sci-libs/shogun: Version bump to 5.0.0

Gentoo-bug: 550134, 570014, 587324, 593310,
            602534, 604670, 606770, 607122

Package-Manager: Portage-2.3.3, Repoman-2.3.1
Closes: https://github.com/gentoo/gentoo/pull/3782

1 files changed, 160 insertions, 0 deletions

diff --git a/sci-libs/shogun/shogun-5.0.0.ebuild b/sci-libs/shogun/shogun-5.0.0.ebuild
new file mode 100644
index 000000000000..b3984dba4bae
--- /dev/null
+++ b/sci-libs/shogun/shogun-5.0.0.ebuild
@@ -0,0 +1,160 @@
+# Copyright 1999-2017 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 python3_{4,5} )
+
+inherit cmake-utils flag-o-matic python-single-r1 toolchain-funcs versionator
+
+MYPV=$(get_version_component_range 1-2)
+MYPD=${PN}-data-0.9
+
+DESCRIPTION="Large Scale Machine Learning Toolbox"
+HOMEPAGE="http://shogun-toolbox.org/"
+SRC_URI="
+	ftp://shogun-toolbox.org/shogun/releases/${MYPV}/sources/${P}.tar.bz2
+	test? ( ftp://shogun-toolbox.org/shogun/data/${MYPD}.tar.bz2 )
+	examples? ( ftp://shogun-toolbox.org/shogun/data/${MYPD}.tar.bz2 )"
+
+LICENSE="GPL-3 free-noncomm"
+SLOT="0/16"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="cpu_flags_x86_sse doc examples lua octave opencl python R ruby static-libs test"
+
+REQUIRED_USE="
+	python? ( ${PYTHON_REQUIRED_USE} )
+	test? ( python )"
+
+RDEPEND="
+	app-arch/bzip2
+	app-arch/gzip
+	app-arch/lzma
+	app-arch/snappy
+	dev-libs/lzo
+	dev-cpp/eigen:3
+	dev-libs/json-c:=
+	dev-libs/libxml2
+	dev-libs/protobuf:=
+	net-misc/curl
+	sci-libs/arpack
+	sci-libs/arprec
+	sci-libs/colpack
+	sci-libs/hdf5:=
+	sci-libs/nlopt
+	sci-mathematics/glpk:=
+	sci-mathematics/lpsolve:=
+	sys-libs/readline:0=
+	sys-libs/zlib
+	virtual/blas
+	virtual/cblas
+	virtual/lapack
+	lua? ( dev-lang/lua:0 )
+	octave? ( >=sci-mathematics/octave-4.2.0:=[hdf5] )
+	opencl? ( virtual/opencl )
+	python? ( dev-python/numpy[${PYTHON_USEDEP}] )
+	R? ( dev-lang/R )
+	ruby? ( dev-ruby/narray )"
+DEPEND="${RDEPEND}
+	virtual/pkgconfig
+	doc? (
+		>=app-doc/doxygen-1.8.13-r1[dot]
+		dev-python/sphinx
+	)
+	lua? ( >=dev-lang/swig-3.0.12 )
+	octave? ( >=dev-lang/swig-3.0.12 )
+	python? (
+		>=dev-lang/swig-3.0.12
+		test? (
+			sci-libs/scipy
+		)
+	)
+	R? ( >=dev-lang/swig-3.0.12 )
+	ruby? ( >=dev-lang/swig-3.0.12 )
+	test? (
+		dev-python/jinja[${PYTHON_USEDEP}]
+		dev-cpp/gmock
+	)"
+
+# javamodular needs jblas (painful to package properly)
+# permodular work in progress (as 3.2.0)
+# could actually support multiple pythons, multiple rubys
+# feel free to do work for it
+
+PATCHES=(
+	"${FILESDIR}"/${PN}-5.0.0-fix-buildsystem.patch
+	"${FILESDIR}"/${PN}-4.1.0-remove-C-linkage.patch
+)
+
+pkg_setup() {
+	use python && python-single-r1_pkg_setup
+}
+
+src_configure() {
+	export ATLAS_LIBRARY="$($(tc-getPKG_CONFIG) --libs cblas lapack)"
+	export CBLAS_LIBRARY="$($(tc-getPKG_CONFIG) --libs cblas)"
+	export ATLAS_LIBRARIES="$($(tc-getPKG_CONFIG) --libs blas cblas lapack)"
+	export LAPACK_LIBRARIES="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	append-cppflags "$($(tc-getPKG_CONFIG) --cflags cblas)"
+
+	local mycmakeargs=(
+		-DCMAKE_SKIP_RPATH=ON
+		-DCMAKE_SKIP_INSTALL_RPATH=ON
+		-DLIB_INSTALL_DIR=$(get_libdir)
+		-DENABLE_TESTING=$(usex test)
+		-DBUILD_EXAMPLES=$(usex examples)
+		-DDISABLE_SSE=$(usex !cpu_flags_x86_sse)
+		-DCMAKE_DISABLE_FIND_PACKAGE_Pandoc=ON
+		$(cmake-utils_use_find_package doc Sphinx)
+		$(cmake-utils_use_find_package doc Doxygen)
+
+		# Features:
+		-DENABLE_COVERAGE=OFF
+		-DENABLE_COLPACK=ON
+		-DENABLE_PROTOBUF=ON
+		-DENABLE_PYTHON_DEBUG=OFF
+		-DENABLE_VIENNACL=$(usex opencl)
+		-DUSE_ARPREC=ON
+		-DUSE_HDF5=ON
+
+		# Bindings:
+		-DJavaModular=OFF
+		-DPerlModular=OFF
+		-DCSharpModular=OFF
+		-DLuaModular=$(usex lua)
+		-DOctaveModular=$(usex octave)
+		-DPythonModular=$(usex python)
+		-DRModular=$(usex R)
+		-DRubyModular=$(usex ruby)
+
+		# Disable bundled libs
+		-DBUNDLE_COLPACK=OFF
+		-DBUNDLE_JSON=OFF
+		-DBUNDLE_NLOPT=OFF
+	)
+	cmake-utils_src_configure
+
+	# gentoo bug #302621
+	has_version 'sci-libs/hdf5[mpi]' && export CXX=mpicxx CC=mpicc
+}
+
+src_compile() {
+	cmake-utils_src_compile
+	use doc && cmake-utils_src_compile -C doc
+}
+
+src_install() {
+	cmake-utils_src_install
+
+	if use doc; then
+		local i
+		for i in lua octave python R ruby; do
+			if use $i; then
+				docinto html/${i,}_modular
+				dodoc -r "${BUILD_DIR}"/src/interfaces/${i,}_modular/modshogun/doxygen_xml/.
+			fi
+		done
+	fi
+}