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authorJustin Lecher <jlec@gentoo.org>2011-01-04 07:48:47 +0000
committerJustin Lecher <jlec@gentoo.org>2011-01-04 07:48:47 +0000
commit3735090156ccbc7d697eac9f6962fffa6f165563 (patch)
tree851f700d013424801cfa100b1f18800b24a6690d /sci-chemistry/ccpn
parentskip trying to run the app for a test (diff)
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Version Bump
(Portage version: 2.2.0_alpha12/cvs/Linux x86_64)
Diffstat (limited to 'sci-chemistry/ccpn')
-rw-r--r--sci-chemistry/ccpn/ChangeLog9
-rw-r--r--sci-chemistry/ccpn/ccpn-2.1.5_p110103.ebuild222
2 files changed, 229 insertions, 2 deletions
diff --git a/sci-chemistry/ccpn/ChangeLog b/sci-chemistry/ccpn/ChangeLog
index e7372d1efc11..c02cae06c988 100644
--- a/sci-chemistry/ccpn/ChangeLog
+++ b/sci-chemistry/ccpn/ChangeLog
@@ -1,6 +1,11 @@
# ChangeLog for sci-chemistry/ccpn
-# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.47 2010/12/05 15:12:38 jlec Exp $
+# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.48 2011/01/04 07:48:47 jlec Exp $
+
+*ccpn-2.1.5_p110103 (04 Jan 2011)
+
+ 04 Jan 2011; Justin Lecher <jlec@gentoo.org> +ccpn-2.1.5_p110103.ebuild:
+ Version Bump
*ccpn-2.1.5_p101201 (05 Dec 2010)
diff --git a/sci-chemistry/ccpn/ccpn-2.1.5_p110103.ebuild b/sci-chemistry/ccpn/ccpn-2.1.5_p110103.ebuild
new file mode 100644
index 000000000000..47da78d38fe7
--- /dev/null
+++ b/sci-chemistry/ccpn/ccpn-2.1.5_p110103.ebuild
@@ -0,0 +1,222 @@
+# 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_p110103.ebuild,v 1.1 2011/01/04 07:48:47 jlec Exp $
+
+EAPI="3"
+
+PYTHON_DEPEND="2:2.5"
+SUPPORT_PYTHON_ABIS="1"
+PYTHON_USE_WITH="ssl tk"
+RESTRICT_PYTHON_ABIS="2.4 3.*"
+
+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"
+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-${PATCHSET}.patch.bz2"
+HOMEPAGE="http://www.ccpn.ac.uk/ccpn"
+
+SLOT="0"
+LICENSE="|| ( CCPN LGPL-2.1 )"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="extendnmr +opengl"
+
+RDEPEND="
+ dev-lang/tk[threads]
+ >=dev-python/numpy-1.4
+ >=dev-tcltk/tix-8.4.3
+ =sci-libs/ccpn-data-"${MY_MAJOR}"*
+ x11-libs/libXext
+ x11-libs/libX11
+ opengl? (
+ media-libs/freeglut
+ dev-python/pyglet )"
+# We need to fix this
+# sci-chemistry/mdd
+DEPEND="${RDEPEND}"
+PDEPEND="
+ extendnmr? (
+ sci-chemistry/aria
+ sci-chemistry/prodecomp )"
+
+RESTRICT="mirror"
+S="${WORKDIR}"/${MY_PN}/${MY_PN}$(get_version_component_range 1-2 ${PV})
+
+src_prepare() {
+ [[ -n ${PATCHSET} ]] && \
+ epatch "${WORKDIR}"/ccpn-update-${PATCHSET}.patch
+
+ epatch "${FILESDIR}"/${MY_PV}-parallel.patch
+
+ local tk_ver
+ local myconf
+
+ tk_ver="$(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_FALSE"
+ 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
+ python_copy_sources
+
+ preparation() {
+ 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\$(PYTHON_DIR)/include/python$(python_get_version):g" \
+ -e "s:^\(PYTHON_LIB =\).*:\1 -lpython$(python_get_version):g" \
+ c/environment_default.txt > c/environment.txt
+ }
+ python_execute_function -s preparation
+}
+
+src_compile() {
+ building() {
+ emake -C c all links
+ }
+ python_execute_function -s building
+}
+
+src_install() {
+ local libdir
+ local tkver
+ local _wrapper
+
+ find . -name "*.pyc" -type d -delete
+
+ libdir=$(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}$(python_get_sitedir -f):g" \
+ -e "s:gentoolibdir:${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://:/:g" \
+ "${FILESDIR}"/${wrapper} > "${T}"/${wrapper} || die "Fail fix ${wrapper}"
+ dobin "${T}"/${wrapper} || die "Failed to install ${wrapper}"
+ done
+
+ installation() {
+ local in_path
+ local files
+ local pydocs
+
+ pydocs="$(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 ${in_path}/c
+
+ ebegin "Installing main files"
+ doins -r python || die "main files installation failed"
+ eend
+
+ dosym ../../../..//share/doc/ccpn-data-${MY_MAJOR}/html ${in_path}/doc || die
+ for i in ${pydocs}; do
+ dosym /usr/share/doc/ccpn-data-${MY_MAJOR}/html/${i} ${in_path}/${i}
+ done
+
+ dosym /usr/share/ccpn/data ${in_path}/data
+ dosym /usr/share/ccpn/model ${in_path}/model
+
+ 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
+ }
+ python_execute_function -s installation
+}
+
+pkg_postinst() {
+ python_mod_optimize ${PN}
+}
+
+pkg_postrm() {
+ python_mod_cleanup ${PN}
+}