commit: 0b747add2f74c816412a868cbf82ac1f4f2eb92e
Author: Pacho Ramos <pacho <AT> gentoo <DOT> org>
AuthorDate: Fri May 20 19:28:19 2022 +0000
Commit: Pacho Ramos <pacho <AT> gentoo <DOT> org>
CommitDate: Fri May 20 19:30:24 2022 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=0b747add
sci-chemistry/vmd: drop 1.9.4_alpha51
Signed-off-by: Pacho Ramos <pacho <AT> gentoo.org>
sci-chemistry/vmd/Manifest | 1 -
sci-chemistry/vmd/vmd-1.9.4_alpha51.ebuild | 270 -----------------------------
2 files changed, 271 deletions(-)
diff --git a/sci-chemistry/vmd/Manifest b/sci-chemistry/vmd/Manifest
index 0cc49d841bd2..b37c5944d2a0 100644
--- a/sci-chemistry/vmd/Manifest
+++ b/sci-chemistry/vmd/Manifest
@@ -1,5 +1,4 @@
DIST vmd-1.9.4_alpha51-gentoo-patches.tar.xz 14604 BLAKE2B
f8621956785d365cc056ba53373120d8f99da1476ab9789af6bb8ef00b8dd8c2a4c3599d75e13eba2fc5630b291aed966ce64f7f408504b079e3e994e45da243
SHA512
c57fd81e667e405ab1208a4e4a1d63710e593c07f554420c32980becd3547c2df98fbf6e439a53a626121fc361559f1ba53ab7b7235c97422bba61ece59d23bc
DIST vmd-1.9.4_alpha57-gentoo-patches.tar.xz 14612 BLAKE2B
e50a2fc734038207174dd5cc525f01824ce324a65b8ce604f83862ce50be6b1950d199188a717e2368b2b050256a4705662009e3530d621b19c52bb109b6a844
SHA512
6283076e47dfcd780bbc94f9ca2b044a028a472c09d78616d373813d81ec764bf1697e56a8f487f9f0999cf409c0f141bf248156f60851073347d1b640a6953c
-DIST vmd-1.9.4a51.src.tar.gz 42826371 BLAKE2B
239d87f975c41a71096083028c1db8bf40cc058fc687fd9fff3c14c97c9b12bd68818d4c2eaeefd8c95c661409f1f056bce42178d0ba9271aa344fdce6f81ea9
SHA512
b42af6a4a7b1d2f0d242f89bff3a1c25a608ff59b9902b90154ba82a40439afb802a2d319363fa388a5211420fdaf0ee9bfd1f0a0e6e85d89d1dd506b373ba40
DIST vmd-1.9.4a55.src.tar.gz 43049895 BLAKE2B
311fdbf8742647d1dbba8346e8559d26b19ec445bb5df4b23f684c5769997e2261e200b8118668d296654f59ab340fc150f5aa33fc808ad55f2e78ce7030960b
SHA512
1be5f50555423120fd8c5c335a346a40253fb80cc352f08907d864f6b34d3debe28d9a3fbf821c3a6c7c86c615fd09735c05aadf1b4503722075e9ab0b946378
DIST vmd-1.9.4a57.src.tar.gz 43155120 BLAKE2B
de0da96f6681c24e7b1d38890f109088187198cbdddb3d86d783322e837b7a71224085699f3addf2833cf293ab2689f06ab47df284b8fbe080162740094ae844
SHA512
0a3726d8fa279ac62c368cd18724cd09535618454ff6e299d147291ef5d4198ad9d58a94f0b05699ec8a23128753c55e7397c95a5ce194e36d3fabef1bcf454c
diff --git a/sci-chemistry/vmd/vmd-1.9.4_alpha51.ebuild
b/sci-chemistry/vmd/vmd-1.9.4_alpha51.ebuild
deleted file mode 100644
index f4678f8d788b..000000000000
--- a/sci-chemistry/vmd/vmd-1.9.4_alpha51.ebuild
+++ /dev/null
@@ -1,270 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-PYTHON_COMPAT=( python3_{8..9} )
-
-inherit cuda desktop flag-o-matic prefix python-single-r1 toolchain-funcs xdg
-
-DESCRIPTION="Visual Molecular Dynamics"
-HOMEPAGE="http://www.ks.uiuc.edu/Research/vmd/";
-
-MY_PV="${PV/_alpha/a}"
-MY_P="${PN}-${MY_PV}"
-SRC_URI="
- ${MY_P}.src.tar.gz
- https://dev.gentoo.org/~pacho/${PN}/${P}-gentoo-patches.tar.xz
-"
-
-SLOT="0"
-LICENSE="vmd"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-
-IUSE="cuda gromacs msms povray sqlite tachyon xinerama"
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RESTRICT="fetch"
-
-CDEPEND="${PYTHON_DEPS}
- $(python_gen_cond_dep '
- dev-python/numpy[${PYTHON_USEDEP}]
- ')
- >=dev-lang/tk-8.6.1:0=
- dev-lang/perl
- dev-libs/expat
- sci-libs/netcdf:0=
- virtual/opengl
- >=x11-libs/fltk-1.1.10-r2:1
- x11-libs/libXft
- x11-libs/libXi
- cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1:= )
- gromacs? ( >=sci-chemistry/gromacs-5.0.4-r1:0=[tng] )
- sqlite? ( dev-db/sqlite:3= )
- tachyon? ( >=media-gfx/tachyon-0.99_beta6 )
- xinerama? ( x11-libs/libXinerama )
-"
-DEPEND="${CDEPEND}"
-BDEPEND="
- virtual/pkgconfig
- dev-lang/swig
-"
-RDEPEND="${CDEPEND}
- sci-biology/stride
- sci-chemistry/chemical-mime-data
- sci-chemistry/surf
- x11-misc/xdg-utils
- x11-terms/xterm
- msms? ( sci-chemistry/msms-bin )
- povray? ( media-gfx/povray )
-"
-
-S="${WORKDIR}/${MY_P}"
-
-VMD_DOWNLOAD="http://www.ks.uiuc.edu/Development/Download/download.cgi?PackageName=VMD";
-
-# Binary only plugin!!
-QA_PREBUILT="usr/lib*/vmd/plugins/LINUX/tcl/intersurf/bin/intersurf.so"
-QA_FLAGS_IGNORED_amd64=" usr/lib64/vmd/plugins/LINUX/tcl/volutil/volutil"
-QA_FLAGS_IGNORED_x86=" usr/lib/vmd/plugins/LINUX/tcl/volutil/volutil"
-
-pkg_nofetch() {
- elog "Please download ${MY_P}.src.tar.gz from"
- elog "${VMD_DOWNLOAD}"
- elog "after agreeing to the license and get"
- elog "https://dev.gentoo.org/~pacho/${PN}/${P}-gentoo-patches.tar.xz";
- elog "Place them into your DISTDIR directory."
-}
-
-src_prepare() {
- # Apply user patches from ${WORKDIR} to allow patching on patches
- # subdir too
- cd "${WORKDIR}"
- xdg_src_prepare
-
- # https://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/32121.html
- # https://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/32116.html
- eapply "${WORKDIR}"/${PN}-patches/${PN}-1.9.4a51-gentoo-plugins.patch
-
- use cuda && cuda_sanitize
-
- # Prepare plugins
- cd plugins || die
-
- sed '/^.SILENT/d' -i $(find -name Makefile)
-
- sed \
- -e "s:CC = gcc:CC = $(tc-getCC):" \
- -e "s:CXX = g++:CXX = $(tc-getCXX):" \
- -e "s:COPTO =.*\":COPTO = -fPIC -o \":" \
- -e "s:LOPTO = .*\":LOPTO = ${LDFLAGS} -fPIC -o \":" \
- -e "s:CCFLAGS =.*\":CCFLAGS = ${CFLAGS}\":" \
- -e "s:CXXFLAGS =.*\":CXXFLAGS = ${CXXFLAGS}\":" \
- -e "s:SHLD = gcc:SHLD = $(tc-getCC) -shared:" \
- -e "s:SHXXLD = g++:SHXXLD = $(tc-getCXX) -shared:" \
- -e "s:-ltcl8.5:-ltcl:" \
- -i Make-arch || die "Failed to set up plugins Makefile"
-
- sed \
- -e '/^AR /s:=:?=:g' \
- -e '/^RANLIB /s:=:?=:g' \
- -i ../plugins/*/Makefile || die
-
- tc-export AR RANLIB
-
- sed \
- -e "s:\$(CXXFLAGS)::g" \
- -i hesstrans/Makefile || die
-
- # prepare vmd itself
- cd "${S}" || die
-
- eapply "${WORKDIR}"/${PN}-patches/${PN}-1.9.4a51-gentoo-paths.patch
-
- # https://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/32122.html
- eapply "${WORKDIR}"/${PN}-patches/${PN}-1.9.4-tmpdir.patch
-
- # PREFIX
- sed \
- -e "s:/usr/include/:${EPREFIX}/usr/include:g" \
- -i configure || die
-
- sed \
- -e "s:gentoo-bindir:${ED}/usr/bin:g" \
- -e "s:gentoo-libdir:${ED}/usr/$(get_libdir):g" \
- -e "s:gentoo-opengl-include:${EPREFIX}/usr/include/GL:g" \
- -e "s:gentoo-opengl-libs:${EPREFIX}/usr/$(get_libdir):g" \
- -e "s:gentoo-gcc:$(tc-getCC):g" \
- -e "s:gentoo-g++:$(tc-getCXX):g" \
- -e "s:gentoo-nvcc:${EPREFIX}/opt/cuda/bin/nvcc:g" \
- -e "s:gentoo-cflags:${CFLAGS}:g" \
- -e "s:gentoo-cxxflags:${CXXFLAGS}:g" \
- -e "s:gentoo-nvflags::g" \
- -e "s:gentoo-ldflags:${LDFLAGS}:g" \
- -e "s:gentoo-plugindir:${WORKDIR}/plugins:g" \
- -e "s:gentoo-fltk-include:$(fltk-config --includedir):g" \
- -e "s:gentoo-fltk-libs:$(dirname $(fltk-config --libs))
-Wl,-rpath,$(dirname $(fltk-config --libs)):g" \
- -e
"s:gentoo-libtachyon-include:${EPREFIX}/usr/include/tachyon:g" \
- -e "s:gentoo-libtachyon-libs:${EPREFIX}/usr/$(get_libdir):g" \
- -e "s:gentoo-netcdf-include:${EPREFIX}/usr/include:g" \
- -e "s:gentoo-netcdf-libs:${EPREFIX}/usr/$(get_libdir):g" \
- -i configure || die
-
- if use cuda; then
- sed \
- -e
"s:gentoo-cuda-lib:${EPREFIX}/opt/cuda/$(get_libdir):g" \
- -e "/NVCCFLAGS/s:=:= ${NVCCFLAGS}:g" \
- -i configure src/Makefile || die
- sed \
- -e '/compute_/d' \
- -i configure || die
- sed \
- -e 's:-gencode .*code=sm_..::' \
- -i src/Makefile || die
- fi
-
- sed \
- -e "s:LINUXPPC:LINUX:g" \
- -e "s:LINUXALPHA:LINUX:g" \
- -e "s:LINUXAMD64:LINUX:g" \
- -e "s:gentoo-stride:${EPREFIX}/usr/bin/stride:g" \
- -e "s:gentoo-surf:${EPREFIX}/usr/bin/surf:g" \
- -e "s:gentoo-tachyon:${EPREFIX}/usr/bin/tachyon:g" \
- -i "${S}"/bin/vmd.sh || die "failed setting up vmd wrapper
script"
-
- EMAKEOPTS=(
- TCLINC="-I${EPREFIX}/usr/include"
- TCLLIB="-L${EPREFIX}/usr/$(get_libdir)"
- TCLLDFLAGS="-shared"
- NETCDFLIB="$($(tc-getPKG_CONFIG) --libs-only-L
netcdf)${EPREFIX}/usr/$(get_libdir)/libnetcdf.so"
- NETCDFINC="$($(tc-getPKG_CONFIG) --cflags-only-I
netcdf)${EPREFIX}/usr/include"
- NETCDFLDFLAGS="$($(tc-getPKG_CONFIG) --libs netcdf)"
- NETCDFDYNAMIC=1
- EXPATINC="-I${EPREFIX}/usr/include"
- EXPATLIB="$($(tc-getPKG_CONFIG) --libs expat)"
- EXPATLDFLAGS="-shared"
- EXPATDYNAMIC=1
- )
- if use gromacs; then
- EMAKEOPTS+=(
- TNGLIB="$($(tc-getPKG_CONFIG) --libs libgromacs)"
- TNGINC="-I${EPREFIX}/usr/include"
- TNGLDFLAGS="-shared"
- TNGDYNAMIC=1
- )
- fi
- if use sqlite; then
- EMAKEOPTS+=(
- SQLITELIB="$($(tc-getPKG_CONFIG) --libs sqlite3)"
- SQLITEINC="-I${EPREFIX}/usr/include"
- SQLITELDFLAGS="-shared"
- SQLITEDYNAMIC=1
- )
- fi
-}
-
-src_configure() {
- local myconf="OPENGL OPENGLPBUFFER COLVARS FLTK TK TCL PTHREADS PYTHON
IMD NETCDF NUMPY NOSILENT XINPUT"
- rm -f configure.options && echo $myconf >> configure.options
-
- use cuda && myconf+=" CUDA"
-# use mpi && myconf+=" MPI"
- use tachyon && myconf+=" LIBTACHYON"
- use xinerama && myconf+=" XINERAMA"
-
- export \
- PYTHON_INCLUDE_DIR="$(python_get_includedir)" \
- PYTHON_LIBRARY_DIR="$(python_get_library_path)" \
- PYTHON_LIBRARY="$(python_get_LIBS)" \
- NUMPY_INCLUDE_DIR="$(python_get_sitedir)/numpy/core/include" \
- NUMPY_LIBRARY_DIR="$(python_get_sitedir)/numpy/core/include"
-
- perl ./configure LINUX \
- ${myconf} || die
-}
-
-src_compile() {
- # build plugins
- cd "${WORKDIR}"/plugins || die
-
- emake \
- ${EMAKEOPTS[@]} \
- LINUX
-
- # build vmd
- cd "${S}"/src || die
- emake
-}
-
-src_install() {
- # install plugins
- cd "${WORKDIR}"/plugins || die
- emake \
- PLUGINDIR="${ED}/usr/$(get_libdir)/${PN}/plugins" \
- distrib
-
- # install vmd
- cd "${S}"/src || die
- emake install
-
- # install docs
- cd "${S}" || die
- dodoc Announcement README doc/ig.pdf doc/ug.pdf
-
- # remove some of the things we don't want and need in
- # /usr/lib
- cd "${ED}"/usr/$(get_libdir)/vmd || die
- rm -fr doc README Announcement LICENSE || \
- die "failed to clean up /usr/lib/vmd directory"
-
- # adjust path in vmd wrapper
- sed \
- -e "s:${ED}::" -i "${ED}"/usr/bin/${PN} \
- -e
"/^defaultvmddir/s:^.*$:defaultvmddir=\"${EPREFIX}/usr/$(get_libdir)/${PN}\":g"
\
- || die "failed to set up vmd wrapper script"
-
- # install icon and generate desktop entry
- insinto /usr/share/pixmaps
- doins "${WORKDIR}"/vmd-patches/vmd.png
- eprefixify "${WORKDIR}"/vmd-patches/vmd.desktop
- domenu "${WORKDIR}"/vmd-patches/vmd.desktop
-}
