proj/gentoo: Initial commit

This commit represents a new era for Gentoo:
Storing the gentoo-x86 tree in Git, as converted from CVS.

This commit is the start of the NEW history.
Any historical data is intended to be grafted onto this point.

Creation process:
1. Take final CVS checkout snapshot
2. Remove ALL ChangeLog* files
3. Transform all Manifests to thin
4. Remove empty Manifests
5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$
5.1. Do not touch files with -kb/-ko keyword flags.

Signed-off-by: Robin H. Johnson <robbat2@gentoo.org>
X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests
X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project
X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration
X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn
X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts
X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration
X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging
X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed

7 files changed, 390 insertions, 0 deletions

diff --git a/sci-chemistry/relax/Manifest b/sci-chemistry/relax/Manifest
new file mode 100644
index 000000000000..789564f5ef98
--- /dev/null
+++ b/sci-chemistry/relax/Manifest
@@ -0,0 +1,5 @@
+DIST relax-3.3.4.src.tar.bz2 89206485 SHA256 03ecc20353126d155c7d5c9ab45e3bb146a87243472711c937befced2db333c0 SHA512 78ae5778ef0fe84fc3a26648dd2192d529fb1e5241728f7c06a5a2cec2ce849a2c75c19a931123a17d5c210acc4f4c2401574b10a1fbbe0307d2d9867567352d WHIRLPOOL 4fcdec36e8df412091ab1a99a6b017ebc72f8e5c400429e698221f22e4ef7ae35713a6e2a05f6f1b573e5223f8eccc7cb0d2a20b1171e5bc483fd3ef1a0242bc
+DIST relax-3.3.5.src.tar.bz2 90164368 SHA256 d9e3668221dba7589ba1d12ab40df517b5b6f742ee413864cc87ab636546e2ef SHA512 c8c248abf0edb54af631c11b102b641d41a106036bbdb88d8f1563c9750d3c7d402ee150d7afd770b845d3a421e431afcf95e6222197f9dc1afec61ddcd0bf37 WHIRLPOOL d9070bed833ef063c22fec5e55b1968c65b672ee100247b1af9a25d3149eb57475aeb94a4f125fc3cd278d97ac248e7826b083c840b47f9db83bae7e1aaae710
+DIST relax-3.3.6.src.tar.bz2 90005292 SHA256 2b1994626a910036c63d67c609c49b3bde8c754b60763de62c2ac8f6c3f589c3 SHA512 cda773a4af259d25550e4e4dbd8500594afd9df051ba06130355058347f308b804726acafaa76957e062c78d1d8fb26f843b3ac97d5aecd534b53c1a5155cafb WHIRLPOOL 0bf0f51664a132653fbd981ee6776cb16dd6371504df2167658027325d632cda8a6f4a21d4a530c46dc75c93b3ffb87f5189d4986acadb344154cd7420361e0b
+DIST relax-3.3.7.src.tar.bz2 90268061 SHA256 a32508bd55fa124f6472e08d89ec0fa9f3837efcceb2be681404eb998457381f SHA512 3724a51ef9177f9bd78b3c92add7b88d559f21f5166eaf62b865586c061d17ce0a1af61a794db324d0f792eece04d8f1d037f9e982c858768da1d3fc208e9270 WHIRLPOOL e4446c7ccbe1e8f3caa450a3d747fb8dfcc33d9d336386572b72481544101199150e7938b0e5319a70ef3a5a7f4ad53c143d4a6c01cc7553f435fbc0d00fe952
+DIST relax-3.3.8.src.tar.bz2 90271667 SHA256 176d4e9f0f1c6cf6e6c93b12070a50ff31e10c8dbe2c05cfc2b253e51425b12d SHA512 ddc9df4a8da4ec563403003ae5bc9ecdf5f3bb7341e2306c405fcf7953ab67cab93e9f64139465b05acfa2c842da1624d941b481ef77c20804cabe7c9df811f9 WHIRLPOOL 1a7f77fc9cd712b7ca459a1943dffde4e154fa2d5e06b77ec42568b012c4319dd43eb0b85cdfd6116b9ba2584e5bd58e1b0d8ea8524d462ab4e18e33d4fa315e
diff --git a/sci-chemistry/relax/metadata.xml b/sci-chemistry/relax/metadata.xml
new file mode 100644
index 000000000000..617e574f7c34
--- /dev/null
+++ b/sci-chemistry/relax/metadata.xml
@@ -0,0 +1,30 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+  <herd>sci-chemistry</herd>
+  <maintainer>
+    <email>jlec@gentoo.org</email>
+  </maintainer>
+  <longdescription>
+The program relax is a software package designed for the study of molecular 
+dynamics through the analysis of experimental NMR data. Organic molecules, 
+proteins, RNA, DNA, sugars, and other biomolecules are all supported. It 
+was originally written for the model-free analysis of protein dynamics, 
+though its scope has been significantly expanded.
+
+relax is a community driven project created by NMR spectroscopists for 
+NMR spectroscopists. It supports a diverse range of analyses:
+
+Model-free analysis - the Lipari and Szabo model-free analysis of NMR 
+	relaxation data.
+R1 and R2 - the exponential curve fitting for the calculation of the 
+	Rx NMR relaxation rates.
+NOE - the calculation of the steady-state NOE NMR relaxation data.
+Consistency testing of multiple field NMR relaxation data.
+RSDM - Reduced Spectral Density Mapping.
+Frame order and N-state model - study of domain motions via the N-state 
+	model and frame order dynamics theories using anisotropic 
+	NMR parameters such as RDCs and PCSs.
+Stereochemistry investigations.
+</longdescription>
+</pkgmetadata>
diff --git a/sci-chemistry/relax/relax-3.3.4.ebuild b/sci-chemistry/relax/relax-3.3.4.ebuild
new file mode 100644
index 000000000000..e394217054c8
--- /dev/null
+++ b/sci-chemistry/relax/relax-3.3.4.ebuild
@@ -0,0 +1,69 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+WX_GTK_VER="2.9"
+
+inherit eutils multiprocessing python-single-r1 scons-utils toolchain-funcs wxwidgets virtualx
+
+DESCRIPTION="Molecular dynamics by NMR data analysis"
+HOMEPAGE="http://www.nmr-relax.com/"
+SRC_URI="http://download.gna.org/relax/${P}.src.tar.bz2"
+
+SLOT="0"
+LICENSE="GPL-2"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE=""
+
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+RDEPEND="
+	${PYTHON_DEPS}
+	dev-python/Numdifftools[${PYTHON_USEDEP}]
+	dev-python/matplotlib[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	dev-python/wxpython:${WX_GTK_VER}[${PYTHON_USEDEP}]
+	sci-chemistry/molmol
+	sci-chemistry/pymol[${PYTHON_USEDEP}]
+	sci-chemistry/vmd
+	>=sci-libs/bmrblib-1.0.3[${PYTHON_USEDEP}]
+	>=sci-libs/minfx-1.0.11[${PYTHON_USEDEP}]
+	sci-libs/scipy[${PYTHON_USEDEP}]
+	sci-visualization/grace
+	sci-visualization/opendx
+	x11-libs/wxGTK:${WX_GTK_VER}[X]"
+DEPEND="${RDEPEND}
+	media-gfx/pngcrush"
+
+pkg_setup() {
+	python-single-r1_pkg_setup
+}
+
+src_prepare() {
+	rm -rf minfx bmrblib extern/numdifftools || die
+	tc-export CC
+}
+
+src_compile() {
+	escons
+}
+
+src_test() {
+	VIRTUALX_COMMAND="${EPYTHON} ./${PN}.py -x --traceback"
+	virtualmake
+}
+
+src_install() {
+	dodoc README docs/{CHANGES,COMMITTERS,JOBS,relax.pdf}
+
+	python_moduleinto ${PN}
+	python_domodule *
+
+	rm ${PN} README || die
+
+	make_wrapper ${PN}-nmr "${EPYTHON} $(python_get_sitedir)/${PN}/${PN}.py $@"
+}
diff --git a/sci-chemistry/relax/relax-3.3.5.ebuild b/sci-chemistry/relax/relax-3.3.5.ebuild
new file mode 100644
index 000000000000..154bc9af2c0b
--- /dev/null
+++ b/sci-chemistry/relax/relax-3.3.5.ebuild
@@ -0,0 +1,69 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+WX_GTK_VER="2.9"
+
+inherit eutils multiprocessing python-single-r1 scons-utils toolchain-funcs wxwidgets virtualx
+
+DESCRIPTION="Molecular dynamics by NMR data analysis"
+HOMEPAGE="http://www.nmr-relax.com/"
+SRC_URI="http://download.gna.org/relax/${P}.src.tar.bz2"
+
+SLOT="0"
+LICENSE="GPL-2"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE=""
+
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+RDEPEND="
+	${PYTHON_DEPS}
+	dev-python/Numdifftools[${PYTHON_USEDEP}]
+	dev-python/matplotlib[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	dev-python/wxpython:${WX_GTK_VER}[${PYTHON_USEDEP}]
+	sci-chemistry/molmol
+	sci-chemistry/pymol[${PYTHON_USEDEP}]
+	sci-chemistry/vmd
+	>=sci-libs/bmrblib-1.0.3[${PYTHON_USEDEP}]
+	>=sci-libs/minfx-1.0.11[${PYTHON_USEDEP}]
+	sci-libs/scipy[${PYTHON_USEDEP}]
+	sci-visualization/grace
+	sci-visualization/opendx
+	x11-libs/wxGTK:${WX_GTK_VER}[X]"
+DEPEND="${RDEPEND}
+	media-gfx/pngcrush"
+
+pkg_setup() {
+	python-single-r1_pkg_setup
+}
+
+src_prepare() {
+	rm -rf minfx bmrblib extern/numdifftools || die
+	tc-export CC
+}
+
+src_compile() {
+	escons
+}
+
+src_test() {
+	VIRTUALX_COMMAND="${EPYTHON} ./${PN}.py -x --traceback"
+	virtualmake
+}
+
+src_install() {
+	dodoc README docs/{CHANGES,COMMITTERS,JOBS,relax.pdf}
+
+	python_moduleinto ${PN}
+	python_domodule *
+
+	rm ${PN} README || die
+
+	make_wrapper ${PN}-nmr "${EPYTHON} $(python_get_sitedir)/${PN}/${PN}.py $@"
+}
diff --git a/sci-chemistry/relax/relax-3.3.6.ebuild b/sci-chemistry/relax/relax-3.3.6.ebuild
new file mode 100644
index 000000000000..b8a571cbdc2a
--- /dev/null
+++ b/sci-chemistry/relax/relax-3.3.6.ebuild
@@ -0,0 +1,73 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+WX_GTK_VER="2.9"
+
+inherit eutils multiprocessing python-single-r1 scons-utils toolchain-funcs wxwidgets virtualx
+
+DESCRIPTION="Molecular dynamics by NMR data analysis"
+HOMEPAGE="http://www.nmr-relax.com/"
+SRC_URI="http://download.gna.org/relax/${P}.src.tar.bz2"
+
+SLOT="0"
+LICENSE="GPL-2"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="test"
+
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+RDEPEND="
+	${PYTHON_DEPS}
+	dev-python/Numdifftools[${PYTHON_USEDEP}]
+	dev-python/matplotlib[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	dev-python/wxpython:${WX_GTK_VER}[${PYTHON_USEDEP}]
+	sci-chemistry/molmol
+	sci-chemistry/pymol[${PYTHON_USEDEP}]
+	sci-chemistry/vmd
+	>=sci-libs/bmrblib-1.0.3[${PYTHON_USEDEP}]
+	>=sci-libs/minfx-1.0.11[${PYTHON_USEDEP}]
+	sci-libs/scipy[${PYTHON_USEDEP}]
+	sci-visualization/grace
+	sci-visualization/opendx
+	x11-libs/wxGTK:${WX_GTK_VER}[X]"
+DEPEND="${RDEPEND}
+	media-gfx/pngcrush
+	test? (
+		${RDEPEND}
+	)
+	"
+
+pkg_setup() {
+	python-single-r1_pkg_setup
+}
+
+src_prepare() {
+	rm -rf minfx bmrblib extern/numdifftools || die
+	tc-export CC
+}
+
+src_compile() {
+	escons
+}
+
+src_test() {
+	VIRTUALX_COMMAND="${EPYTHON} ./${PN}.py -x --traceback"
+	virtualmake
+}
+
+src_install() {
+	dodoc README docs/{CHANGES,COMMITTERS,JOBS,relax.pdf}
+
+	python_moduleinto ${PN}
+	python_domodule *
+
+	rm ${PN} README || die
+
+	make_wrapper ${PN}-nmr "${EPYTHON} $(python_get_sitedir)/${PN}/${PN}.py $@"
+}
diff --git a/sci-chemistry/relax/relax-3.3.7.ebuild b/sci-chemistry/relax/relax-3.3.7.ebuild
new file mode 100644
index 000000000000..b8a571cbdc2a
--- /dev/null
+++ b/sci-chemistry/relax/relax-3.3.7.ebuild
@@ -0,0 +1,73 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+WX_GTK_VER="2.9"
+
+inherit eutils multiprocessing python-single-r1 scons-utils toolchain-funcs wxwidgets virtualx
+
+DESCRIPTION="Molecular dynamics by NMR data analysis"
+HOMEPAGE="http://www.nmr-relax.com/"
+SRC_URI="http://download.gna.org/relax/${P}.src.tar.bz2"
+
+SLOT="0"
+LICENSE="GPL-2"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="test"
+
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+RDEPEND="
+	${PYTHON_DEPS}
+	dev-python/Numdifftools[${PYTHON_USEDEP}]
+	dev-python/matplotlib[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	dev-python/wxpython:${WX_GTK_VER}[${PYTHON_USEDEP}]
+	sci-chemistry/molmol
+	sci-chemistry/pymol[${PYTHON_USEDEP}]
+	sci-chemistry/vmd
+	>=sci-libs/bmrblib-1.0.3[${PYTHON_USEDEP}]
+	>=sci-libs/minfx-1.0.11[${PYTHON_USEDEP}]
+	sci-libs/scipy[${PYTHON_USEDEP}]
+	sci-visualization/grace
+	sci-visualization/opendx
+	x11-libs/wxGTK:${WX_GTK_VER}[X]"
+DEPEND="${RDEPEND}
+	media-gfx/pngcrush
+	test? (
+		${RDEPEND}
+	)
+	"
+
+pkg_setup() {
+	python-single-r1_pkg_setup
+}
+
+src_prepare() {
+	rm -rf minfx bmrblib extern/numdifftools || die
+	tc-export CC
+}
+
+src_compile() {
+	escons
+}
+
+src_test() {
+	VIRTUALX_COMMAND="${EPYTHON} ./${PN}.py -x --traceback"
+	virtualmake
+}
+
+src_install() {
+	dodoc README docs/{CHANGES,COMMITTERS,JOBS,relax.pdf}
+
+	python_moduleinto ${PN}
+	python_domodule *
+
+	rm ${PN} README || die
+
+	make_wrapper ${PN}-nmr "${EPYTHON} $(python_get_sitedir)/${PN}/${PN}.py $@"
+}
diff --git a/sci-chemistry/relax/relax-3.3.8.ebuild b/sci-chemistry/relax/relax-3.3.8.ebuild
new file mode 100644
index 000000000000..5ffdf922756d
--- /dev/null
+++ b/sci-chemistry/relax/relax-3.3.8.ebuild
@@ -0,0 +1,71 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+WX_GTK_VER="2.9"
+
+inherit eutils multiprocessing python-single-r1 scons-utils toolchain-funcs wxwidgets virtualx
+
+DESCRIPTION="Molecular dynamics by NMR data analysis"
+HOMEPAGE="http://www.nmr-relax.com/"
+SRC_URI="http://download.gna.org/relax/${P}.src.tar.bz2"
+
+SLOT="0"
+LICENSE="GPL-2"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="test"
+
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+RDEPEND="
+	${PYTHON_DEPS}
+	dev-python/Numdifftools[${PYTHON_USEDEP}]
+	dev-python/matplotlib[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	dev-python/wxpython:${WX_GTK_VER}[${PYTHON_USEDEP}]
+	sci-chemistry/molmol
+	sci-chemistry/pymol[${PYTHON_USEDEP}]
+	sci-chemistry/vmd
+	>=sci-libs/bmrblib-1.0.3[${PYTHON_USEDEP}]
+	>=sci-libs/minfx-1.0.11[${PYTHON_USEDEP}]
+	sci-libs/scipy[${PYTHON_USEDEP}]
+	sci-visualization/grace
+	sci-visualization/opendx
+	x11-libs/wxGTK:${WX_GTK_VER}[X]"
+DEPEND="${RDEPEND}
+	media-gfx/pngcrush
+	test? ( ${RDEPEND} )
+	"
+
+pkg_setup() {
+	python-single-r1_pkg_setup
+}
+
+src_prepare() {
+	rm -rf minfx bmrblib extern/numdifftools || die
+	tc-export CC
+}
+
+src_compile() {
+	escons
+}
+
+src_test() {
+	VIRTUALX_COMMAND="${EPYTHON} ./${PN}.py -x --traceback"
+	virtualmake
+}
+
+src_install() {
+	dodoc README docs/{CHANGES,COMMITTERS,JOBS,relax.pdf}
+
+	python_moduleinto ${PN}
+	python_domodule *
+
+	rm ${PN} README || die
+
+	make_wrapper ${PN}-nmr "${EPYTHON} $(python_get_sitedir)/${PN}/${PN}.py $@"
+}