commit: 326f87e6afac2433c7e131c6a5126e03c845b811 Author: Alexey Shvetsov <alexxy <AT> gentoo <DOT> org> AuthorDate: Thu Mar 29 11:42:27 2018 +0000 Commit: Alexey Shvetsov <alexxy <AT> gentoo <DOT> org> CommitDate: Thu Mar 29 11:42:27 2018 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=326f87e6
sci-chemistry/pymol: Version bump Package-Manager: Portage-2.3.24, Repoman-2.3.6 sci-chemistry/pymol/Manifest | 1 + sci-chemistry/pymol/pymol-2.1.0.ebuild | 113 +++++++++++++++++++++++++++++++++ 2 files changed, 114 insertions(+) diff --git a/sci-chemistry/pymol/Manifest b/sci-chemistry/pymol/Manifest index efd53bc3a1a..64fe4abc321 100644 --- a/sci-chemistry/pymol/Manifest +++ b/sci-chemistry/pymol/Manifest @@ -1,3 +1,4 @@ DIST pymol-1.8.4.0.png.xz 19528 BLAKE2B f3d23d4cedca3d8bb96b20646a548da4be570697e3346a11b01c5c3599b536ba4697be08472dfa8a4f6533167defc1a37a1de332931a73857319cb28fd42cd2b SHA512 40bb0d3f226476f6e047b5361956aad955232a97641474765eaa5204f0539aee3810e0266213618a45364f9f31f6eb18380b17e0c79f64065f7b62a9016caa7c DIST pymol-v1.8.4.0.tar.bz2 8717344 BLAKE2B a4cfb95eb40a3cd3da5b8cfd4acac7255997f9a3e49ef7e7e1d4c13f36e4aace462a054c326bbaadbc99f22286be878a6d5c518149760b5c939ce9362d4b8cc3 SHA512 73a810adfc31adaf0f3fa25512084882c87b0782c8af716ac0203a5b5b7f0b9fedfbce3d129bffef7b52044e92b0542e683966b2acf961c4dac17fbba72dd7fe DIST pymol-v1.8.6.0.tar.bz2 8717164 BLAKE2B ddcabb81e15b2409ee551900ed09daaf681c7ef0e196eecea36773c131586f6379cd41c50bfa9df8f396ddb1a5da761e8b3409e9656a8f6ac7a87818f4375895 SHA512 bd08e6890382af1503d6af16b27b43af09b372a1229cc9d8e2de311873918b5e7b06e8a2365ce73a5f52cb31ac795f5d91b2ae6ef62890d9c2bf0ea25f856658 +DIST pymol-v2.1.0.tar.bz2 8779083 BLAKE2B 819846a9963ddf3953f53e29a8396ed104dbdafc55fe39ad91363366c7647af3ad833704aff3d4c11f39829545500e00bb18916b6963de4b986423adf700845c SHA512 67175c0668a13826febcb73f7c62a43cfa03a7f86bb80113d52fb337e7d29008684c03163fc06338c4d68edd9246ffcf63aec1ee3110ae91c8a71ef24ab7b605 diff --git a/sci-chemistry/pymol/pymol-2.1.0.ebuild b/sci-chemistry/pymol/pymol-2.1.0.ebuild new file mode 100644 index 00000000000..f29f29694f2 --- /dev/null +++ b/sci-chemistry/pymol/pymol-2.1.0.ebuild @@ -0,0 +1,113 @@ +# Copyright 1999-2018 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=6 + +PYTHON_COMPAT=( python2_7 ) +PYTHON_REQ_USE="tk" + +inherit distutils-r1 eutils xdg-utils flag-o-matic versionator + +DESCRIPTION="A Python-extensible molecular graphics system" +HOMEPAGE="http://www.pymol.org/"; +SRC_URI=" + https://dev.gentoo.org/~jlec/distfiles/${PN}-1.8.4.0.png.xz + mirror://sourceforge/project/${PN}/${PN}/$(get_version_component_range 1)/${PN}-v${PV}.tar.bz2 + " +# git archive -v --prefix=${P}/ master -o ${P}.tar.xz +RESTRICT="mirror" +LICENSE="PSF-2.2" +SLOT="0" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos" +IUSE="web" + +DEPEND=" + dev-libs/msgpack[cxx] + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/pyopengl[${PYTHON_USEDEP}] + media-libs/freeglut + media-libs/freetype:2 + media-libs/glew:0= + media-libs/libpng:0= + media-video/mpeg-tools + sys-libs/zlib + virtual/python-pmw[${PYTHON_USEDEP}] + !sci-chemistry/pymol-apbs-plugin[${PYTHON_USEDEP}] + web? ( !dev-python/webpy[${PYTHON_USEDEP}] )" +RDEPEND="${DEPEND}" + +S="${WORKDIR}"/${PN} + +python_prepare_all() { + sed \ + -e "s:\"/usr:\"${EPREFIX}/usr:g" \ + -e "/ext_comp_args.*+=/s:\[.*\]$:\[\]:g" \ + -e "/import/s:argparse:argparseX: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 + + distutils-r1_python_prepare_all +} + +python_install() { + distutils-r1_python_install \ + --pymol-path="${EPREFIX}/usr/share/pymol" + + sed \ + -e '1d' \ + -e "/APBS_BINARY_LOCATION/s:None:\"${EPREFIX}/usr/bin/apbs\":g" \ + -e "/APBS_PSIZE_LOCATION/s:None:\"$(python_get_sitedir)/pdb2pqr/src/\":g" \ + -e "/APBS_PDB2PQR_LOCATION/s:None:\"$(python_get_sitedir)/pdb2pqr/\":g" \ + -i "${D}/$(python_get_sitedir)"/pmg_tk/startup/apbs_tools.py || die +} + +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 >> "${T}"/20pymol <<- EOF + PYMOL_PATH="${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} 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 +} + +pkg_postinst() { + xdg_desktop_database_update + xdg_mimeinfo_database_update + optfeature "Electrostatic calculations" sci-chemistry/apbs sci-chemistry/pdb2pqr +} + +pkg_postrm() { + xdg_desktop_database_update + xdg_mimeinfo_database_update +}
