diff options
Diffstat (limited to 'sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild')
| -rw-r--r-- | sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild | 213 |
1 files changed, 213 insertions, 0 deletions
diff --git a/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild b/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild new file mode 100644 index 000000000000..afcbfe58f1ff --- /dev/null +++ b/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild @@ -0,0 +1,213 @@ +# Copyright 1999-2011 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild,v 1.1 2011/10/11 19:28:28 jlec Exp $ + +EAPI="3" + +PYTHON_DEPEND="2:2.5" +PYTHON_USE_WITH="ssl tk" + +inherit eutils portability python toolchain-funcs versionator + +PATCHSET="${PV##*_p}" +MY_PN="${PN}mr" +MY_PV="$(replace_version_separator 3 _ ${PV%%_p*})" +MY_MAJOR="$(get_version_component_range 1-3)" + +DESCRIPTION="The Collaborative Computing Project for NMR" +HOMEPAGE="http://www.ccpn.ac.uk/ccpn" +SRC_URI="http://www.bio.cam.ac.uk/ccpn/download/${MY_PN}/analysis${MY_PV}.tar.gz" + [[ -n ${PATCHSET} ]] && SRC_URI="${SRC_URI} http://dev.gentoo.org/~jlec/distfiles/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch.xz" + +SLOT="0" +LICENSE="|| ( CCPN LGPL-2.1 )" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" +IUSE="extendnmr +opengl" + +RDEPEND=" + dev-lang/tk[threads] + >=dev-python/numpy-1.4 + >=dev-tcltk/tix-8.4.3 + =sci-libs/ccpn-data-"${MY_MAJOR}"* + >=sci-libs/ccpn-data-${PVR} + sci-biology/psipred + x11-libs/libXext + x11-libs/libX11 + opengl? ( + media-libs/freeglut + dev-python/pyglet )" +# We need to fix this +# sci-chemistry/mdd +DEPEND="${RDEPEND}" +PDEPEND=" + extendnmr? ( + <=sci-chemistry/aria-2.3.2 + sci-chemistry/prodecomp )" + +RESTRICT="mirror" + +S="${WORKDIR}"/${MY_PN}/${MY_PN}$(get_version_component_range 1-2 ${PV}) + +pkg_setup() { + python_set_active_version 2 +} + +src_prepare() { + [[ -n ${PATCHSET} ]] && \ + epatch "${WORKDIR}"/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch + + epatch "${FILESDIR}"/${MY_PV}-parallel.patch + + sed \ + -e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \ + -i python/ccpnmr/analysis/wrappers/Psipred.py || die + + local tk_ver + local myconf + + tk_ver="$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2)" + + if use opengl; then + GLUT_NEED_INIT="-DNEED_GLUT_INIT" + IGNORE_GL_FLAG="" + GL_FLAG="-DUSE_GL_TRUE" + GL_DIR="${EPREFIX}/usr" + GL_LIB="-lglut -lGLU -lGL" + GL_INCLUDE_FLAGS="-I\$(GL_DIR)/include" + GL_LIB_FLAGS="-L\$(GL_DIR)/$(get_libdir)" + + else + IGNORE_GL_FLAG="-DIGNORE_GL" + GL_FLAG="-DUSE_GL_FALSE" + fi + + GLUT_NOT_IN_GL="" + GLUT_FLAG="\$(GLUT_NEED_INIT) \$(GLUT_NOT_IN_GL)" + + rm -rf data model doc license || die + + sed \ + -e "s|/usr|${EPREFIX}/usr|g" \ + -e "s|^\(CC =\).*|\1 $(tc-getCC)|g" \ + -e "s|^\(OPT_FLAG =\).*|\1 ${CFLAGS}|g" \ + -e "s|^\(LINK_FLAGS =.*\)|\1 ${LDFLAGS}|g" \ + -e "s|^\(IGNORE_GL_FLAG =\).*|\1 ${IGNORE_GL_FLAG}|g" \ + -e "s|^\(GL_FLAG =\).*|\1 ${GL_FLAG}|g" \ + -e "s|^\(GL_DIR =\).*|\1 ${GL_DIR}|g" \ + -e "s|^\(GL_LIB =\).*|\1 ${GL_LIB}|g" \ + -e "s|^\(GL_LIB_FLAGS =\).*|\1 ${GL_LIB_FLAGS}|g" \ + -e "s|^\(GL_INCLUDE_FLAGS =\).*|\1 ${GL_INCLUDE_FLAGS}|g" \ + -e "s|^\(GLUT_NEED_INIT =\).*|\1 ${GLUT_NEED_INIT}|g" \ + -e "s|^\(GLUT_NOT_IN_GL =\).*|\1|g" \ + -e "s|^\(X11_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \ + -e "s|^\(TCL_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \ + -e "s|^\(TK_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \ + -e "s|^\(PYTHON_INCLUDE_FLAGS =\).*|\1 -I${EPREFIX}/$(python_get_includedir)|g" \ + -e "s|^\(PYTHON_LIB =\).*|\1 $(python_get_library -l)|g" \ + c/environment_default.txt > c/environment.txt +} + +src_compile() { + emake -C c all links || die +} + +src_install() { + local libdir + local tkver + local _wrapper + + find . -name "*.pyc" -type d -delete + + libdir=$(get_libdir) + tkver=$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2) + + _wrapper="analysis dangle dataShifter depositionFileImporter eci formatConverter pipe2azara" + use extendnmr && _wrapper="${_wrapper} extendNmr" + for wrapper in ${_wrapper}; do + sed \ + -e "s|gentoo_sitedir|${EPREFIX}$(python_get_sitedir)|g" \ + -e "s|gentoolibdir|${EPREFIX}/usr/${libdir}|g" \ + -e "s|gentootk|${EPREFIX}/usr/${libdir}/tk${tkver}|g" \ + -e "s|gentootcl|${EPREFIX}/usr/${libdir}/tclk${tkver}|g" \ + -e "s|gentoopython|${EPREFIX}/usr/bin/python|g" \ + -e "s|gentoousr|${EPREFIX}/usr|g" \ + -e "s|//|/|g" \ + "${FILESDIR}"/${wrapper} > "${T}"/${wrapper} || die "Fail fix ${wrapper}" + dobin "${T}"/${wrapper} || die "Failed to install ${wrapper}" + done + + local in_path + local files + local pydocs + + pydocs="$(find python -name doc -type d)" + rm -rf ${pydocs} || die + + in_path=$(python_get_sitedir)/${PN} + + for i in python/memops/format/compatibility/{Converters,part2/Converters2}.py; do + sed \ + -e 's|#from __future__|from __future__|g' \ + -i ${i} || die + done + + insinto ${in_path} + + dodir ${in_path}/c + + ebegin "Installing main files" + doins -r python || die "main files installation failed" + eend + + einfo "Adjusting permissions" + + files=" + cambridge/c/BayesPeakSeparator.so + ccp/c/StructUtil.so + ccp/c/StructStructure.so + ccp/c/StructBond.so + ccp/c/StructAtom.so + ccpnmr/c/DyAtomCoord.so + ccpnmr/c/DyDistConstraint.so + ccpnmr/c/DyDistForce.so + ccpnmr/c/AtomCoordList.so + ccpnmr/c/DyAtomCoordList.so + ccpnmr/c/ContourStyle.so + ccpnmr/c/ContourLevels.so + ccpnmr/c/SliceFile.so + ccpnmr/c/PeakCluster.so + ccpnmr/c/Dynamics.so + ccpnmr/c/Bacus.so + ccpnmr/c/Midge.so + ccpnmr/c/DyDistConstraintList.so + ccpnmr/c/WinPeakList.so + ccpnmr/c/PeakList.so + ccpnmr/c/DistConstraint.so + ccpnmr/c/CloudUtil.so + ccpnmr/c/DistForce.so + ccpnmr/c/DistConstraintList.so + ccpnmr/c/AtomCoord.so + ccpnmr/c/DyDynamics.so + ccpnmr/c/ContourFile.so + memops/c/ShapeFile.so + memops/c/BlockFile.so + memops/c/PdfHandler.so + memops/c/MemCache.so + memops/c/FitMethod.so + memops/c/PsHandler.so + memops/c/GlHandler.so + memops/c/StoreFile.so + memops/c/StoreHandler.so + memops/c/TkHandler.so" + for FILE in ${files}; do + fperms 755 ${in_path}/python/${FILE} + done +} + +pkg_postinst() { + python_mod_optimize ${PN} +} + +pkg_postrm() { + python_mod_cleanup ${PN} +} |