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# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
PYTHON_COMPAT=( python3_{8..10} )
PYTHON_REQ_USE="threads(+)"
inherit fortran-2 distutils-r1 flag-o-matic toolchain-funcs
# upstream is slacking forever with doc updates
DOC_PV=1.7.1
DESCRIPTION="Scientific algorithms library for Python"
HOMEPAGE="https://www.scipy.org/"
SRC_URI="
mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz
doc? (
https://docs.scipy.org/doc/${PN}-${DOC_PV}/${PN}-html-${DOC_PV}.zip
https://docs.scipy.org/doc/${PN}-${DOC_PV}/${PN}-ref-${DOC_PV}.pdf
)"
LICENSE="BSD LGPL-2"
SLOT="0"
KEYWORDS="~amd64 ~arm ~arm64 ~hppa ~ia64 ~riscv ~s390 ~sparc ~x86"
IUSE="doc +pythran sparse"
DEPEND="
>=dev-python/numpy-1.16.5[lapack,${PYTHON_USEDEP}]
sci-libs/arpack:0=
virtual/cblas
virtual/lapack
sparse? ( sci-libs/umfpack:0= )"
RDEPEND="${DEPEND}
dev-python/pillow[${PYTHON_USEDEP}]"
BDEPEND="
dev-lang/swig
>=dev-python/cython-0.29.18[${PYTHON_USEDEP}]
dev-python/pybind11[${PYTHON_USEDEP}]
virtual/pkgconfig
doc? ( app-arch/unzip )
pythran? ( dev-python/pythran[${PYTHON_USEDEP}] )
test? (
dev-python/nose[${PYTHON_USEDEP}]
)"
DISTUTILS_IN_SOURCE_BUILD=1
distutils_enable_tests pytest
PATCHES=(
"${FILESDIR}"/${PN}-1.7.1-pythran-tests-32-bit.patch
)
src_unpack() {
default
if use doc; then
unzip -qo "${DISTDIR}"/${PN}-html-${DOC_PV}.zip -d html || die
fi
}
pc_incdir() {
$(tc-getPKG_CONFIG) --cflags-only-I $@ | \
sed -e 's/^-I//' -e 's/[ ]*-I/:/g' -e 's/[ ]*$//' -e 's|^:||'
}
pc_libdir() {
$(tc-getPKG_CONFIG) --libs-only-L $@ | \
sed -e 's/^-L//' -e 's/[ ]*-L/:/g' -e 's/[ ]*$//' -e 's|^:||'
}
pc_libs() {
$(tc-getPKG_CONFIG) --libs-only-l $@ | \
sed -e 's/[ ]-l*\(pthread\|m\)\([ ]\|$\)//g' \
-e 's/^-l//' -e 's/[ ]*-l/,/g' -e 's/[ ]*$//' \
| tr ',' '\n' | sort -u | tr '\n' ',' | sed -e 's|,$||'
}
python_prepare_all() {
# scipy automatically detects libraries by default
export {FFTW,FFTW3,UMFPACK}=None
use sparse && unset UMFPACK
# the missing symbols are in -lpythonX.Y, but since the version can
# differ, we just introduce the same scaryness as on Linux/ELF
[[ ${CHOST} == *-darwin* ]] \
&& append-ldflags -bundle "-undefined dynamic_lookup" \
|| append-ldflags -shared
[[ -z ${FC} ]] && export FC="$(tc-getFC)"
# hack to force F77 to be FC until bug #278772 is fixed
[[ -z ${F77} ]] && export F77="$(tc-getFC)"
export F90="${FC}"
export SCIPY_FCONFIG="config_fc --noopt --noarch"
append-fflags -fPIC
local libdir="${EPREFIX}"/usr/$(get_libdir)
cat >> site.cfg <<-EOF || die
[blas]
include_dirs = $(pc_incdir cblas)
library_dirs = $(pc_libdir cblas blas):${libdir}
blas_libs = $(pc_libs cblas blas)
[lapack]
library_dirs = $(pc_libdir lapack):${libdir}
lapack_libs = $(pc_libs lapack)
EOF
cat >> setup.cfg <<-EOF || die
[options]
zip_safe = False
EOF
# TODO
sed -e "s:== 'levy_stable':in ('levy_stable', 'crystalball', 'ncf'):" \
-i scipy/stats/tests/test_continuous_basic.py || die
# Skip known-failing test. Broken on all versions in Gentoo for years.
# bug #743295
sed -e 's:test_bisplev_integer_overflow:_&:' \
-i scipy/interpolate/tests/test_fitpack.py || die
# Skip a few 32-bit related failures
if use x86 ; then
# TODO: Tidy this up and switch to epytest
sed -i -e 's:test_nd_axis_m1:_&:' \
-e 's:test_nd_axis_0:_&:' \
-e 's:test_maxiter_worsening:_&:' \
-e 's:test_pdist_jensenshannon_iris:_&:' \
-e 's:test_align_vectors_single_vector:_&:' \
scipy/signal/tests/test_spectral.py \
scipy/sparse/linalg/isolve/tests/test_iterative.py \
scipy/spatial/tests/test_distance.py \
scipy/spatial/transform/tests/test_rotation.py || die
fi
if has_version ">=sci-libs/lapack-3.10"; then
sed -e 's:test_sort(:_&:' \
-i scipy/linalg/tests/test_decomp.py || die
sed -e 's:test_solve_discrete_are:_&:' \
-i scipy/linalg/tests/test_solvers.py || die
fi
distutils-r1_python_prepare_all
}
python_configure_all() {
export SCIPY_USE_PYTHRAN=$(usex pythran 1 0)
# bug 721860
test-flag-FC -fallow-argument-mismatch &&
append-fflags -fallow-argument-mismatch
}
python_compile() {
# FIXME: parallel python building fails, bug #614464
export MAKEOPTS=-j1
${EPYTHON} tools/cythonize.py || die
distutils-r1_python_compile \
${SCIPY_FCONFIG}
}
python_test() {
# fails with bdist_egg. should it be fixed in distutils-r1 eclass?
distutils_install_for_testing ${SCIPY_FCONFIG}
cd "${TEST_DIR}/lib" || die "no ${TEST_DIR} available"
PYTHONPATH=. "${EPYTHON}" -c "
import scipy, sys
r = scipy.test('fast', verbose=2)
sys.exit(0 if r else 1)" || die "Tests fail with ${EPYTHON}"
}
python_install_all() {
use doc && \
local DOCS=( "${DISTDIR}"/${PN}-ref-${DOC_PV}.pdf ) \
local HTML_DOCS=( "${WORKDIR}"/html/. )
distutils-r1_python_install_all
}
python_install() {
distutils-r1_python_install ${SCIPY_FCONFIG}
python_optimize
}
pkg_postinst() {
elog "You might want to set the variable SCIPY_PIL_IMAGE_VIEWER"
elog "to your prefered image viewer. Example:"
elog " echo \"export SCIPY_PIL_IMAGE_VIEWER=display\" >> ~/.bashrc"
}
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