16 files changed, 129 insertions, 422 deletions
diff --git a/dev-util/ccache/ChangeLog b/dev-util/ccache/ChangeLog
deleted file mode 100644
index d2957810e..000000000
--- a/dev-util/ccache/ChangeLog
+++ /dev/null
@@ -1,31 +0,0 @@
-# ChangeLog for dev-util/ccache
-# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: $
-
-*ccache-3.1.9-r2 (22 Aug 2013)
-
-  22 Aug 2013; Andrew Savchenko <bircoph@gmail.com> files/ccache-config-2,
-  -ccache-3.1.9-r1.ebuild, +ccache-3.1.9-r2.ebuild:
-  Remove mpi support: mpi compilers are just wrappers around system
-  compilers --- if the latter are supported by ccache mpi compilation
-  will be supported too.
-
-  07 Jul 2013; Christoph Junghans <ottxor@gentoo.org>
-  +files/ccache-3.1.9-test-gcc-4.8.patch, ccache-3.1.9-r1.ebuild,
-  files/ccache-config-2:
-  added mpi use, sync with gx86
-
-*ccache-3.1.9-r1 (18 Feb 2013)
-
-  18 Feb 2013; Christoph Junghans <ottxor@gentoo.org> +ccache-3.1.9-r1.ebuild,
-  -ccache-3.1.8-r1.ebuild:
-  version bump
-
-  27 Dec 2012; Christoph Junghans <ottxor@gentoo.org> files/ccache-config-2:
-  dev-util/ccache: fixed clang links
-
-*ccache-3.1.8-r1 (27 Dec 2012)
-
-  27 Dec 2012; Christoph Junghans <ottxor@gentoo.org> +ccache-3.1.8-r1.ebuild,
-  +files/ccache-3.1.7-no-perl.patch, +files/ccache-config-2, +metadata.xml:
-  added for testing
diff --git a/dev-util/ccache/Manifest b/dev-util/ccache/Manifest
deleted file mode 100644
index 690161a13..000000000
--- a/dev-util/ccache/Manifest
+++ /dev/null
@@ -1 +0,0 @@
-DIST ccache-3.1.9.tar.xz 238988 SHA256 4981fdf3ad851de400d94083a0d03f115ce9ce8062c3fd7a291630294b0006c4 SHA512 b73f5816bb87c2d94200473510ea42a304c5a2c5e5f14720c513574ce3eb983423c5849a786a89df70cbb09852d9ec2761ad37a820a767d7350e1a3243148ac0 WHIRLPOOL 61ef671aae68516ecfaee88a50b8f442968a7ab24595fd7dfc652ab27de80834d90510c62cfcc75dd88e1f3832989633f518ebe5984149c16d5ab9848cff05fc
diff --git a/dev-util/ccache/ccache-3.1.9-r2.ebuild b/dev-util/ccache/ccache-3.1.9-r2.ebuild
deleted file mode 100644
index 5bf0d9ee7..000000000
--- a/dev-util/ccache/ccache-3.1.9-r2.ebuild
+++ /dev/null
@@ -1,64 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/dev-util/ccache/ccache-3.1.8.ebuild,v 1.9 2012/12/17 17:51:11 ago Exp $
-
-EAPI=5
-
-inherit multilib eutils readme.gentoo
-
-DESCRIPTION="fast compiler cache"
-HOMEPAGE="http://ccache.samba.org/"
-SRC_URI="http://samba.org/ftp/ccache/${P}.tar.xz"
-
-LICENSE="GPL-3"
-SLOT="0"
-KEYWORDS="~alpha ~amd64 ~arm ~hppa ~ia64 ~m68k ~mips ~ppc ~ppc64 ~s390 ~sh ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~ppc-macos ~x64-macos ~x86-macos ~m68k-mint ~sparc-solaris ~x64-solaris ~x86-solaris"
-IUSE="clang icc"
-
-RDEPEND="sys-libs/zlib
-	clang? ( sys-devel/clang )
-	icc? ( dev-lang/icc )"
-DEPEND="${RDEPEND}
-	app-arch/xz-utils"
-
-src_prepare() {
-	# make sure we always use system zlib
-	rm -rf zlib
-	epatch "${FILESDIR}"/${PN}-3.1.7-no-perl.patch #421609
-	epatch "${FILESDIR}"/${P}-test-gcc-4.8.patch #461966
-	sed \
-		-e "/^LIBDIR=/s:lib:$(get_libdir):" \
-		-e "/^EPREFIX=/s:'':'${EPREFIX}':" \
-		"${FILESDIR}"/ccache-config-2 > ccache-config || die
-
-	DOC_CONTENTS="To use ccache with **non-Portage** C compiling, add
-		${EROOT}usr/$(get_libdir)/ccache/bin to the beginning of your path, before ${EROOT}usr/bin.
-		Portage 2.0.46-r11+ will automatically take advantage of ccache with
-		no additional steps.  If this is your first install of ccache, type
-		something like this to set a maximum cache size of 2GB:\\n# ccache -M 2G\\n
-		If you are upgrading from an older version than 3.x you should clear all of your caches like so:\\n
-		# CCACHE_DIR='${CCACHE_DIR:-${PORTAGE_TMPDIR}/ccache}' ccache -C"
-}
-
-src_install() {
-	default
-	dodoc AUTHORS.txt MANUAL.txt NEWS.txt README.txt
-
-	dobin ccache-config
-
-	readme.gentoo_create_doc
-}
-
-pkg_postinst() {
-	"${EROOT}"/usr/bin/ccache-config --install-links
-	"${EROOT}"/usr/bin/ccache-config --install-links ${CHOST}
-	use icc && "${EROOT}"/usr/bin/ccache-config --install-links icc
-	use clang && "${EROOT}"/usr/bin/ccache-config --install-links clang
-
-	# nuke broken symlinks from previous versions that shouldn't exist
-	rm -f "${EROOT}/usr/$(get_libdir)/ccache/bin/${CHOST}-cc"
-	[[ -d "${EROOT}/usr/$(get_libdir)/ccache.backup" ]] && \
-		rm -rf "${EROOT}/usr/$(get_libdir)/ccache.backup"
-
-	readme.gentoo_pkg_postinst
-}
diff --git a/dev-util/ccache/files/ccache-3.1.7-no-perl.patch b/dev-util/ccache/files/ccache-3.1.7-no-perl.patch
deleted file mode 100644
index 5abd15e1a..000000000
--- a/dev-util/ccache/files/ccache-3.1.7-no-perl.patch
+++ /dev/null
@@ -1,15 +0,0 @@
-avoid weak perl usage in tests
-
-https://bugs.gentoo.org/421609
-
---- a/test.sh
-+++ b/test.sh
-@@ -1466,7 +1466,7 @@
-     mkdir -p $dir
-     i=0
-     while [ $i -lt 10 ]; do
--        perl -e 'print "A" x 4017' >$dir/result$i-4017.o
-+        printf '%4017s' '' | tr ' ' 'A' >$dir/result$i-4017.o
-         touch $dir/result$i-4017.stderr
-         touch $dir/result$i-4017.d
-         if [ $i -gt 5 ]; then
diff --git a/dev-util/ccache/files/ccache-3.1.9-test-gcc-4.8.patch b/dev-util/ccache/files/ccache-3.1.9-test-gcc-4.8.patch
deleted file mode 100644
index 2a28baf02..000000000
--- a/dev-util/ccache/files/ccache-3.1.9-test-gcc-4.8.patch
+++ /dev/null
@@ -1,156 +0,0 @@
-https://bugs.gentoo.org/461966
-
-fix from upstream
-
-From b5d63f81c1a83fd4c50b769a96a04f581b7db70c Mon Sep 17 00:00:00 2001
-From: Joel Rosdahl <joel@rosdahl.net>
-Date: Wed, 20 Mar 2013 22:18:16 +0100
-Subject: [PATCH] Fix test suite failure on GCC 4.8
-
-GCC 4.8 includes /usr/include/stdc-predef.h implicitly, and this shows up
-in generated .d files.
----
- test.sh | 35 +++++++++++++++++++----------------
- 1 file changed, 19 insertions(+), 16 deletions(-)
-
-diff --git a/test.sh b/test.sh
-index 3ed9069..3e38387 100755
---- a/test.sh
-+++ b/test.sh
-@@ -3,7 +3,7 @@
- # A simple test suite for ccache.
- #
- # Copyright (C) 2002-2007 Andrew Tridgell
--# Copyright (C) 2009-2012 Joel Rosdahl
-+# Copyright (C) 2009-2013 Joel Rosdahl
- #
- # This program is free software; you can redistribute it and/or modify it under
- # the terms of the GNU General Public License as published by the Free Software
-@@ -562,6 +562,9 @@ int test3;
- EOF
-     backdate test1.h test2.h test3.h
- 
-+    $COMPILER -c -Wp,-MD,expected.d test.c
-+    expected_d_content=`cat expected.d`
-+
-     ##################################################################
-     # First compilation is a miss.
-     testname="first compilation"
-@@ -677,7 +680,7 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     rm -f other.d
- 
-@@ -685,7 +688,7 @@ EOF
-     checkstat 'cache hit (direct)' 1
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     rm -f other.d
- 
-@@ -760,7 +763,7 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile test.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile test.d "$expected_d_content"
- 
-     rm -f test.d
- 
-@@ -768,7 +771,7 @@ EOF
-     checkstat 'cache hit (direct)' 1
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile test.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile test.d "$expected_d_content"
- 
-     ##################################################################
-     # Check the scenario of running a ccache with direct mode on a cache
-@@ -780,7 +783,7 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile test.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile test.d "$expected_d_content"
- 
-     rm -f test.d
- 
-@@ -788,7 +791,7 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 1
-     checkstat 'cache miss' 1
--    checkfile test.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile test.d "$expected_d_content"
- 
-     rm -f test.d
- 
-@@ -796,7 +799,7 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 2
-     checkstat 'cache miss' 1
--    checkfile test.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile test.d "$expected_d_content"
- 
-     rm -f test.d
- 
-@@ -804,7 +807,7 @@ EOF
-     checkstat 'cache hit (direct)' 1
-     checkstat 'cache hit (preprocessed)' 2
-     checkstat 'cache miss' 1
--    checkfile test.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile test.d "$expected_d_content"
- 
-     ##################################################################
-     # Check that -MF works.
-@@ -815,7 +818,7 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     rm -f other.d
- 
-@@ -823,7 +826,7 @@ EOF
-     checkstat 'cache hit (direct)' 1
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     ##################################################################
-     # Check that a missing .d file in the cache is handled correctly.
-@@ -835,13 +838,13 @@ EOF
-     checkstat 'cache hit (direct)' 0
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     $CCACHE $COMPILER -c -MD test.c
-     checkstat 'cache hit (direct)' 1
-     checkstat 'cache hit (preprocessed)' 0
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     find $CCACHE_DIR -name '*.d' -exec rm -f '{}' \;
- 
-@@ -849,7 +852,7 @@ EOF
-     checkstat 'cache hit (direct)' 1
-     checkstat 'cache hit (preprocessed)' 1
-     checkstat 'cache miss' 1
--    checkfile other.d "test.o: test.c test1.h test3.h test2.h"
-+    checkfile other.d "$expected_d_content"
- 
-     ##################################################################
-     # Check that stderr from both the preprocessor and the compiler is emitted
--- 
-1.8.1.2
-
diff --git a/dev-util/ccache/files/ccache-config-2 b/dev-util/ccache/files/ccache-config-2
deleted file mode 100644
index d0345d3be..000000000
--- a/dev-util/ccache/files/ccache-config-2
+++ /dev/null
@@ -1,98 +0,0 @@
-#!/bin/sh
-#
-# ccache-config - helper script for ccache and its ebuild
-#
-# Copyright 1999-2013 Superlucidity Services, LLC
-# Copyright 2013-2013 Gentoo Foundation
-# This program licensed under the GNU GPL version 2.
-#
-# This script developed by Zachary T Welch at Superlucidity Services, LLC
-#  it was cloned from the distcc-config script
-#
-# Additional features to come; this provides a starting point
-
-EPREFIX=''
-
-. "${EPREFIX}"/etc/init.d/functions.sh 2>/dev/null || {
-	ebegin() { echo " * $* ..."; }
-	eend() {
-		local r=${1:-$?}
-		[ ${r} -eq 0 ] && echo " [ OK ]" || echo " [ !! ]"
-		return $r
-	}
-}
-
-LIBDIR="lib"
-
-# this should be getopt'd someday (override with CC_QUIET=1)
-CC_VERBOSE=1
-unset _CC_QUIET
-c_quiet() {
-	[ -n "${CC_QUIET:-${_CC_QUIET}}" ] || [ -z "${CC_VERBOSE}" ]
-}
-
-c_ebegin() { c_quiet || ebegin "$@" ; }
-c_eend()   { c_quiet || eend "$@" ; }
-
-###
-# the following functions manage the ccache symlinks
-#  they allow the user or other scripts (namely gcc-config) to
-#  automatically update ccache's links when upgrading toolchains
-#
-cc_path() {
-	echo ${ROOT%/}${EPREFIX}/usr/${LIBDIR}/ccache/bin/$1
-}
-cc_remove_link() {
-	local t=$(cc_path "$1")
-	if [ -L ${t} ]; then
-		c_ebegin "Removing ${t}"
-		rm -f "${t}"
-		c_eend
-	fi
-}
-cc_install_link() {
-	# Search the PATH for the specified compiler
-	#  then create shadow link in /usr/lib/ccache/bin to ccache
-
-	if [ -n "$(type -p ${1})" ]; then
-		# first be sure any old link is removed
-		_CC_QUIET=1
-		cc_remove_link "${1}"
-		unset _CC_QUIET
-
-		# then create the new link
-		local t=$(cc_path "$1")
-		c_ebegin "Creating ccache shadow link ${t}"
-		mkdir -p -m 0755 "${t%/*}" && ln -s "${EPREFIX}"/usr/bin/ccache "${t}"
-		c_eend
-	fi
-}
-cc_links() {
-	local a compilers="gcc cc c++ g++" 
-	[ "${2}" = icc ] && compilers="icc icpc" && set -- "$1"
-	[ "${2}" = clang ] && compilers="clang clang++" && set -- "$1"
-	for a in ${compilers} ; do
-		if [ -n "${2}" ] ; then
-			# gcc-config doesnt install ${CHOST}-cc, so until
-			# it does, don't install a ccache symlink for it
-			[ "${a}" = "cc" ] && continue
-			a="${2}-${a}"
-		fi
-		eval "cc_${1}_link" "${a}"
-	done
-}
-
-###
-# main routine
-
-case "${1}" in
-	--install-links )
-		cc_links install "${2}"
-		;;
-	--remove-links )
-		cc_links remove "${2}"
-		;;
-	* )
-		echo "usage: ${0} {--install-links|--remove-links} [ CHOST|clang|icc ]"
-		;;
-esac
diff --git a/dev-util/ccache/metadata.xml b/dev-util/ccache/metadata.xml
deleted file mode 100644
index f4a27c768..000000000
--- a/dev-util/ccache/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>ottxor@gentoo.org</email>
-	</maintainer>
-	<longdescription lang="en">
-		ccache acts as a caching pre-processor to C/C++ compilers, improving
-		compilation time when recompiling previously compiled source.
-	</longdescription>
-	<use>
-		<flag name='clang'>create links for <pkg>sys-devel/clang</pkg></flag>
-		<flag name='icc'>create links for <pkg>dev-lang/icc</pkg></flag>
-	</use>
-</pkgmetadata>
diff --git a/licenses/mgltools b/licenses/mgltools
deleted file mode 100644
index e252878ab..000000000
--- a/licenses/mgltools
+++ /dev/null
@@ -1,42 +0,0 @@
-1. Grant Of Limited License; Software Use Restrictions. The programs
-     received by you will be used only for NON COMMERCIAL purposes.
-     This license is issued to you as an individual.
-
-     For COMMERCIAL use done with the software please contact Michel F. 
-     Sanner for details about commercial usage license agreements.
-     
-     For any question regarding license agreements, please contact
-             Michel Sanner:
-	     TSRI, Molecular Biology Department, TCP 26,
-	     10550 North Torrey Pines Road, La Jolla, CA 92037
-	     sanner@scripps.edu
-	     tel (858) 784-7742
-	     fax (858) 784-2341
-
-  2. COMMERCIAL USAGE is defined as revenues generating activities. These
-     include using this software for consulting activities and selling
-     applications built on top of, or using this software. Scientific 
-     research in an academic environment and teaching are considered 
-     NON COMMERCIAL.
-
-  3.  Copying Restrictions. You will not sell or otherwise distribute commercially 
-     these programs or derivatives to any other party, whether with or without 
-     consideration.
-
-  4. Ownership of Software. You will not obtain, and will not attempt to 
-     obtain copyright coverage thereon without the express purpose written 
-     consent of The Scripps Research Institute and Dr. Sanner.
-
-  5. IN NO EVENT SHALL THE AUTHORS OR DISTRIBUTORS BE LIABLE TO ANY PARTY
-     FOR DIRECT, INDIRECT, SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES
-     ARISING OUT OF THE USE OF THIS SOFTWARE, ITS DOCUMENTATION, OR ANY
-     DERIVATIVES THEREOF, EVEN IF THE AUTHORS HAVE BEEN ADVISED OF THE
-     POSSIBILITY OF SUCH DAMAGE.
-
-  6. THE AUTHORS AND DISTRIBUTORS SPECIFICALLY DISCLAIM ANY WARRANTIES,
-     INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY,
-     FITNESS FOR A PARTICULAR PURPOSE, AND NON-INFRINGEMENT.  THIS SOFTWARE
-     IS PROVIDED ON AN "AS IS" BASIS, AND THE AUTHORS AND DISTRIBUTORS HAVE
-     NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS, OR
-     MODIFICATIONS.
-
diff --git a/sci-chemistry/shiftx2/ChangeLog b/sci-chemistry/shiftx2/ChangeLog
index e43499bd0..df92dabab 100644
--- a/sci-chemistry/shiftx2/ChangeLog
+++ b/sci-chemistry/shiftx2/ChangeLog
@@ -2,6 +2,9 @@
 # Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+  23 Oct 2013; Justin Lecher <jlec@gentoo.org> shiftx2-1.07_p20120106.ebuild:
+  Add missing PYTHON_DEPS
+
   15 Oct 2013; Justin Lecher <jlec@gentoo.org> shiftx2-1.07_p20120106.ebuild:
   Add missing python-r1 stuff
 
diff --git a/sci-chemistry/shiftx2/shiftx2-1.07_p20120106.ebuild b/sci-chemistry/shiftx2/shiftx2-1.07_p20120106.ebuild
index 405e75e15..9d85635dc 100644
--- a/sci-chemistry/shiftx2/shiftx2-1.07_p20120106.ebuild
+++ b/sci-chemistry/shiftx2/shiftx2-1.07_p20120106.ebuild
@@ -26,6 +26,7 @@ REQUIRED_USE="${PYTHON_REQUIRED_USE}"
 CDEPEND="dev-util/weka ${PYTHON_DEPS}"
 
 RDEPEND="${CDEPEND}
+	${PYTHON_DEPS}
 	dev-lang/R
 	sci-biology/ncbi-tools
 	sci-chemistry/reduce
diff --git a/sci-misc/simx/ChangeLog b/sci-misc/simx/ChangeLog
new file mode 100644
index 000000000..a2b652ec2
--- /dev/null
+++ b/sci-misc/simx/ChangeLog
@@ -0,0 +1,18 @@
+# ChangeLog for sci-misc/simx
+# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*simx-0.1 (22 Oct 2013)
+
+  22 Oct 2013; Christoph Junghans <ottxor@gentoo.org>
+  +files/simx-0.1-python-check.patch, +simx-0.1.ebuild, simx-9999.ebuild:
+  added 0.1 version
+
+  22 Oct 2013; Christoph Junghans <ottxor@gentoo.org> simx-9999.ebuild:
+  fixed deps
+
+*simx-9999 (22 Oct 2013)
+
+  22 Oct 2013; Christoph Junghans <ottxor@gentoo.org> +metadata.xml,
+  +simx-9999.ebuild:
+  initial commit
diff --git a/sci-misc/simx/Manifest b/sci-misc/simx/Manifest
new file mode 100644
index 000000000..cdce293c5
--- /dev/null
+++ b/sci-misc/simx/Manifest
@@ -0,0 +1 @@
+DIST simx-0.1.tar.gz 586678 SHA256 ea9d9d9dbeb96d94391b77d4ca3d237524f5f6217cf38ffa1300c6becbe7fe91 SHA512 59ee36de32d6098a1fb6d91f2bacc3bed62abbf37fb2dd7437aeddd2ae9766f10ae49c9e3aa1f32556c5c667fefb23c7165c61fd113773a6022d9b2013a3eaaa WHIRLPOOL 25c8e47c656775525567b0e0b8d19455d662b97d508efe6ae68c5b5b16c101890be3489cab34dc8e87563bdefcb83dd323b6bf86cbf47f5883b888e17d5a131b
diff --git a/sci-misc/simx/files/simx-0.1-python-check.patch b/sci-misc/simx/files/simx-0.1-python-check.patch
new file mode 100644
index 000000000..6e40ae0fa
--- /dev/null
+++ b/sci-misc/simx/files/simx-0.1-python-check.patch
@@ -0,0 +1,27 @@
+From b8a606460fddc050d0df7aa0e8dfedd3dedb90a8 Mon Sep 17 00:00:00 2001
+From: Christoph Junghans <junghans@lanl.gov>
+Date: Mon, 21 Oct 2013 19:02:17 -0600
+Subject: [PATCH] fixed cmake python checks
+
+---
+ CMakeLists.txt | 4 ++--
+ 1 file changed, 2 insertions(+), 2 deletions(-)
+
+diff --git a/CMakeLists.txt b/CMakeLists.txt
+index 5e17b01..6e92faa 100644
+--- a/CMakeLists.txt
++++ b/CMakeLists.txt
+@@ -51,8 +51,8 @@ link_directories(${Boost_LIBRARY_DIRS})
+ 
+ 
+ # for python
+-find_package(PythonInterp REQUIRED VERSION 2)
+-find_package(PythonLibs REQUIRED VERSION 2)
++find_package(PythonInterp 2 REQUIRED)
++find_package(PythonLibs 2 REQUIRED)
+ include_directories(${PYTHON_INCLUDE_DIRS} ${PYTHON_INCLUDE_DIR} ${PYTHON_INCLUDE_PATH})
+ link_directories(${PYTHON_LIBRARY_DIRS})
+ 
+-- 
+1.8.1.5
+
diff --git a/sci-misc/simx/metadata.xml b/sci-misc/simx/metadata.xml
new file mode 100644
index 000000000..d369d068f
--- /dev/null
+++ b/sci-misc/simx/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</herd>
+</pkgmetadata>
diff --git a/sci-misc/simx/simx-0.1.ebuild b/sci-misc/simx/simx-0.1.ebuild
new file mode 100644
index 000000000..6e7586af2
--- /dev/null
+++ b/sci-misc/simx/simx-0.1.ebuild
@@ -0,0 +1,38 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+PYTHON_COMPAT=( python{2_6,2_7} )
+
+inherit cmake-utils distutils-r1
+
+if [ "${PV}" = "9999" ]; then
+	EGIT_REPO_URI="git://github.com/sim-x/simx.git http://github.com/sim-x/simx.git"
+	inherit git-2
+	KEYWORDS=""
+else
+	SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
+	KEYWORDS="~amd64"
+fi
+
+DESCRIPTION="a library for developing parallel, discrete-event simulations in Python"
+HOMEPAGE="https://github.com/sim-x"
+
+SLOT="0"
+LICENSE="LGPL-2.1"
+IUSE=""
+
+RDEPEND=" virtual/mpi
+	dev-libs/boost[python]
+	dev-python/greenlet"
+DEPEND="${RDEPEND}
+	dev-util/cmake"
+
+src_prepare() {
+	# don't do egg install
+	sed -i 's/self.do_egg_install()/_install.install.run(self)/' setup.py || die
+
+	epatch "${FILESDIR}/${P}-python-check.patch"
+}
diff --git a/sci-misc/simx/simx-9999.ebuild b/sci-misc/simx/simx-9999.ebuild
new file mode 100644
index 000000000..ad6411a83
--- /dev/null
+++ b/sci-misc/simx/simx-9999.ebuild
@@ -0,0 +1,36 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+PYTHON_COMPAT=( python{2_6,2_7} )
+
+inherit cmake-utils distutils-r1
+
+if [ "${PV}" = "9999" ]; then
+	EGIT_REPO_URI="git://github.com/sim-x/simx.git http://github.com/sim-x/simx.git"
+	inherit git-2
+	KEYWORDS=""
+else
+	SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
+	KEYWORDS="~amd64"
+fi
+
+DESCRIPTION="a library for developing parallel, discrete-event simulations in Python"
+HOMEPAGE="https://github.com/sim-x"
+
+SLOT="0"
+LICENSE="LGPL-2.1"
+IUSE=""
+
+RDEPEND=" virtual/mpi
+	dev-libs/boost[python]
+	dev-python/greenlet"
+DEPEND="${RDEPEND}
+	dev-util/cmake"
+
+src_prepare() {
+	# don't do egg install
+	sed -i 's/self.do_egg_install()/_install.install.run(self)/' setup.py || die
+}