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authorJeffrey Gardner <je_fro@gentoo.org>2007-09-17 02:05:02 +0000
committerJeffrey Gardner <je_fro@gentoo.org>2007-09-17 02:05:02 +0000
commit9f5bbea43f57fa408c9487d2a1716b4b718174bf (patch)
tree11207f81146a842d37f8668438145c06667727c4 /sci-biology/meme/meme-3.5.4.ebuild
parentfix Manifest (diff)
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Fixing up meme for amd64.
svn path=/; revision=75
Diffstat (limited to 'sci-biology/meme/meme-3.5.4.ebuild')
-rw-r--r--sci-biology/meme/meme-3.5.4.ebuild88
1 files changed, 88 insertions, 0 deletions
diff --git a/sci-biology/meme/meme-3.5.4.ebuild b/sci-biology/meme/meme-3.5.4.ebuild
new file mode 100644
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@@ -0,0 +1,88 @@
+# Copyright 1999-2007 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/meme/meme-3.5.4.ebuild,v 1.1 2007/04/24 20:44:01 ribosome Exp $
+
+inherit eutils toolchain-funcs
+
+DESCRIPTION="The MEME/MAST system - Motif discovery and search"
+HOMEPAGE="http://meme.sdsc.edu/meme"
+SRC_URI="http://meme.nbcr.net/downloads/${PN}_${PV}.tar.gz"
+LICENSE="meme"
+
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+# Other possible USE flags include "debug", "client", "server", "web",
+# "queue". Other variables must be set at compile time, but only when
+# the Web server is built. Right now, Web server and client are disabled.
+IUSE="mpi"
+
+# Works only with LAM-MPI.
+DEPEND=">=dev-lang/perl-5.6.1
+ mpi? ( sys-cluster/lam-mpi )"
+
+S="${WORKDIR}/${PN}_${PV}"
+
+src_unpack() {
+ unpack ${A}
+
+ cd "${S}"
+ epatch "${FILESDIR}/${P}-Makefile.am.patch"
+ einfo "Regenerating autotools files..."
+ eautoreconf
+}
+
+src_compile() {
+ local EXTRA_CONF
+ # Build system is too bugy to make the programs use standard locations.
+ # Put everything in "/opt" instead.
+ EXTRA_CONF="${EXTRA_CONF} --prefix=/opt/${PN}"
+ EXTRA_CONF="${EXTRA_CONF} --with-logs=/var/log/${PN}"
+ # Connect hyperlinks to official Web site.
+ EXTRA_CONF="${EXTRA_CONF} --with-url=http://meme.nbcr.net/meme"
+ # Disable Web server, client and Web site.
+ EXTRA_CONF="${EXTRA_CONF} --disable-server --disable-client --disable-web"
+ # Parallel implementation
+ if ! use mpi; then
+ EXTRA_CONF="${EXTRA_CONF} --enable-serial"
+ fi
+
+ ./configure ${EXTRA_CONF} || die "Configure failed."
+ CC="$(tc-getCC)" ac_cc_opt="${CFLAGS}" make -e || die "Make failed."
+
+# Install parallel files only on x86, otherwise the install fails with the error:
+# i386 architecture of input file `mp.o' is incompatible with i386:x86-64 output
+ if [[ "${ARCH}" == "x86" ]] ; then
+ if use mpi; then
+ cd src/parallel
+ make || die "Parallel make failed."
+ fi
+ fi
+}
+
+src_install() {
+ make install DESTDIR="${D}" || die "Failed to install program files."
+ exeinto "/opt/${PN}/bin"
+ if [[ "${ARCH}" == "x86" ]] ; then
+ if use mpi; then
+ doexe "${S}/src/parallel/${PN}_p" || \
+ die "Failed to install parallel MEME implementation."
+ fi
+ fi
+ keepdir "/var/log/${PN}"
+ fperms 777 "/var/log/${PN}"
+}
+
+pkg_postinst() {
+ echo
+ einfo 'Prior to using MEME/MAST, you should source "/opt/meme/etc/meme.sh"'
+ einfo '(or "/opt/meme/etc/meme.csh" if you use a csh-style shell). To do'
+ einfo 'this automatically with bash, add the following statement to your'
+ einfo '"~/.bashrc" file (without the quotes): "source /opt/meme/etc/meme.sh".'
+ echo
+ einfo 'Log files are produced in the "/var/log/meme" directory.'
+ echo
+}
+
+src_test() {
+ make test || die "Regression tests failed."
+}