gentoo resync : 10.02.2020

1 files changed, 0 insertions, 132 deletions

diff --git a/sci-chemistry/pdb2pqr/pdb2pqr-1.9.0-r2.ebuild b/sci-chemistry/pdb2pqr/pdb2pqr-1.9.0-r2.ebuild
deleted file mode 100644
index ad95f8f410fa..000000000000
--- a/sci-chemistry/pdb2pqr/pdb2pqr-1.9.0-r2.ebuild
+++ /dev/null
@@ -1,132 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit scons-utils fortran-2 flag-o-matic python-r1 toolchain-funcs
-
-DESCRIPTION="Automated pipeline for performing Poisson-Boltzmann electrostatics calculations"
-HOMEPAGE="https://www.poissonboltzmann.org/"
-SRC_URI="https://github.com/Electrostatics/apbs-${PN}/releases/download/${P}/${PN}-src-${PV}.tar.gz"
-
-SLOT="0"
-LICENSE="BSD"
-IUSE="doc examples opal +pdb2pka"
-KEYWORDS="amd64 x86 ~amd64-linux ~x86-linux"
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="${PYTHON_DEPS}
-	|| (
-		dev-python/numpy-python2[${PYTHON_USEDEP}]
-		dev-python/numpy[${PYTHON_USEDEP}]
-	)
-	sci-chemistry/openbabel-python[${PYTHON_USEDEP}]
-	opal? ( dev-python/zsi[${PYTHON_USEDEP}] )
-	pdb2pka? ( sci-chemistry/apbs[${PYTHON_USEDEP},-mpi] )"
-DEPEND="${RDEPEND}
-	dev-lang/swig:0"
-
-PATCHES=(
-	"${FILESDIR}"/${P}-flags.patch
-	"${FILESDIR}"/${P}-install-py.patch
-)
-
-pkg_setup() {
-	if [[ -z ${MAXATOMS} ]]; then
-		einfo "If you like to have support for more then 10000 atoms,"
-		einfo "export MAXATOMS=\"your value\""
-		export MAXATOMS=10000
-	else
-		einfo "Allow usage of ${MAXATOMS} during calculations"
-	fi
-	fortran-2_pkg_setup
-}
-
-src_prepare() {
-	find -type f \( -name "*\.pyc" -o -name "*\.pyo" \) -delete || die
-
-	export CXXFLAGS="${CXXFLAGS}"
-	export LDFLAGS="${LDFLAGS}"
-
-	epatch "${PATCHES[@]}"
-	tc-export CXX
-	rm -rf scons || die
-
-	python_copy_sources
-}
-
-src_configure() {
-	python_configure() {
-		cd "${BUILD_DIR}" || die
-
-		cat > build_config.py <<- EOF
-		PREFIX="${D}/$(python_get_sitedir)/${PN}"
-		#URL="http://<COMPUTER NAME>/pdb2pqr/"
-		APBS="${EPREFIX}/usr/bin/apbs"
-		#OPAL="http://nbcr-222.ucsd.edu/opal2/services/pdb2pqr_1.8"
-		#APBS_OPAL="http://nbcr-222.ucsd.edu/opal2/services/apbs_1.3"
-		MAX_ATOMS=${MAXATOMS}
-		BUILD_PDB2PKA=$(usex pdb2pka True False)
-		REBUILD_SWIG=True
-		EOF
-	}
-
-	python_foreach_impl python_configure
-}
-
-src_compile() {
-	python_compile() {
-		cd "${BUILD_DIR}" || die
-		escons
-	}
-	python_foreach_impl python_compile
-}
-
-src_test() {
-	python_test() {
-		local myesconsargs=( -j1 )
-		cd "${BUILD_DIR}" || die
-		escons test
-		escons advtest
-		escons complete-test
-	}
-	python_foreach_impl python_test
-}
-
-src_install() {
-	dodir /usr/share/doc/${PF}/html
-	python_install() {
-		local lib
-
-		cd "${BUILD_DIR}" || die
-
-		escons install
-
-		find "${D}$(python_get_sitedir)"/${PN}/{jmol,examples,doc,contrib} -delete || die
-
-		python_doscript "${FILESDIR}"/{${PN},pdb2pka}
-
-		for lib in apbslib.py{,c,o}; do
-			dosym ../../apbs/${lib} $(python_get_sitedir)/${PN}/pdb2pka/${lib}
-		done
-		dosym ../../_apbslib.so $(python_get_sitedir)/${PN}/pdb2pka/_apbslib.so
-		python_optimize
-	}
-	python_foreach_impl python_install
-
-	if use doc; then
-		pushd doc > /dev/null
-		docinto html
-		dodoc -r *.html images pydoc
-		popd > /dev/null
-	fi
-
-	use examples && \
-		insinto /usr/share/${PN}/ && \
-		doins -r examples
-
-	dodoc *md NEWS
-}