Fix for missing clapack_* symbols in scipy, #371099; thanks Francois Bissey for the patches

(Portage version: 2.2.0_alpha62/cvs/Linux x86_64)

2 files changed, 137 insertions, 1 deletions

diff --git a/sci-libs/scipy/ChangeLog b/sci-libs/scipy/ChangeLog
index 87bc6bccf371..15aac03b867c 100644
--- a/sci-libs/scipy/ChangeLog
+++ b/sci-libs/scipy/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-libs/scipy
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-libs/scipy/ChangeLog,v 1.70 2011/10/05 19:30:26 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/scipy/ChangeLog,v 1.71 2011/10/07 15:38:28 jlec Exp $
+
+*scipy-0.9.0-r2 (07 Oct 2011)
+
+  07 Oct 2011; Justin Lecher <jlec@gentoo.org> +scipy-0.9.0-r2.ebuild:
+  Fix for missing clapack_* symbols in scipy, #371099; thanks Francois Bissey
+  for the patches
 
   05 Oct 2011; Justin Lecher <jlec@gentoo.org> scipy-0.9.0.ebuild,
   scipy-0.9.0-r1.ebuild, metadata.xml:
diff --git a/sci-libs/scipy/scipy-0.9.0-r2.ebuild b/sci-libs/scipy/scipy-0.9.0-r2.ebuild
new file mode 100644
index 000000000000..c5cf62435dec
--- /dev/null
+++ b/sci-libs/scipy/scipy-0.9.0-r2.ebuild
@@ -0,0 +1,130 @@
+# Copyright 1999-2011 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-libs/scipy/scipy-0.9.0-r2.ebuild,v 1.1 2011/10/07 15:38:28 jlec Exp $
+
+EAPI="3"
+
+SUPPORT_PYTHON_ABIS="1"
+RESTRICT_PYTHON_ABIS="*-jython"
+
+inherit eutils fortran-2 distutils flag-o-matic toolchain-funcs versionator
+
+SP="${PN}-$(get_version_component_range 1-2)"
+
+DESCRIPTION="Scientific algorithms library for Python"
+HOMEPAGE="http://www.scipy.org/ http://pypi.python.org/pypi/scipy"
+SRC_URI="mirror://sourceforge/${PN}/${P}.tar.gz
+	doc? (
+		http://docs.scipy.org/doc/${P}/${PN}-html.zip -> ${SP}-html.zip
+		http://docs.scipy.org/doc/${P}/${PN}-ref.pdf -> ${SP}-ref.pdf
+	)"
+
+LICENSE="BSD"
+SLOT="0"
+IUSE="doc umfpack"
+KEYWORDS="~amd64 ~ppc ~ppc64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~x86-macos"
+
+CDEPEND="
+	>=dev-python/numpy-1.5
+	media-libs/qhull
+	sci-libs/arpack
+	sci-libs/superlu
+	virtual/cblas
+	virtual/lapack
+	umfpack? ( sci-libs/umfpack )"
+
+DEPEND="${CDEPEND}
+	dev-util/pkgconfig
+	doc? ( app-arch/unzip )
+	umfpack? ( dev-lang/swig )"
+
+RDEPEND="
+	virtual/fortran
+	${CDEPEND}
+	dev-python/imaging"
+
+# buggy test suite - still true for 0.9.0
+#RESTRICT="test"
+
+DOCS="THANKS.txt LATEST.txt TOCHANGE.txt"
+
+pkg_setup() {
+	fortran-2_pkg_setup
+	# scipy automatically detects libraries by default
+	export {FFTW,FFTW3,UMFPACK}=None
+	use umfpack && 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
+}
+
+src_unpack() {
+	unpack ${P}.tar.gz
+	if use doc; then
+		unzip -qo "${DISTDIR}"/${SP}-html.zip -d html || die
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${P}-superlu.patch \
+		"${FILESDIR}"/${P}-qhull.patch
+	rm -rf ./scipy/sparse/linalg/dsolve/SuperLU ./scipy/spatial/qhull
+	local libdir="${EPREFIX}"/usr/$(get_libdir)
+	cat >> site.cfg <<-EOF
+		[blas]
+		include_dirs = $(pkg-config --cflags-only-I \
+			cblas | sed -e 's/^-I//' -e 's/ -I/:/g')
+		library_dirs = $(pkg-config --libs-only-L \
+			cblas blas | sed -e 's/^-L//' -e 's/ -L/:/g' -e 's/ //g'):${libdir}
+		blas_libs = $(pkg-config --libs-only-l \
+			cblas blas | sed -e 's/^-l//' -e 's/ -l/, /g' -e 's/,.pthread//g')
+		[lapack]
+		library_dirs = $(pkg-config --libs-only-L \
+			lapack | sed -e 's/^-L//' -e 's/ -L/:/g' -e 's/ //g'):${libdir}
+		lapack_libs = $(pkg-config --libs-only-l \
+			lapack | sed -e 's/^-l//' -e 's/ -l/, /g' -e 's/,.pthread//g')
+	EOF
+}
+
+src_compile() {
+	distutils_src_compile ${SCIPY_FCONFIG}
+}
+
+src_test() {
+	testing() {
+		"$(PYTHON)" setup.py build -b "build-${PYTHON_ABI}" install \
+			--home="${S}/test-${PYTHON_ABI}" --no-compile ${SCIPY_FCONFIG} || die "install test failed"
+		pushd "${S}/test-${PYTHON_ABI}/"lib*/python > /dev/null
+		PYTHONPATH=. "$(PYTHON)" -c "import scipy; scipy.test('full')" 2>&1 | tee test.log
+		grep -q ^ERROR test.log && die "test failed"
+		popd > /dev/null
+		rm -fr test-${PYTHON_ABI}
+	}
+	python_execute_function testing
+}
+
+src_install() {
+	distutils_src_install ${SCIPY_FCONFIG}
+	if use doc; then
+		insinto /usr/share/doc/${PF}
+		doins -r "${WORKDIR}"/html || die
+		doins  "${DISTDIR}"/${SP}*pdf || die
+	fi
+}
+
+pkg_postinst() {
+	distutils_pkg_postinst
+
+	elog "You might want to set the variable SCIPY_PIL_IMAGE_VIEWER"
+	elog "to your prefered image viewer if you don't like the default one. Ex:"
+	elog "\t echo \"export SCIPY_PIL_IMAGE_VIEWER=display\" >> ~/.bashrc"
+}