sci-libs/scikits_learn: Version bump

Package-Manager: portage-2.2.27

3 files changed, 147 insertions, 0 deletions

diff --git a/sci-libs/scikits_learn/Manifest b/sci-libs/scikits_learn/Manifest
index 2e18c12e6c0e..265606265a6d 100644
--- a/sci-libs/scikits_learn/Manifest
+++ b/sci-libs/scikits_learn/Manifest
@@ -1 +1,2 @@
+DIST scikit-learn-0.17.1.tar.gz 7898571 SHA256 9f4cf58e57d81783289fc503caaed1f210bab49b7a6f680bf3c04b1e0a96e5f0 SHA512 5786e04a13225d2433103f1873f2753e332704b98c4c32b840970f763ec1abf0248007089e5ae47e11c66535f05a0d0402715622e6d6f0955ec7961b92e1b2e5 WHIRLPOOL cded0be080aa0e6e5486d2613c007c7ff1ea769b623f60cb97c4e03b2d130c53b66e9c22a20d644c61cd82eb8b460024a2b84365ff846aacfc07bf49a6bef0ac
 DIST scikit-learn-0.17.tar.gz 7834903 SHA256 23a5b6804524cb2cd54d8310010169511c7633dcf69af7439747eec02677f314 SHA512 53a76e2f90e27967bf216cd9d7e8051ed847a3381e3b7b7b8236511b4105eef41bd4d3c9f7f71a51db4b0bf99cbd571d7c1b26803757cff04424b70cb834b555 WHIRLPOOL 3a1ef13dafe6eb38389f68bc75dee10bfe141bac6d2782cd11be27ffcb8fe7efdf113b6911a238c6cd141bfe3b69960f47cf0725d0ea033129dff8fb5c57bef4
diff --git a/sci-libs/scikits_learn/files/scikits_learn-0.17.1-system-cblas.patch b/sci-libs/scikits_learn/files/scikits_learn-0.17.1-system-cblas.patch
new file mode 100644
index 000000000000..42657a7adacc
--- /dev/null
+++ b/sci-libs/scikits_learn/files/scikits_learn-0.17.1-system-cblas.patch
@@ -0,0 +1,30 @@
+diff -Nur scikit-learn-0.17.1.orig/sklearn/_build_utils.py scikit-learn-0.17.1/sklearn/_build_utils.py
+--- scikit-learn-0.17.1.orig/sklearn/_build_utils.py	2016-03-09 00:27:54.756813784 +0000
++++ scikit-learn-0.17.1/sklearn/_build_utils.py	2016-03-09 00:30:09.605118512 +0000
+@@ -23,7 +23,7 @@
+         return False
+ 
+     blas_info = get_info('blas_opt', 0)
+-    if (not blas_info) or atlas_not_found(blas_info):
++    if (not blas_info):
+         cblas_libs = ['cblas']
+         blas_info.pop('libraries', None)
+     else:
+diff -Nur scikit-learn-0.17.1.orig/sklearn/setup.py scikit-learn-0.17.1/sklearn/setup.py
+--- scikit-learn-0.17.1.orig/sklearn/setup.py	2016-03-09 00:27:54.806813156 +0000
++++ scikit-learn-0.17.1/sklearn/setup.py	2016-03-09 00:29:28.215638848 +0000
+@@ -58,14 +58,6 @@
+         libraries=libraries,
+     )
+ 
+-    # some libs needs cblas, fortran-compiled BLAS will not be sufficient
+-    blas_info = get_info('blas_opt', 0)
+-    if (not blas_info) or (
+-            ('NO_ATLAS_INFO', 1) in blas_info.get('define_macros', [])):
+-        config.add_library('cblas',
+-                           sources=[join('src', 'cblas', '*.c')])
+-        warnings.warn(BlasNotFoundError.__doc__)
+-
+     # the following packages depend on cblas, so they have to be build
+     # after the above.
+     config.add_subpackage('linear_model')
diff --git a/sci-libs/scikits_learn/scikits_learn-0.17.1.ebuild b/sci-libs/scikits_learn/scikits_learn-0.17.1.ebuild
new file mode 100644
index 000000000000..865a2079adff
--- /dev/null
+++ b/sci-libs/scikits_learn/scikits_learn-0.17.1.ebuild
@@ -0,0 +1,116 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 python3_{3,4,5} )
+
+inherit distutils-r1 flag-o-matic
+
+MYPN="${PN/scikits_/scikit-}"
+MYP="${MYPN}-${PV}"
+
+DESCRIPTION="Python modules for machine learning and data mining"
+HOMEPAGE="http://scikit-learn.org"
+SRC_URI="mirror://pypi/${MYPN:0:1}/${MYPN}/${MYP}.tar.gz"
+
+LICENSE="BSD"
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="doc examples test"
+
+RDEPEND="
+	dev-python/joblib[${PYTHON_USEDEP}]
+	dev-python/matplotlib[${PYTHON_USEDEP}]
+	dev-python/nose[${PYTHON_USEDEP}]
+	>=dev-python/numpy-1.6.1[lapack,${PYTHON_USEDEP}]
+	sci-libs/scikits[${PYTHON_USEDEP}]
+	>=sci-libs/scipy-0.9[${PYTHON_USEDEP}]
+	virtual/blas
+	virtual/cblas
+	virtual/python-funcsigs[${PYTHON_USEDEP}]
+	"
+DEPEND="
+	dev-python/cython[${PYTHON_USEDEP}]
+	dev-python/numpy[lapack,${PYTHON_USEDEP}]
+	dev-python/setuptools[${PYTHON_USEDEP}]
+	sci-libs/scipy[${PYTHON_USEDEP}]
+	virtual/blas
+	virtual/cblas
+	doc? (
+		dev-python/joblib[${PYTHON_USEDEP}]
+		dev-python/matplotlib[${PYTHON_USEDEP}]
+		dev-python/sphinx[${PYTHON_USEDEP}]
+		)"
+
+S="${WORKDIR}/${MYP}"
+
+PATCHES=( "${FILESDIR}/${P}-system-cblas.patch" )
+
+python_prepare_all() {
+	# bug #397605
+	[[ ${CHOST} == *-darwin* ]] \
+		&& append-ldflags -bundle "-undefined dynamic_lookup" \
+		|| append-ldflags -shared
+
+	# scikits-learn now uses the horrible numpy.distutils automagic
+	export SCIPY_FCONFIG="config_fc --noopt --noarch"
+
+	# use system joblib
+	rm -r sklearn/externals/joblib/* || die
+	echo "from joblib import *" > sklearn/externals/joblib/__init__.py
+	sed -i -e '/joblib\/test/d' sklearn/externals/setup.py || die
+	sed -i -e 's/..externals.joblib/joblib/g' \
+		sklearn/decomposition/tests/test_sparse_pca.py \
+		sklearn/metrics/pairwise.py || die
+
+	rm sklearn/externals/funcsigs.py || die
+	rm sklearn/externals/odict.py || die
+	sed -e 's:from ..externals.funcsigs import signature:from funcsigs import signature:g' \
+		-i sklearn/utils/fixes.py || die
+
+	distutils-r1_python_prepare_all
+}
+
+python_compile() {
+	distutils-r1_python_compile ${SCIPY_FCONFIG}
+}
+
+python_compile_all() {
+	if use doc; then
+		cd "${S}/doc" || die
+		local d="${BUILD_DIR}"/lib
+		ln -s "${S}"/sklearn/datasets/{data,descr,images} \
+			"${d}"/sklearn/datasets || die
+		VARTEXFONTS="${T}"/fonts \
+			MPLCONFIGDIR="${BUILD_DIR}" \
+			PYTHONPATH="${d}" \
+			emake html
+		rm -r "${d}"/sklearn/datasets/{data,descr,images} || die
+	fi
+}
+
+python_test() {
+	# doc builds and runs tests
+	use doc && return
+	distutils_install_for_testing ${SCIPY_FCONFIG}
+	esetup.py \
+		install --root="${T}/test-${EPYTHON}" \
+		--no-compile ${SCIPY_FCONFIG}
+	pushd "${T}/test-${EPYTHON}/$(python_get_sitedir)" || die > /dev/null
+	nosetests -v sklearn --exe || die
+	popd > /dev/null
+}
+
+python_install() {
+	distutils-r1_python_install ${SCIPY_FCONFIG}
+}
+
+python_install_all() {
+	find "${S}" -name \*LICENSE.txt -delete
+	insinto /usr/share/doc/${PF}
+	use doc && doins -r doc/_build/html
+	use examples && doins -r examples
+	distutils-r1_python_install_all
+}