diff options
author | Justin Lecher <jlec@gentoo.org> | 2013-11-25 08:11:31 +0000 |
---|---|---|
committer | Justin Lecher <jlec@gentoo.org> | 2013-11-25 08:11:31 +0000 |
commit | a31728bad69952c4e4266c778879b357f64da8c3 (patch) | |
tree | ce30ba3444e1c04c984d01fe5188fc1d3ffee526 /sci-chemistry/ccpn | |
parent | Add missing lapack dependency #492482 (diff) | |
download | historical-a31728bad69952c4e4266c778879b357f64da8c3.tar.gz historical-a31728bad69952c4e4266c778879b357f64da8c3.tar.bz2 historical-a31728bad69952c4e4266c778879b357f64da8c3.zip |
sci-chemistry/ccpn: Todays pthon patches
Package-Manager: portage-2.2.7/cvs/Linux x86_64
Manifest-Sign-Key: 0xB9D4F231BD1558AB!
Diffstat (limited to 'sci-chemistry/ccpn')
-rw-r--r-- | sci-chemistry/ccpn/ChangeLog | 7 | ||||
-rw-r--r-- | sci-chemistry/ccpn/Manifest | 30 | ||||
-rw-r--r-- | sci-chemistry/ccpn/ccpn-2.3.1_p131125.ebuild | 166 |
3 files changed, 188 insertions, 15 deletions
diff --git a/sci-chemistry/ccpn/ChangeLog b/sci-chemistry/ccpn/ChangeLog index 853e603fa48d..66604699c05c 100644 --- a/sci-chemistry/ccpn/ChangeLog +++ b/sci-chemistry/ccpn/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-chemistry/ccpn # Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.127 2013/11/19 11:38:42 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.128 2013/11/25 08:11:30 jlec Exp $ + +*ccpn-2.3.1_p131125 (25 Nov 2013) + + 25 Nov 2013; Justin Lecher <jlec@gentoo.org> +ccpn-2.3.1_p131125.ebuild: + Todays pthon patches *ccpn-2.3.1_p131119 (19 Nov 2013) diff --git a/sci-chemistry/ccpn/Manifest b/sci-chemistry/ccpn/Manifest index f29a7e06755f..61b7fde03a79 100644 --- a/sci-chemistry/ccpn/Manifest +++ b/sci-chemistry/ccpn/Manifest @@ -41,6 +41,7 @@ DIST ccpn-update-2.3.1-131015.patch.xz 7676 SHA256 df46e2f39ff6a9feda6bd9d4480d9 DIST ccpn-update-2.3.1-131018.patch.xz 8152 SHA256 03d51dd46b68b426dce8dcdc479add7a3c865c98da1528854538422ebfb93952 SHA512 cf396501bdabca724cf691cb35a7acaafc5b7253f15eaf6c286a52afbf629b1babadd837facbafe50d9a960699647640ffc009ae58da4cd1c288b752ce8a96fc WHIRLPOOL dbb69d3df269cd569939783963243496552b3ea551a5e7e4362d2815aad533142a884183ca1bed3af4c54933eb03e835cc9b46662dc8021705507eeabbb6b2d3 DIST ccpn-update-2.3.1-131107.patch.xz 9316 SHA256 d01b8cdde7f459027b731649526fa8bd84ce3fff6a3e10df8b26bd3a52df80dd SHA512 c18784d29d7f15ddf74229d0a44162595d953db76663450101e2d65ca7834dafd0137c2f5742d66a7b89a4af57149f49ce0bb01e62c198da3c93ca3c6a4c2002 WHIRLPOOL ef571e4a279a15e434bd264d9f1213c610a79dc9d9e4c0318ac99b29213ee2018ca02617b62632a791f61b9c7479586567983a43c698f4423d90a9aaa554c7d1 DIST ccpn-update-2.3.1-131119.patch.xz 9908 SHA256 c6098bed0078773a5a1adb91ed5c02d202845d9fe2a94481b0ea1e0556c2475a SHA512 30a3c7b203eb49de974de6eb5c466a82be58a7679bb0798770adf0011e05cde1130b79453ac407cb43c03f6be464db04b5bff3fddb5c09952ae182343253fcc5 WHIRLPOOL e8bfffda3d08c7fdbd00b905a9d8f6fca736f64b54ec39b6d31120381af2503e1cdf9f338cbcebe5eddf398b5eb4cc576147e9d7bfe06a44fd0a642e466a8dda +DIST ccpn-update-2.3.1-131125.patch.xz 10160 SHA256 a386e70114b61de2957eccbfdd39f099606f82d0081949923cc68493e69df8d5 SHA512 20457e5b16d834f6c4d086b0fd6ebdd1b23756c170be6dd67766e153e6ed33fe4511a5f718ca99e6f44fc99eed00f90c3f34dc67c14047f89cefcbc100acbdd0 WHIRLPOOL 5d2f072a2ea2f4510172d633cad5de753401b536ff12e3dbe20a5df78feeb414c8457b3965744bb14f8f44fa586c099c095e0acf016aa4f7da47ec1883af250b EBUILD ccpn-2.1.3.1_p100806.ebuild 5181 SHA256 c3ba268461da63ea23ee7f621a8e4837a368eb3e4c85bcc5245250fb6b377b58 SHA512 701ea90a13dc44e5bf1ea17c0f69adea56b1c14788ab79c67fa4b9726cae532998717515568045aec9bb4e1dd4c352227130115d90c50bf07e7fd132cdee385d WHIRLPOOL 898a618f95b254785739e6fab20af333cb3a44bff12cd6840d1b111f1588a60e48055e8af7ca88457173452f6acba86ebd3bada96390211bc4cd063fe4160fd5 EBUILD ccpn-2.2.2_p121125.ebuild 4612 SHA256 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+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-old.ccpn.ac.uk/download/${MY_PN}/analysis${MY_PV}r2.tar.gz" +[[ -n ${PATCHSET} ]] \ + && SRC_URI+=" http://dev.gentoo.org/~jlec/distfiles/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch.xz" + +SLOT="0" +LICENSE="|| ( CCPN LGPL-2.1 )" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" +IUSE="+opengl" + +REQUIRED_USE="${PYTHON_REQUIRED_USE}" + +RDEPEND=" + ${PYTHON_DEPS} + dev-lang/tk[threads] + dev-python/numpy[${PYTHON_USEDEP}] + dev-tcltk/tix + =sci-libs/ccpn-data-"${MY_MAJOR}"*[${PYTHON_USEDEP}] + sci-biology/psipred + x11-libs/libXext + x11-libs/libX11 + opengl? ( + media-libs/freeglut + dev-python/pyglet[${PYTHON_USEDEP}] )" +DEPEND="${RDEPEND}" + +RESTRICT="mirror" + +S="${WORKDIR}"/${MY_PN}/${MY_PN}$(get_version_component_range 1-2) + +src_prepare() { + [[ -n ${PATCHSET} ]] && \ + epatch "${WORKDIR}"/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch + + epatch "${FILESDIR}"/${MY_PV}-parallel.patch "${FILESDIR}"/talosn.patch + + append-lfs-flags + + sed \ + -e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \ + -e "s:weights_s:weights:g" \ + -i python/ccpnmr/analysis/wrappers/Psipred.py || die + + local tk_ver + local myconf + + tk_ver="$(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 ${CPPFLAGS} ${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|^\(TK_LIB =\).*|\1 -ltk|g" \ + -e "s|^\(TK_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \ + -e "s|^\(PYTHON_INCLUDE_FLAGS =\).*|\1 -I$(python_get_includedir)|g" \ + -e "s|^\(PYTHON_LIB =\).*|\1 -l${EPYTHON}|g" \ + c/environment_default.txt > c/environment.txt || die + + sed \ + -e 's:ln -s:cp -f:g' \ + -i $(find python -name linkSharedObjs) || die +} + +src_compile() { + emake -C c all + emake -C c links +} + +src_install() { + local libdir + local tkver + local _wrapper + + find . -name "*.pyc" -type f -delete || die + + libdir=$(get_libdir) + tkver=$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2) + + _wrapper="analysis dangle dataShifter depositionFileImporter eci formatConverter pipe2azara xeasy2azara extendNmr" + for wrapper in ${_wrapper}; do + sed \ + -e "s|gentoo_sitedir|$(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|${EPYTHON}|g" \ + -e "s|gentoousr|${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 + + dodir ${in_path#${EPREFIX}}/c + + ebegin "Installing main files" + python_moduleinto ${PN} + python_domodule python + eend + + ebegin "Adjusting permissions" + for _file in $(find "${ED}" -type f -name "*so"); do + chmod 755 ${_file} + done + eend + python_optimize +} |