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, 247 insertions, 0 deletions

diff --git a/sci-chemistry/mead/Manifest b/sci-chemistry/mead/Manifest
new file mode 100644
index 00000000000..b86a2a21886
--- /dev/null
+++ b/sci-chemistry/mead/Manifest
@@ -0,0 +1 @@
+DIST mead-2.2.7.tar.gz 806319 RMD160 9adf9743e44061779f9ac3b9064abb9164ad3e58 SHA1 6d3bbda29a5f8fdf26600e036ca8debacc37b90e SHA256 fd2a4b357bbd847ac9b255563034d7e71bf16cf59efa371d966b6fbbe9b4cd7c
diff --git a/sci-chemistry/mead/files/mead-2.2.7-gcc43.patch b/sci-chemistry/mead/files/mead-2.2.7-gcc43.patch
new file mode 100644
index 00000000000..673f25890e7
--- /dev/null
+++ b/sci-chemistry/mead/files/mead-2.2.7-gcc43.patch
@@ -0,0 +1,22 @@
+--- mead-2.2.7.orig/libmead/AtomSet.h
++++ mead-2.2.7/libmead/AtomSet.h
+@@ -31,8 +31,7 @@
+ 
+ #include <map>
+ #include <list>
+-#include <string>
+-using std::string;
++#include <string.h>
+ #include "MEAD/Atom.h"
+ #include "MEAD/Coord.h"
+ #include "MEAD/AtomID.h"
+--- mead-2.2.7.orig/libmead/DielCubeRep.h
++++ mead-2.2.7/libmead/DielCubeRep.h
+@@ -31,6 +31,7 @@
+ 
+ #include "MEAD/CubeLatSpec.h"
+ #include "MEAD/globals.h"
++#include <string.h>
+ 
+ class DielCubeRep {
+ public:
diff --git a/sci-chemistry/mead/files/mead-2.2.7-respect-cflags.patch b/sci-chemistry/mead/files/mead-2.2.7-respect-cflags.patch
new file mode 100644
index 00000000000..61c54737778
--- /dev/null
+++ b/sci-chemistry/mead/files/mead-2.2.7-respect-cflags.patch
@@ -0,0 +1,57 @@
+diff -Naur mead-2.2.7-orig/apps/libmso/Makefile.in mead-2.2.7/apps/libmso/Makefile.in
+--- mead-2.2.7-orig/apps/libmso/Makefile.in	2004-12-10 14:33:49.000000000 -0600
++++ mead-2.2.7/apps/libmso/Makefile.in	2009-02-15 16:32:40.000000000 -0600
+@@ -35,8 +35,8 @@
+ INSTALL_PROGRAM	= @INSTALL_PROGRAM@
+ 
+ ALL_CPPFLAGS	= -I. $(LOCALINCS) $(CPPFLAGS) $(REGEX_CPP) $(CXX_DEFS)
+-ALL_CXXFLAGS	= $(CXX_OPTFLAGS) $(CXX_DEBUGFLAGS)
+-ALL_CFLAGS	= $(CC_DEBUGFLAGS) $(CC_OPTFLAGS)
++ALL_CXXFLAGS	= @CXXFLAGS@
++ALL_CFLAGS	= @CFLAGS@
+ 
+ .SUFFIXES:
+ .SUFFIXES: .cc .o
+diff -Naur mead-2.2.7-orig/apps/Makefile.common.in mead-2.2.7/apps/Makefile.common.in
+--- mead-2.2.7-orig/apps/Makefile.common.in	2004-11-19 16:49:56.000000000 -0600
++++ mead-2.2.7/apps/Makefile.common.in	2009-02-15 16:32:22.000000000 -0600
+@@ -36,10 +36,10 @@
+ LIBS		= @LIBS@ -lm
+ 
+ ALL_CPPFLAGS	= -I. $(LOCALINCS) $(CPPFLAGS) $(REGEX_CPP) $(CXX_DEFS)
+-ALL_CXXFLAGS	= $(CXX_OPTFLAGS) $(CXX_DEBUGFLAGS)
+-ALL_CFLAGS	= $(CC_DEBUGFLAGS) $(CC_OPTFLAGS)
++ALL_CXXFLAGS	= @CXXFLAGS@
++ALL_CFLAGS	= @CFLAGS@
+ 
+-CXXLINK = $(CXX) $(ALL_CPPFLAGS) $(CXX_DEBUGFLAGS) $(CXX_OPTFLAGS) \
++CXXLINK = $(CXX) $(ALL_CPPFLAGS) @CXXFLAGS@ \
+            $(LDFLAGS)
+ 
+ .SUFFIXES: .cc .o
+diff -Naur mead-2.2.7-orig/libmead/Makefile.in mead-2.2.7/libmead/Makefile.in
+--- mead-2.2.7-orig/libmead/Makefile.in	2008-03-04 14:18:22.000000000 -0600
++++ mead-2.2.7/libmead/Makefile.in	2009-02-15 16:31:56.000000000 -0600
+@@ -99,8 +99,8 @@
+ INCLUDES	= -I$(top_srcdir)
+ 
+ ALL_CPPFLAGS	= $(INCLUDES) $(CPPFLAGS) $(REGEX_CPP) $(CXX_DEFS)
+-ALL_CXXFLAGS	= $(CXX_OPTFLAGS) $(CXX_DEBUGFLAGS) $(CXX_SHAREDFLAGS)
+-ALL_CFLAGS	= $(CC_DEBUGFLAGS) $(CC_OPTFLAGS)
++ALL_CXXFLAGS	= @CXXFLAGS@
++ALL_CFLAGS	= @CFLAGS@
+ 
+ 
+ 
+diff -Naur mead-2.2.7-orig/swig/Makefile.in mead-2.2.7/swig/Makefile.in
+--- mead-2.2.7-orig/swig/Makefile.in	2007-11-27 15:57:17.000000000 -0600
++++ mead-2.2.7/swig/Makefile.in	2009-02-15 16:34:35.000000000 -0600
+@@ -58,7 +58,7 @@
+ CXX_FLAGS	= @CXX_NOOPTFLAGS@ @CXX_DEBUGFLAGS@ @CXX_SHAREDFLAGS@
+ CXX_DYNLIB_FLAGS = @CXX_DYNLIB_FLAGS@
+ 
+-ALL_CXXFLAGS	= $(CPP_FLAGS) $(CXX_FLAGS)
++ALL_CXXFLAGS	= $(CPP_FLAGS) @CXXFLAGS@ @CXX_SHAREDFLAGS@
+ 
+ MEADINC		= -I$(top_srcdir) -I$(srcdir)
+ MEADLIBS	= -L../libmead -lmead
diff --git a/sci-chemistry/mead/files/mead-2.2.7-respect-flags.patch b/sci-chemistry/mead/files/mead-2.2.7-respect-flags.patch
new file mode 100644
index 00000000000..9ffb238ece8
--- /dev/null
+++ b/sci-chemistry/mead/files/mead-2.2.7-respect-flags.patch
@@ -0,0 +1,74 @@
+diff --git a/apps/Makefile.common.in b/apps/Makefile.common.in
+index 15c61ae..f15d71d 100644
+--- a/apps/Makefile.common.in
++++ b/apps/Makefile.common.in
+@@ -36,10 +36,10 @@ REGEX_CPP	= @REGEX_CPP@
+ LIBS		= @LIBS@ -lm
+ 
+ ALL_CPPFLAGS	= -I. $(LOCALINCS) $(CPPFLAGS) $(REGEX_CPP) $(CXX_DEFS)
+-ALL_CXXFLAGS	= $(CXX_OPTFLAGS) $(CXX_DEBUGFLAGS)
+-ALL_CFLAGS	= $(CC_DEBUGFLAGS) $(CC_OPTFLAGS)
++ALL_CXXFLAGS	= @CXXFLAGS@
++ALL_CFLAGS	= @CFLAGS@
+ 
+-CXXLINK = $(CXX) $(ALL_CPPFLAGS) $(CXX_DEBUGFLAGS) $(CXX_OPTFLAGS) \
++CXXLINK = $(CXX) $(ALL_CPPFLAGS) @CXXFLAGS@ \
+            $(LDFLAGS)
+ 
+ .SUFFIXES: .cc .o
+diff --git a/apps/libmso/Makefile.in b/apps/libmso/Makefile.in
+index 249c25b..9d23665 100644
+--- a/apps/libmso/Makefile.in
++++ b/apps/libmso/Makefile.in
+@@ -35,8 +35,8 @@ INSTALL		= @INSTALL@
+ INSTALL_PROGRAM	= @INSTALL_PROGRAM@
+ 
+ ALL_CPPFLAGS	= -I. $(LOCALINCS) $(CPPFLAGS) $(REGEX_CPP) $(CXX_DEFS)
+-ALL_CXXFLAGS	= $(CXX_OPTFLAGS) $(CXX_DEBUGFLAGS)
+-ALL_CFLAGS	= $(CC_DEBUGFLAGS) $(CC_OPTFLAGS)
++ALL_CXXFLAGS	= @CXXFLAGS@
++ALL_CFLAGS	= @CFLAGS@
+ 
+ .SUFFIXES:
+ .SUFFIXES: .cc .o
+diff --git a/apps/redti/Makefile.in b/apps/redti/Makefile.in
+index c4aa5ca..9561bf3 100644
+--- a/apps/redti/Makefile.in
++++ b/apps/redti/Makefile.in
+@@ -21,7 +21,7 @@ CFLAGS	= @CFLAGS@
+ redti_objs = redti.o rfixpro.o rfixprosee.o pfix.o tc.o
+ 
+ redti : $(redti_objs)
+-	$(CC) $(CFLAGS) $(redti_objs) -lm -o redti
++	$(CC) $(CFLAGS) $(LDFLAGS) $(redti_objs) -lm -o redti
+ 
+ appname = redti
+ include ../Makefile.common
+diff --git a/libmead/Makefile.in b/libmead/Makefile.in
+index 3d4d5f0..8b4a4ac 100644
+--- a/libmead/Makefile.in
++++ b/libmead/Makefile.in
+@@ -99,8 +99,8 @@ PYTHONINC	= @PYTHONINC@
+ INCLUDES	= -I$(top_srcdir)
+ 
+ ALL_CPPFLAGS	= $(INCLUDES) $(CPPFLAGS) $(REGEX_CPP) $(CXX_DEFS)
+-ALL_CXXFLAGS	= $(CXX_OPTFLAGS) $(CXX_DEBUGFLAGS) $(CXX_SHAREDFLAGS)
+-ALL_CFLAGS	= $(CC_DEBUGFLAGS) $(CC_OPTFLAGS)
++ALL_CXXFLAGS	= @CXXFLAGS@
++ALL_CFLAGS	= @CFLAGS@
+ 
+ 
+ 
+diff --git a/swig/Makefile.in b/swig/Makefile.in
+index 81b3b4e..8410307 100644
+--- a/swig/Makefile.in
++++ b/swig/Makefile.in
+@@ -58,7 +58,7 @@ CPP_FLAGS	= -DSWIG @CPPFLAGS@
+ CXX_FLAGS	= @CXX_NOOPTFLAGS@ @CXX_DEBUGFLAGS@ @CXX_SHAREDFLAGS@
+ CXX_DYNLIB_FLAGS = @CXX_DYNLIB_FLAGS@
+ 
+-ALL_CXXFLAGS	= $(CPP_FLAGS) $(CXX_FLAGS)
++ALL_CXXFLAGS	= $(CPP_FLAGS) @CXXFLAGS@ @CXX_SHAREDFLAGS@
+ 
+ MEADINC		= -I$(top_srcdir) -I$(srcdir)
+ MEADLIBS	= -L../libmead -lmead
diff --git a/sci-chemistry/mead/mead-2.2.7-r1.ebuild b/sci-chemistry/mead/mead-2.2.7-r1.ebuild
new file mode 100644
index 00000000000..fd67abb3c34
--- /dev/null
+++ b/sci-chemistry/mead/mead-2.2.7-r1.ebuild
@@ -0,0 +1,44 @@
+# Copyright 1999-2010 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+inherit eutils
+
+DESCRIPTION="Macroscopic Electrostatics with Atomic Detail"
+HOMEPAGE="http://www.teokem.lu.se/~ulf/Methods/mead.html"
+SRC_URI="ftp://ftp.scripps.edu/pub/bashford/${P}.tar.gz"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~x86"
+
+IUSE="python"
+
+RESTRICT="fetch"
+
+pkg_nofetch() {
+	elog "Download ${SRC_URI}"
+	elog "and place it in ${DISTDIR}."
+	elog
+	elog "Use \"anonymous\" as a login, and an email address as a password."
+}
+
+src_unpack() {
+	unpack ${A}
+	cd "${S}"
+
+	epatch "${FILESDIR}"/${P}-respect-flags.patch
+	epatch "${FILESDIR}"/${P}-gcc43.patch
+}
+
+src_compile() {
+	econf \
+		${conf_opts} \
+		|| die "configure failed"
+	emake || die "make failed"
+}
+
+src_install() {
+	# package hates emake DESTDIR="${D}" install
+	einstall || die "install failed"
+}
diff --git a/sci-chemistry/mead/mead-2.2.7.ebuild b/sci-chemistry/mead/mead-2.2.7.ebuild
new file mode 100644
index 00000000000..fd67abb3c34
--- /dev/null
+++ b/sci-chemistry/mead/mead-2.2.7.ebuild
@@ -0,0 +1,44 @@
+# Copyright 1999-2010 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+inherit eutils
+
+DESCRIPTION="Macroscopic Electrostatics with Atomic Detail"
+HOMEPAGE="http://www.teokem.lu.se/~ulf/Methods/mead.html"
+SRC_URI="ftp://ftp.scripps.edu/pub/bashford/${P}.tar.gz"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~x86"
+
+IUSE="python"
+
+RESTRICT="fetch"
+
+pkg_nofetch() {
+	elog "Download ${SRC_URI}"
+	elog "and place it in ${DISTDIR}."
+	elog
+	elog "Use \"anonymous\" as a login, and an email address as a password."
+}
+
+src_unpack() {
+	unpack ${A}
+	cd "${S}"
+
+	epatch "${FILESDIR}"/${P}-respect-flags.patch
+	epatch "${FILESDIR}"/${P}-gcc43.patch
+}
+
+src_compile() {
+	econf \
+		${conf_opts} \
+		|| die "configure failed"
+	emake || die "make failed"
+}
+
+src_install() {
+	# package hates emake DESTDIR="${D}" install
+	einstall || die "install failed"
+}
diff --git a/sci-chemistry/mead/metadata.xml b/sci-chemistry/mead/metadata.xml
new file mode 100644
index 00000000000..9ac9ffdb3a4
--- /dev/null
+++ b/sci-chemistry/mead/metadata.xml
@@ -0,0 +1,5 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+<herd>sci-chemistry</herd>
+</pkgmetadata>