Moved to Tree

4 files changed, 0 insertions, 242 deletions

diff --git a/sci-chemistry/vmd/ChangeLog b/sci-chemistry/vmd/ChangeLog
deleted file mode 100644
index 764678c87..000000000
--- a/sci-chemistry/vmd/ChangeLog
+++ /dev/null
@@ -1,10 +0,0 @@
-# ChangeLog for sci-chemistry/vmd
-# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
-# $Header: $
-
-*vmd-1.9.1 (22 Oct 2012)
-
-  22 Oct 2012; Reinis Danne <rei4dan@gmail.com> +vmd-1.9.1.ebuild,
-  +metadata.xml:
-  Fix netcdf config, bug #406737.
-
diff --git a/sci-chemistry/vmd/Manifest b/sci-chemistry/vmd/Manifest
deleted file mode 100644
index 29f023a90..000000000
--- a/sci-chemistry/vmd/Manifest
+++ /dev/null
@@ -1,2 +0,0 @@
-DIST vmd-1.9.1-gentoo-patches.tar.xz 79240 SHA256 60fe1b017b1aed5cdd4a417d4a2dbd20f75eae24c83d1da68c504a31bfbdbcd8 SHA512 37856d5e00d3d4452324865190aef4ac05a7a49cbddffe83f568d3190b521f17e6e1e5323dee3127aadfb446ec0871bfd06dff47d640ed862547710ec4b0a421 WHIRLPOOL b3eebffe24a96ad1c7ce9ebc565e1b88d6f52894569a6d72c22e87fb3d6975d14779bd8c4305e3e9f2ecf9d981503b8bcea78a476a1a66eb37b78c759b3bdf60
-DIST vmd-1.9.1.src.tar.gz 30748110 SHA256 54aa88e03d86d763383e7b98592a152c9d68e78383e13af0dd2aca09b002491f SHA512 a54cb08e8a9ce801c2ca986f746bff0a041a25d5cffebc8d4af50813b6c05d04a3209a27830d580287230edaf3048a78923ae54bf367ab69c3d81388ab1787bd WHIRLPOOL 26d2a855c0768583cd45aed105fdd8f1ef59d59b8ce11c1903f5fc2008ea05989b8a32a0d817725e711613f8abfc22bb5301f20ea8d597efe9c7913790b25bb7
diff --git a/sci-chemistry/vmd/metadata.xml b/sci-chemistry/vmd/metadata.xml
deleted file mode 100644
index 103ce95d4..000000000
--- a/sci-chemistry/vmd/metadata.xml
+++ /dev/null
@@ -1,15 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-	<maintainer>
-		<email>alexxy@gentoo.org</email>
-		<name>Alexey Shvetsov</name>
-	</maintainer>
-	<herd>sci-chemistry</herd>
-	<use>
-		<flag name='msms'>Add support for MSMS SAS calcualtion tool</flag>
-		<flag name='povray'>Add support for povray raytracer for HQ	images</flag>
-		<flag name='tachyon'>Add support for tachyon raytracer for HQ images</flag>
-		<flag name='cuda'>Use nvidia cuda toolkit for speeding up computations</flag>
-	</use>
-</pkgmetadata>
diff --git a/sci-chemistry/vmd/vmd-1.9.1.ebuild b/sci-chemistry/vmd/vmd-1.9.1.ebuild
deleted file mode 100644
index d9d2977e0..000000000
--- a/sci-chemistry/vmd/vmd-1.9.1.ebuild
+++ /dev/null
@@ -1,215 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: $
-
-EAPI="5"
-
-PYTHON_DEPEND="2"
-
-inherit eutils multilib python toolchain-funcs
-
-DESCRIPTION="Visual Molecular Dynamics"
-HOMEPAGE="http://www.ks.uiuc.edu/Research/vmd/"
-SRC_URI="
-	mirror://gentoo/${P}-gentoo-patches.tar.xz
-	${P}.src.tar.gz"
-
-SLOT="0"
-LICENSE="vmd"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-IUSE="cuda msms povray tachyon xinerama"
-
-RESTRICT="fetch"
-
-# currently, tk-8.5* with USE=truetype breaks some
-# tk apps such as Sequence Viewer or Timeline.
-CDEPEND="
-	|| (
-		>=dev-lang/tk-8.5[-truetype]
-		=dev-lang/tk-8.4*
-	)
-	dev-lang/perl
-	dev-python/numpy
-	sci-libs/netcdf
-	virtual/opengl
-	>=x11-libs/fltk-1.1.10-r2:1
-	x11-libs/libXft
-	x11-libs/libXi
-	cuda? ( >=dev-util/nvidia-cuda-toolkit-3.1 )
-	xinerama? ( x11-libs/libXinerama )"
-DEPEND="${CDEPEND}
-	dev-lang/swig"
-RDEPEND="${CDEPEND}
-	sci-biology/stride
-	sci-chemistry/surf
-	x11-terms/xterm
-	msms? ( sci-chemistry/msms-bin )
-	povray? ( media-gfx/povray )
-	tachyon? ( media-gfx/tachyon )"
-
-VMD_DOWNLOAD="http://www.ks.uiuc.edu/Development/Download/download.cgi?PackageName=VMD"
-# Binary only plugin!!
-QA_TEXTRELS="usr/lib*/vmd/plugins/LINUX/tcl/intersurf1.1/bin/intersurf.so"
-QA_PRESTRIPPED="usr/lib*/vmd/plugins/LINUX/tcl/intersurf1.1/bin/intersurf.so"
-QA_FLAGS_IGNORED_amd64="
-	usr/lib64/vmd/plugins/LINUX/tcl/intersurf1.1/bin/intersurf.so
-	usr/lib64/vmd/plugins/LINUX/tcl/volutil1.3/volutil"
-QA_FLAGS_IGNORED_x86="
-	usr/lib/vmd/plugins/LINUX/tcl/intersurf1.1/bin/intersurf.so
-	usr/lib/vmd/plugins/LINUX/tcl/volutil1.3/volutil"
-
-pkg_nofetch() {
-	elog "Please download ${P}.src.tar.gz from"
-	elog "${VMD_DOWNLOAD}"
-	elog "after agreeing to the license and get"
-	elog "http://dev.gentoo.org/~jlec/distfiles/${P}-gentoo-patches.tar.xz"
-	elog "Place both in ${DISTDIR}"
-}
-
-src_prepare() {
-	cd "${WORKDIR}"/plugins
-
-	epatch "${WORKDIR}"/${P}-gentoo-plugins.patch
-
-	[[ ${SILENT} == yes ]] || 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 = $(tc-getCXX) -shared:" \
-		-e "s:-ltcl8.5:-ltcl:" \
-		-i Make-arch || die "Failed to set up plugins Makefile"
-
-	sed \
-		-e "s:\$(CXXFLAGS)::g" \
-		-i hesstrans/Makefile || die
-
-	# prepare vmd itself
-	cd "${S}"
-
-	epatch "${WORKDIR}"/${P}-gentoo-base.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: -O3 -v: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 $(fltk-config --libs)):g" \
-		-e "s:gentoo-netcdf-include:${EPREFIX}/usr/include:g" \
-		-e "s:gentoo-netcdf-libs:${EPREFIX}/usr/$(get_libdir):g" \
-		-i configure || die
-
-#	local NUMPY_INCLUDE="numpy/core/include"
-#	sed -e "s:gentoo-python-include:${EPREFIX}$(python_get_includedir):" \
-#		-e "s:gentoo-python-lib:${EPREFIX}$(python_get_libdir):" \
-#		-e "s:gentoo-python-link:$(PYTHON):" \
-#		-e "s:gentoo-numpy-include:${EPREFIX}$(python_get_sitedir)/${NUMPY_INCLUDE}:" \
-#		-i configure || die "failed setting up python"
-
-	if use cuda; then
-		local gcc44_bindir="$(ls -d ${EPREFIX}/usr/*pc-linux-gnu/gcc-bin/4.4*)"
-
-		sed \
-			-e "s:gentoo-cuda-lib:${EPREFIX}/opt/cuda/$(get_libdir):g" \
-			-e "/^\$arch_nvccflags/s:=:= \"--compiler-bindir=${gcc44_bindir} \" . \n:1" \
-			-i configure || 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"
-}
-
-src_configure() {
-	local myconf="OPENGL FLTK TK TCL PTHREADS PYTHON IMD NETCDF NUMPY NOSILENT XINPUT"
-	rm -f configure.options && echo $myconf >> configure.options
-
-	use cuda && myconf+=" CUDA"
-#	use mpi && myconf+=" MPI"
-#	use tachion && myconf+=" LIBTACHYON"
-	use xinerama && myconf+=" XINERAMA"
-
-	export \
-		PYTHON_INCLUDE_DIR="${EPREFIX}$(python_get_includedir)" \
-		PYTHON_LIBRARY_DIR="${EPREFIX}$(python_get_libdir)" \
-		PYTHON_LIBRARY="$(python_get_library -l)" \
-		NUMPY_INCLUDE_DIR="${EPREFIX}$(python_get_sitedir)/numpy/core/include" \
-		NUMPY_LIBRARY_DIR="${EPREFIX}$(python_get_sitedir)/numpy/core/include"
-
-	./configure LINUX \
-		${myconf} || die
-}
-
-src_compile() {
-	# build plugins
-	cd "${WORKDIR}"/plugins
-
-	emake \
-		TCLINC="-I${EPREFIX}/usr/include" \
-		TCLLIB="-L${EPREFIX}/usr/$(get_libdir)" \
-		NETCDFLIB="$(pkg-config --libs-only-L netcdf) ${EPREFIX}/usr/lib64/libnetcdf.so" \
-		NETCDFINC="$(pkg-config --cflags-only-I netcdf) ${EPREFIX}/usr/include" \
-		NETCDFLDFLAGS="$(pkg-config --libs netcdf)" \
-		LINUX
-
-	# build vmd
-	cd "${S}"/src
-	emake
-}
-
-src_install() {
-	# install plugins
-	cd "${WORKDIR}"/plugins
-	emake \
-			PLUGINDIR="${ED}/usr/$(get_libdir)/${PN}/plugins" \
-			distrib
-
-	# install vmd
-	cd "${S}"/src
-	emake install
-
-	# install docs
-	cd "${S}"
-	dodoc Announcement README doc/ig.pdf doc/ug.pdf
-
-	# remove some of the things we don't want and need in
-	# /usr/lib
-	cd "${ED}"/usr/$(get_libdir)/vmd
-	rm -fr doc README Announcement LICENSE || \
-		die "failed to clean up /usr/lib/vmd directory"
-
-	# adjust path in vmd wrapper
-	sed \
-		-e "s:${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 "${WORKDIR}"/vmd.png
-	domenu "${WORKDIR}"/vmd.desktop
-}