commit: e8025d93b0c85cbfba9b4a6467e2b86f900cb499 Author: Horea Christian <chr <AT> chymera <DOT> eu> AuthorDate: Mon Mar 23 02:30:58 2020 +0000 Commit: Horea Christian <horea.christ <AT> gmail <DOT> com> CommitDate: Mon Mar 23 02:33:02 2020 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=e8025d93
sci-biology/nireg: remove from tree. Unmaintained as of 2016, not used by any packages Signed-off-by: Horea Christian <chr <AT> chymera.eu> sci-biology/nilearn/nilearn-0.6.2.ebuild | 61 ++++++++++++++++++++++++++++++++ sci-biology/nireg/metadata.xml | 15 -------- sci-biology/nireg/nireg-9999.ebuild | 32 ----------------- 3 files changed, 61 insertions(+), 47 deletions(-) diff --git a/sci-biology/nilearn/nilearn-0.6.2.ebuild b/sci-biology/nilearn/nilearn-0.6.2.ebuild new file mode 100644 index 000000000..c532ab0ad --- /dev/null +++ b/sci-biology/nilearn/nilearn-0.6.2.ebuild @@ -0,0 +1,61 @@ +# Copyright 1999-2020 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +PYTHON_COMPAT=( python3_{6,7} ) + +inherit distutils-r1 + +DESCRIPTION="Fast and easy statistical learning on NeuroImaging data" +HOMEPAGE="http://nilearn.github.io/" +SRC_URI="https://github.com/nilearn/nilearn/archive/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="+plot test" + +# Tests attempt to download external data. +RESTRICT="test" + +DEPEND=" + test? ( + ${RDEPEND} + dev-python/nose[${PYTHON_USEDEP}] + ) + dev-python/setuptools[${PYTHON_USEDEP}] + " +RDEPEND=" + dev-python/joblib[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + sci-libs/scikits_learn[${PYTHON_USEDEP}] + sci-libs/scipy[${PYTHON_USEDEP}] + sci-libs/nibabel[${PYTHON_USEDEP}] + plot? ( dev-python/matplotlib[${PYTHON_USEDEP}] )" + +# (Temporarily) commented out, since Gentoo sci-libs/scikits_learn decided it +# is a mess to maintain system joblib usage +#PATCHES=( "${FILESDIR}/0.4.1-bundled_joblib_test.patch" ) + +python_prepare_all() { + # upstream is reluctant to *not* depend on bundled scikits_learn: + # https://github.com/nilearn/nilearn/pull/1398 + # (Temporarily) commented out, since Gentoo sci-libs/scikits_learn decided it + # is a mess to maintain system joblib usage + #local f + #for f in nilearn/{*/*/,*/,}*.py; do + # sed -r \ + # -e '/^from/s/(sklearn|\.|)\.externals\.joblib/joblib/' \ + # -e 's/from (sklearn|\.|)\.externals import/import/' \ + # -i $f || die + #done + + distutils-r1_python_prepare_all +} + +python_test() { + echo "backend: Agg" > matplotlibrc + #MPLCONFIGDIR=. nosetests -v || die + MPLCONFIGDIR=. pytest -vv || die +} diff --git a/sci-biology/nireg/metadata.xml b/sci-biology/nireg/metadata.xml deleted file mode 100644 index d6592a893..000000000 --- a/sci-biology/nireg/metadata.xml +++ /dev/null @@ -1,15 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> -<pkgmetadata> - <maintainer type="person"> - <email>horea.chr...@gmail.com</email> - <name>Horea Christian</name> - </maintainer> - <maintainer type="project"> - <email>s...@gentoo.org</email> - <name>Gentoo Science Project</name> - </maintainer> - <longdescription lang="en"> -Nireg is a package for nytive-python image registration. -</longdescription> -</pkgmetadata> diff --git a/sci-biology/nireg/nireg-9999.ebuild b/sci-biology/nireg/nireg-9999.ebuild deleted file mode 100644 index 980307fff..000000000 --- a/sci-biology/nireg/nireg-9999.ebuild +++ /dev/null @@ -1,32 +0,0 @@ -# Copyright 1999-2016 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=6 - -PYTHON_COMPAT=( python{2_7,3_4,3_5} ) - -inherit distutils-r1 git-r3 - -DESCRIPTION="Image registration package for Python" -HOMEPAGE="http://nipy.org/" -SRC_URI="" -EGIT_REPO_URI="https://github.com/nipy/${PN}" - -LICENSE="BSD" -SLOT="0" -IUSE="test" -KEYWORDS="" - -COMMONDEPEND="dev-python/numpy[${PYTHON_USEDEP}]" -DEPEND="${COMMONDEPEND} - dev-python/setuptools[${PYTHON_USEDEP}] - test? ( dev-python/nose[${PYTHON_USEDEP}] )" -RDEPEND="${COMMONDEPEND} - sci-libs/scipy[${PYTHON_USEDEP}] - sci-libs/nibabel[${PYTHON_USEDEP}] - " - -python_test() { - #nosetests -v || die - python -c "import nireg; nireg.test()" || die -}