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From: "Pacho Ramos" <pacho@gentoo.org>
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Message-ID: <1687627022.b79fe624316f1410e0ac77c10ded47222fcd9d57.pacho@gentoo>
Subject: [gentoo-commits] repo/gentoo:master commit in: sci-chemistry/pymol/
X-VCS-Repository: repo/gentoo
X-VCS-Files: sci-chemistry/pymol/pymol-2.5.0-r3.ebuild
X-VCS-Directories: sci-chemistry/pymol/
X-VCS-Committer: pacho
X-VCS-Committer-Name: Pacho Ramos
X-VCS-Revision: b79fe624316f1410e0ac77c10ded47222fcd9d57
X-VCS-Branch: master
Date: Sat, 24 Jun 2023 17:44:18 +0000 (UTC)
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commit: b79fe624316f1410e0ac77c10ded47222fcd9d57
Author: Pacho Ramos <pacho <AT> gentoo <DOT> org>
AuthorDate: Sat Jun 24 17:17:02 2023 +0000
Commit: Pacho Ramos <pacho <AT> gentoo <DOT> org>
CommitDate: Sat Jun 24 17:17:02 2023 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=b79fe624
sci-chemistry/pymol: Drop dev-libs/msgpack[cxx(-)] to workaround portage bug
Bug: https://bugs.gentoo.org/872227
Signed-off-by: Pacho Ramos <pacho <AT> gentoo.org>
sci-chemistry/pymol/pymol-2.5.0-r3.ebuild | 98 +++++++++++++++++++++++++++++++
1 file changed, 98 insertions(+)
diff --git a/sci-chemistry/pymol/pymol-2.5.0-r3.ebuild b/sci-chemistry/pymol/pymol-2.5.0-r3.ebuild
new file mode 100644
index 000000000000..92415ecd58a6
--- /dev/null
+++ b/sci-chemistry/pymol/pymol-2.5.0-r3.ebuild
@@ -0,0 +1,98 @@
+# Copyright 1999-2023 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+PYTHON_COMPAT=( python3_{9..11} )
+DISTUTILS_USE_SETUPTOOLS=no
+
+inherit desktop flag-o-matic xdg distutils-r1
+
+DESCRIPTION="A Python-extensible molecular graphics system"
+HOMEPAGE="https://www.pymol.org/"
+SRC_URI="
+ https://dev.gentoo.org/~pacho/${PN}/${PN}-1.8.4.0.png.xz
+ https://github.com/schrodinger/pymol-open-source/archive/v${PV}.tar.gz -> ${P}.tar.gz
+ "
+LICENSE="BitstreamVera BSD freedist HPND OFL public-domain UoI-NCSA" #844991
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="+netcdf web"
+
+DEPEND="
+ dev-cpp/msgpack-cxx
+ dev-libs/mmtf-cpp
+ dev-python/pyopengl[${PYTHON_USEDEP}]
+ dev-python/PyQt5[opengl,${PYTHON_USEDEP}]
+ dev-python/numpy[${PYTHON_USEDEP}]
+ dev-python/pmw[${PYTHON_USEDEP}]
+ media-libs/freetype:2
+ media-libs/glew:0=
+ media-libs/glm
+ media-libs/libpng:0=
+ media-video/mpeg-tools
+ sys-libs/zlib
+ netcdf? ( sci-libs/netcdf:0= )
+"
+RDEPEND="${DEPEND}
+ sci-chemistry/chemical-mime-data
+"
+
+S="${WORKDIR}"/${PN}-open-source-${PV}
+
+python_prepare_all() {
+ sed \
+ -e "s:\"/usr:\"${EPREFIX}/usr:g" \
+ -e "/ext_comp_args.*+=/s:\[.*\]$:\[\]:g" \
+ -i setup.py || die
+
+ sed \
+ -e "s:/opt/local:${EPREFIX}/usr:g" \
+ -e '/ext_comp_args/s:\[.*\]:[]:g' \
+ -i setup.py || die
+ sed \
+ -e "s:\['msgpackc'\]:\['msgpack'\]:g" \
+ -i setup.py || die
+
+ append-cxxflags -std=c++0x
+
+ use !netcdf && mydistutilsargs=( --no-vmd-plugins )
+
+ distutils-r1_python_prepare_all
+}
+
+python_install() {
+ distutils-r1_python_install \
+ --pymol-path="${EPREFIX}/usr/share/pymol"
+}
+
+python_install_all() {
+ distutils-r1_python_install_all
+
+ sed \
+ -e '1i#!/usr/bin/env python' \
+ "${D}/$(python_get_sitedir)"/pymol/__init__.py > "${T}"/${PN} || die
+
+ python_foreach_impl python_doscript "${T}"/${PN}
+
+ # These environment variables should not go in the wrapper script, or else
+ # it will be impossible to use the PyMOL libraries from Python.
+ cat >> "${T}"/20pymol <<- EOF || die
+ PYMOL_PATH="${EPREFIX}/usr/share/pymol"
+ PYMOL_DATA="${EPREFIX}/usr/share/pymol/data"
+ PYMOL_SCRIPTS="${EPREFIX}/usr/share/pymol/scripts"
+ EOF
+
+ doenvd "${T}"/20pymol
+
+ newicon "${WORKDIR}"/${PN}-1.8.4.0.png ${PN}.png
+ make_desktop_entry "${PN} %u" PyMol ${PN} \
+ "Graphics;Education;Science;Chemistry;" \
+ "MimeType=chemical/x-pdb;chemical/x-mdl-molfile;chemical/x-mol2;chemical/seq-aa-fasta;chemical/seq-na-fasta;chemical/x-xyz;chemical/x-mdl-sdf;"
+
+ if ! use web; then
+ rm -rf "${D}/$(python_get_sitedir)/web" || die
+ fi
+
+ rm -f "${ED}"/usr/share/${PN}/LICENSE || die
+}