diff options
Diffstat (limited to 'sci-chemistry')
| -rw-r--r-- | sci-chemistry/ccpn/ChangeLog | 7 | ||||
| -rw-r--r-- | sci-chemistry/ccpn/Manifest | 10 | ||||
| -rw-r--r-- | sci-chemistry/ccpn/ccpn-2.2.2_p120423.ebuild | 180 |
3 files changed, 192 insertions, 5 deletions
diff --git a/sci-chemistry/ccpn/ChangeLog b/sci-chemistry/ccpn/ChangeLog index e34b7e51bff8..5167fbb96108 100644 --- a/sci-chemistry/ccpn/ChangeLog +++ b/sci-chemistry/ccpn/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-chemistry/ccpn # Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.82 2012/04/03 17:24:27 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.83 2012/04/23 08:22:04 jlec Exp $ + +*ccpn-2.2.2_p120423 (23 Apr 2012) + + 23 Apr 2012; Justin Lecher <jlec@gentoo.org> +ccpn-2.2.2_p120423.ebuild: + Todays Python Patches *ccpn-2.2.2_p120403 (03 Apr 2012) diff --git a/sci-chemistry/ccpn/Manifest b/sci-chemistry/ccpn/Manifest index 7f9473386a8f..80ff0ecdf49d 100644 --- a/sci-chemistry/ccpn/Manifest +++ b/sci-chemistry/ccpn/Manifest @@ -22,17 +22,19 @@ DIST ccpn-update-100806.patch.bz2 187965 RMD160 3297162fe3314aa405ee58737ce45cda DIST ccpn-update-2.2.1-120109.patch.xz 85304 RMD160 3f2662f16f8c52b8c3813a0a45ad12f26bb8ba3c SHA1 267686361c0ee730d132beede957591428cd7016 SHA256 2997ae03541267e75577f4df317c6a9b69a282723271a6689265a9c2309c5769 DIST ccpn-update-2.2.1-120304.patch.xz 87980 RMD160 9d37afcd85557bb5385bb48dacb6f1f873a9ab0b SHA1 232365cc75aaa9d3114bf4b88968ad6af8fdbd6f SHA256 5fa751589394f709b0c65a965ac8f2a3bdab35a670c250bd4f2998acfac41153 DIST ccpn-update-2.2.2-120403.patch.xz 4076 RMD160 87d49d46f7c0d36302d329d4931436261ee1f29d SHA1 89217679fc9ed64b002fdf8d6111949bdbd26b4e SHA256 1c9c01c8d06e430f22f08e073a4657deab28a669a4f682ed57756e73b7e58f49 +DIST ccpn-update-2.2.2-120423.patch.xz 14732 RMD160 b574554bbb7f47bc4c6b532cb5b620d7e31d3246 SHA1 12efe549e29348c0ed25d5325cd1613b6ea22e82 SHA256 61edae84fce89a05eaf92babc700823b9aacb7952ec343a83b961f7850a60190 EBUILD ccpn-2.1.3.1_p100806.ebuild 5184 RMD160 777155a635a5d23d0e5eaa99fdb568ec36cfc722 SHA1 4ebd6e84c0e832264c726a42203d65b4a4065189 SHA256 255563ee932f4feee3cc3e1332dbd18be844efb78f2f8f10df9b1dd0894295e5 EBUILD ccpn-2.2.1_p120109.ebuild 5784 RMD160 c6279bd8aab43037353347299c139da99c4d4bda SHA1 7cd2a6425cc8fd62396891874f16e1bfa7f33010 SHA256 b4b08ff9094119e5bd50066f72d41927bd3bbe840c0985f49c585501925ba593 EBUILD ccpn-2.2.1_p120304.ebuild 5784 RMD160 e4278559ae4129bf56c73b7df807d73898910322 SHA1 c3e8b18e7a42c7e4d9e786e580ed40ae73b96710 SHA256 387882b2a69b312bfe9d7edaaf8a2dc399e1d3d16f62e3b250d91207e64c3f72 EBUILD ccpn-2.2.2.ebuild 4792 RMD160 66866605d58520d45257e277f9b8a483ccae9fbc SHA1 977794e3110f24e8b63bca12e9f9ca96a632b9fb SHA256 268766d35ac9f38942d7bb5143daeb2e02cde8d72716aaa0c6cf4924642e6145 EBUILD ccpn-2.2.2_p120403.ebuild 4799 RMD160 a50ffa3b80cb3a146d99a2337c76a693609261dc SHA1 c855594ee418f973bf9db6d45efcde8daee2ff83 SHA256 33104414788b86a93578114d0a14e91d57a4852e3cf4d37547f4ae3124424099 -MISC ChangeLog 17011 RMD160 a763d21ab60e1cfea75fa38b96e7f31733f41134 SHA1 7dc103103307a9fd471158f65a25f5119ac21f9f SHA256 4a826aaf6b5f0db5116c8b9bce60a07bd6886732131bdefaf22b0aa14d812d42 +EBUILD ccpn-2.2.2_p120423.ebuild 4799 RMD160 3a2a3a2ea0dc0a81bb3e5d80f016ae7e1722081d SHA1 ac51d13d13345ab7d40462baf6874e7b5f8fbe1e SHA256 5a9d2bc41515c2b1a05f5938b6719c80b5f4de19c04ae3f92557a332f52fa4c9 +MISC ChangeLog 17146 RMD160 76aa0dd6e2c5ccef6a1244986e817ecf2388e1b6 SHA1 aae13160356335346170c327b1b75b1e7d73e965 SHA256 823ec38c1759ac55a498d618a0d24fe9fce535790a01d0f00115350ff4b4ed85 MISC metadata.xml 322 RMD160 9fd5fba7405b689fc39a089d81ffdaa9f961b514 SHA1 0c31132b25fca04cff97ef11fdc11940f90c77d0 SHA256 7468ba4c27b879e7ed5f82274f5837e51f1f389673a33b9e26e1756a6b0783df -----BEGIN PGP SIGNATURE----- Version: GnuPG v2.0.19 (GNU/Linux) -iEYEAREKAAYFAk97MlAACgkQgAnW8HDreRZbywCffA+qeuJtxeeFrdIyM9Usmmd8 -3Q0AoMpCSLF8m4GSq4YQNAHgu+0TdpaY -=nAUN +iEYEAREKAAYFAk+VETEACgkQgAnW8HDreRZPEACgp2qa3FF/g9YIkKvR/28wLuqR +DrIAn0OThP6VYBu2iKfn8BTr/jFuQbk1 +=Sb7u -----END PGP SIGNATURE----- diff --git a/sci-chemistry/ccpn/ccpn-2.2.2_p120423.ebuild b/sci-chemistry/ccpn/ccpn-2.2.2_p120423.ebuild new file mode 100644 index 000000000000..e4acdf7e9351 --- /dev/null +++ b/sci-chemistry/ccpn/ccpn-2.2.2_p120423.ebuild @@ -0,0 +1,180 @@ +# Copyright 1999-2012 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.2_p120423.ebuild,v 1.1 2012/04/23 08:22:04 jlec Exp $ + +EAPI=4 + +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" +SRC_URI="http://www-old.ccpn.ac.uk/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" +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 + dev-tcltk/tix + =sci-libs/ccpn-data-"${MY_MAJOR}"* + sci-biology/psipred + x11-libs/libXext + x11-libs/libX11 + opengl? ( + media-libs/freeglut + dev-python/pyglet )" +# We need to fix this +# sci-chemistry/mdd +DEPEND="${RDEPEND}" +PDEPEND=" + extendnmr? ( + >=sci-chemistry/aria-2.3.2-r1 + 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 + python_pkg_setup +} + +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" \ + -e "s:weights_s:weights: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 || die + + sed \ + -e 's:ln -s:cp -f:g' \ + -i $(find python -name linkSharedObjs) || die +} + +src_compile() { + emake -C c all + emake -C c links +} + +src_install() { + local libdir + local tkver + local _wrapper + + find . -name "*.pyc" -type f -delete + + libdir=$(get_libdir) + tkver=$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2) + + _wrapper="analysis dangle dataShifter depositionFileImporter eci formatConverter pipe2azara xeasy2azara" + use extendnmr && _wrapper="${_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${tkver}|g" \ + -e "s|gentoopython|$(PYTHON -a)|g" \ + -e "s|gentoousr|${EPREFIX}/usr|g" \ + -e "s|//|/|g" \ + "${FILESDIR}"/${wrapper} > "${T}"/${wrapper} || die "Fail fix ${wrapper}" + dobin "${T}"/${wrapper} + done + + local in_path=$(python_get_sitedir)/${PN} + local files + local pydocs + + pydocs="$(find python -name doc -type d)" + rm -rf ${pydocs} || die + + 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 + eend + + ebegin "Adjusting permissions" + + for _file in $(find "${ED}" -type f -name "*so"); do + chmod 755 ${_file} + done + eend +} + +pkg_postinst() { + python_mod_optimize ${PN} +} + +pkg_postrm() { + python_mod_cleanup ${PN} +} |