> - <upstream> - <remote-id type="pypi">HTSeq</remote-id> - <remote-id type="github">htseq/htseq</remote-id> - </upstream> -</pkgmetadata> |