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# Copyright 1999-2014 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
EAPI=5
DESCRIPTION="Customized version of megablast from TIGR Gene Indices project used by tgicl and gicl utilities"
HOMEPAGE="http://compbio.dfci.harvard.edu/tgi/software/"
SRC_URI="ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/tgicl/mgblast.tar.gz"
LICENSE="Artistic"
SLOT="0"
KEYWORDS="" # upstream binary is provided by sci-biology/tgicl currently
#KEYWORDS="~amd64 ~x86"
IUSE=""
DEPEND="sci-biology/ncbi-tools"
RDEPEND="${DEPEND}"
S="${WORKDIR}"
# mgblast needs old version of ncbi-tools unpacked and compiled during its own compilation
# from newer tools you need to include blfmtutl.h but the next error is no go for me:
# mgblast.c:2205: error: too few arguments to function ‘BXMLBuildOneQueryIteration’
# Quoting from mgblast/README: the present package was built and tested only with the release 20060507
src_prepare(){
# mgblast cannot be compiled against newer ncbi-tools but let's try
mv mgblast/makefile mgblast/Makefile 2>/dev/null || true
sed -i 's#/usr/local/projects/tgi/ncbitoolkit/ncbi#/usr#' mgblast/Makefile || die
sed -i 's#NCBIDIR = /mylocal/src/ncbi#NCBIDIR = /usr#' mgblast/Makefile || die
sed -i 's#NCBI_INCDIR = .*#NCBI_INCDIR = /usr/include/ncbi#' mgblast/Makefile || die
sed -i 's#NCBI_LIBDIR = .*#NCBI_LIBDIR = /usr/lib#' mgblast/Makefile || die # a PATH to NCBI-TOOLKIT (/usr/lib) while NOT /usr/lib/ncbi-tools++ !
sed -i "s#-I-#-iquote#" mgblast/Makefile || die
}
src_compile(){
cd "${S}"/mgblast || die
default
}
src_install(){
cd "${S}"/mgblast || die
dobin mgblast
}
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