diff options
| -rw-r--r-- | sci-chemistry/pymol/ChangeLog | 8 | ||||
| -rw-r--r-- | sci-chemistry/pymol/files/pymol-1.5.0.3-prefix.patch | 57 | ||||
| -rw-r--r-- | sci-chemistry/pymol/files/pymol-1.5.0.3-web.patch | 16 | ||||
| -rw-r--r-- | sci-chemistry/pymol/pymol-1.5.0.3.ebuild | 120 |
4 files changed, 200 insertions, 1 deletions
diff --git a/sci-chemistry/pymol/ChangeLog b/sci-chemistry/pymol/ChangeLog index 10250bc2c153..3aa6322d350e 100644 --- a/sci-chemistry/pymol/ChangeLog +++ b/sci-chemistry/pymol/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-chemistry/pymol # Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pymol/ChangeLog,v 1.85 2012/02/27 22:53:03 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pymol/ChangeLog,v 1.86 2012/03/10 09:31:31 jlec Exp $ + +*pymol-1.5.0.3 (10 Mar 2012) + + 10 Mar 2012; Justin Lecher <jlec@gentoo.org> +pymol-1.5.0.3.ebuild, + +files/pymol-1.5.0.3-prefix.patch, +files/pymol-1.5.0.3-web.patch: + Version BUmp *pymol-1.5.0.2 (27 Feb 2012) diff --git a/sci-chemistry/pymol/files/pymol-1.5.0.3-prefix.patch b/sci-chemistry/pymol/files/pymol-1.5.0.3-prefix.patch new file mode 100644 index 000000000000..9b0bad342e19 --- /dev/null +++ b/sci-chemistry/pymol/files/pymol-1.5.0.3-prefix.patch @@ -0,0 +1,57 @@ +Index: setup.py +=================================================================== +--- setup.py (revision 3983) ++++ setup.py (working copy) +@@ -1,4 +1,4 @@ +-#!/usr/bin/env python ++#!@GENTOO_PORTAGE_EPREFIX@/usr/bin/env python + # + # This script only applies if you are performing a Python Distutils-based + # installation of PyMOL. +@@ -35,7 +35,7 @@ + "modules/cealign/src/tnt" ] + libs=["glut32","opengl32","glu32","png"] + pyogl_libs = ["glut32","opengl32","glu32"] +- lib_dirs=["/usr/lib/w32api"] ++ lib_dirs=["@GENTOO_PORTAGE_EPREFIX@/usr/lib/w32api"] + def_macros=[("_PYMOL_MODULE",None), + ("CYGWIN",None), + ("_PYMOL_LIBPNG",None)] +@@ -87,7 +87,7 @@ + "/sw/include/freetype2/freetype", + "/sw/include/freetype2", + "/sw/include", +- "/usr/X11/include", ++ "@GENTOO_PORTAGE_EPREFIX@/usr/X11/include", + "modules/cealign/src", + "modules/cealign/src/tnt", + #"contrib/uiuc/plugins/include/", +@@ -114,8 +114,8 @@ + ext_comp_args=[] + ext_link_args=[ + "-L/sw/lib", "-lpng", +- "/usr/X11/lib/libGL.dylib", +- "/usr/X11/lib/libGLU.dylib", ++ "@GENTOO_PORTAGE_EPREFIX@/usr/X11/lib/libGL.dylib", ++ "@GENTOO_PORTAGE_EPREFIX@/usr/X11/lib/libGLU.dylib", + "-lfreeglut", + "-lglew", + "-L/sw/lib/freetype219/lib", "-lfreetype" +@@ -221,7 +221,7 @@ + "layer3", + "layer4", + "layer5", +- "/usr/include/freetype2", ++ "@GENTOO_PORTAGE_EPREFIX@/usr/include/freetype2", + # VMD plugin support + # "contrib/uiuc/plugins/include", + # "contrib/uiuc/plugins/molfile_plugin/src", +@@ -242,7 +242,7 @@ + "GLU", + "glut", + "GLEW"] +- lib_dirs = [ "/usr/X11R6/lib64", ] ++ lib_dirs = [ "@GENTOO_PORTAGE_EPREFIX@/usr/X11R6/lib64", ] + def_macros = [ ("_PYMOL_MODULE",None), + ("_PYMOL_INLINE",None), + ("_PYMOL_FREETYPE",None), diff --git a/sci-chemistry/pymol/files/pymol-1.5.0.3-web.patch b/sci-chemistry/pymol/files/pymol-1.5.0.3-web.patch new file mode 100644 index 000000000000..4f48140169cc --- /dev/null +++ b/sci-chemistry/pymol/files/pymol-1.5.0.3-web.patch @@ -0,0 +1,16 @@ +Index: setup.py +=================================================================== +--- setup.py (revision 3983) ++++ setup.py (working copy) +@@ -292,10 +292,7 @@ + 'pymol/opengl/glu', + 'pymol/opengl/glut', + 'pymol/wizard', +- 'pymol2', +- 'web', +- 'web/examples', +- 'web/javascript', ], ++ 'pymol2', ], + ext_modules = [ + Extension("pymol._cmd", [ + "modules/cealign/src/ccealignmodule.cpp", diff --git a/sci-chemistry/pymol/pymol-1.5.0.3.ebuild b/sci-chemistry/pymol/pymol-1.5.0.3.ebuild new file mode 100644 index 000000000000..b79c7aa3e1ce --- /dev/null +++ b/sci-chemistry/pymol/pymol-1.5.0.3.ebuild @@ -0,0 +1,120 @@ +# Copyright 1999-2012 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pymol/pymol-1.5.0.3.ebuild,v 1.1 2012/03/10 09:31:31 jlec Exp $ + +EAPI=4 + +PYTHON_DEPEND="2:2.7" +SUPPORT_PYTHON_ABIS="1" +RESTRICT_PYTHON_ABIS="2.4 2.5 2.6 3.* *-jython 2.7-pypy-*" +PYTHON_USE_WITH="tk" +PYTHON_MODNAME="${PN} chempy pmg_tk pmg_wx" + +inherit distutils eutils fdo-mime prefix versionator + +DESCRIPTION="A Python-extensible molecular graphics system" +HOMEPAGE="http://pymol.sourceforge.net/" +SRC_URI=" + http://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz + http://dev.gentoo.org/~jlec/distfiles/${PN}.xpm.tar" + +LICENSE="PSF-2.2" +SLOT="0" +KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux" +IUSE="apbs numpy vmd web" + +DEPEND=" + dev-python/numpy + dev-python/pmw + media-libs/freetype:2 + media-libs/glew + media-libs/libpng + media-video/mpeg-tools + sys-libs/zlib + media-libs/freeglut + apbs? ( + dev-libs/maloc + sci-chemistry/apbs + sci-chemistry/pdb2pqr + sci-chemistry/pymol-apbs-plugin + ) + web? ( !dev-python/webpy )" +RDEPEND="${DEPEND}" + +src_prepare() { + epatch \ + "${FILESDIR}"/${PN}-1.5.0.1-setup.py.patch \ + "${FILESDIR}"/${PN}-1.5.0.1-data-path.patch \ + "${FILESDIR}"/${PN}-1.5.0.1-flags.patch + + use web || epatch "${FILESDIR}"/${P}-web.patch + + epatch "${FILESDIR}"/${P}-prefix.patch && \ + eprefixify setup.py + + use vmd && epatch "${FILESDIR}"/${PN}-1.5.0.1-vmd.patch + + if use numpy; then + sed \ + -e '/PYMOL_NUMPY/s:^#::g' \ + -i setup.py || die + fi + + rm ./modules/pmg_tk/startup/apbs_tools.py || die + + echo "site_packages = \'$(python_get_sitedir -f)\'" > setup3.py || die + + # python 3.* fix + # sed '452,465d' -i setup.py + distutils_src_prepare +} + +src_configure() { + : +} + +src_install() { + distutils_src_install + + # These environment variables should not go in the wrapper script, or else + # it will be impossible to use the PyMOL libraries from Python. + cat >> "${T}"/20pymol <<- EOF + PYMOL_PATH="${EPREFIX}/$(python_get_sitedir -f)/${PN}" + PYMOL_DATA="${EPREFIX}/usr/share/pymol/data" + PYMOL_SCRIPTS="${EPREFIX}/usr/share/pymol/scripts" + EOF + + doenvd "${T}"/20pymol + + cat >> "${T}"/pymol <<- EOF + #!/bin/sh + $(PYTHON -f) -O \${PYMOL_PATH}/__init__.py -q \$* + EOF + + dobin "${T}"/pymol + + insinto /usr/share/pymol + doins -r test data scripts + + insinto /usr/share/pymol/examples + doins -r examples + + dodoc DEVELOPERS README + + doicon "${WORKDIR}"/${PN}.xpm + make_desktop_entry pymol PyMol ${PN} "Graphics;Science;Chemistry" +} + +pkg_postinst() { + elog "\t USE=shaders was removed," + elog "please use pymol config settings" + elog "\t set use_shaders, 1" + distutils_pkg_postinst + fdo-mime_desktop_database_update + fdo-mime_mime_database_update +} + +pkg_postrm() { + fdo-mime_desktop_database_update + fdo-mime_mime_database_update +} |