[gentoo-commits] gentoo-x86 commit in sci-biology/allpathslg: allpathslg-52415.ebuild ChangeLog

[Justin Lecher (jlec)]

jlec        15/03/31 10:53:54

  Modified:             ChangeLog
  Added:                allpathslg-52415.ebuild
  Log:
  Version BUmp; move to EAPI=5 and autotools-utils.eclass; thanks Martin Mokrejs for preparing the bump
  
  (Portage version: 2.2.18/cvs/Linux x86_64, signed Manifest commit with key B9D4F231BD1558AB!)

Revision  Changes    Path
1.19                 sci-biology/allpathslg/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/allpathslg/ChangeLog?rev=1.19&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/allpathslg/ChangeLog?rev=1.19&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/allpathslg/ChangeLog?r1=1.18&r2=1.19

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/ChangeLog,v
retrieving revision 1.18
retrieving revision 1.19
diff -u -r1.18 -r1.19
--- ChangeLog	31 Mar 2015 09:35:15 -0000	1.18
+++ ChangeLog	31 Mar 2015 10:53:53 -0000	1.19
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/allpathslg
 # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/ChangeLog,v 1.18 2015/03/31 09:35:15 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/ChangeLog,v 1.19 2015/03/31 10:53:53 jlec Exp $
+
+*allpathslg-52415 (31 Mar 2015)
+
+  31 Mar 2015; Justin Lecher <jlec@g.o> +allpathslg-52415.ebuild:
+  Version BUmp; move to EAPI=5 and autotools-utils.eclass; thanks Martin Mokrejs
+  for preparing the bump
 
   31 Mar 2015; Justin Lecher <jlec@g.o> allpathslg-47093.ebuild:
   prefix love



1.1                  sci-biology/allpathslg/allpathslg-52415.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/allpathslg/allpathslg-52415.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/allpathslg/allpathslg-52415.ebuild?rev=1.1&content-type=text/plain

Index: allpathslg-52415.ebuild
===================================================================
# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/allpathslg-52415.ebuild,v 1.1 2015/03/31 10:53:53 jlec Exp $

EAPI=5

AUTOTOOLS_AUTORECONF=true

inherit autotools-utils flag-o-matic

DESCRIPTION="De novo assembly of whole-genome shotgun microreads"
# see also http://www.broadinstitute.org/software/allpaths-lg/blog/?page_id=12
HOMEPAGE="http://www.broadinstitute.org/science/programs/genome-biology/crd"
SRC_URI="ftp://ftp.broadinstitute.org/pub/crd/ALLPATHS/Release-LG/latest_source_code/${P}.tar.gz"

LICENSE="MIT"
SLOT="0"
KEYWORDS="~amd64"
IUSE="openmp"

DEPEND="
	dev-libs/boost
	!sci-biology/allpaths
	sci-biology/vaal"
RDEPEND=""

pkg_pretend() {
	# as of release 44849, GCC 4.7.0 (or higher) is required
	# seems pre gcc-4.7 users must stay with:
	# ftp://ftp.broadinstitute.org/pub/crd/ALLPATHS/Release-LG/latest_source_code/2013/2013-01/allpathslg-44837.tar.gz
	if [[ ${MERGE_TYPE} != binary ]]; then
		[[ $(tc-getCC) == *gcc* ]] && [[ $(gcc-version) < 4.7 ]] && \
		die "You need to use gcc >4.7"
	fi
}

src_prepare() {
	local i
	sed \
		-e 's/-ggdb//' \
		-e 's:CEHCK:CHECK:g' \
		-i configure.ac || die
	for i in QueryLookupTable ScaffoldAccuracy MakeLookupTable Fastb ShortQueryLookup; do
		sed -e "/bin_PROGRAMS/s: ${i} : :g" -i src/Makefile.am || die
	done
	autotools-utils_src_prepare
}

src_configure() {
	local myeconfargs=(
		$(use_enable openmp)
	)
	autotools-utils_src_configure
}