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# Copyright 1999-2006 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/staden-bin/staden-bin-1.7.0.ebuild,v 1.2 2006/10/22 16:49:50 ribosome Exp $
inherit multilib
DESCRIPTION="The Staden Package - Biological sequence handling and analysis"
LICENSE="staden"
HOMEPAGE="http://staden.sourceforge.net"
SRC_URI="mirror://sourceforge/staden/staden-linux-x86-${PV//./-}.tar.gz"
SLOT="0"
IUSE=""
KEYWORDS="-* ~x86"
ITCLTK_PV="3.3"
IWIDGETS_PV="4.0.1"
RDEPEND="app-shells/pdksh
=media-libs/libpng-1.2*
=sci-libs/io_lib-1.10*
~dev-tcltk/itcl-${ITCLTK_PV}
~dev-tcltk/itk-${ITCLTK_PV}
~dev-tcltk/iwidgets-${IWIDGETS_PV}
x11-libs/libX11"
S="${WORKDIR}/staden-linux-x86-${PV//./-}"
src_unpack() {
unpack ${A}
cd "${S}"
# Remove Gentoo-provided libraries.
rm lib/linux-binaries/libpng* || die "Could not remove libpng."
rm -r lib/itcl${ITCLTK_PV} || die "Could not remove itcl."
rm -r lib/itk${ITCLTK_PV} || die "Could not remove itk."
rm lib/iwidgets || die "Could not remove iwidgets."
# Remove executables provided by the io_lib package.
for i in append_sff convert_trace extract_seq get_comment hash_extract \
hash_sff hash_tar index_tar makeSCF scf_dump scf_info scf_update \
trace_dump ztr_dump; do
rm linux-bin/${i} || die "Could not remove io_lib program: ${i}."
done
# Remove the help program, which is only a wrapper to launch netscape
# with a non-existent hypertext file.
rm linux-bin/staden_help || die "Could not remove staden-help."
# Remove broken prebuilt EMBOSS tcl/tk GUIs.
rm tables/emboss_menu
rm -r lib/spin_emboss/acdtcl
rm -r lib/spin2_emboss/acdtcl
sed -e 's:/usr/bin/nawk:/usr/bin/awk:' -i linux-bin/fasta-split || \
die "Could not patch fasta-split."
sed -e 's:/usr/local/badger/gap4_test:/opt/staden:' \
-i linux-bin/finish_cDNA -i linux-bin/finish_cDNA_ends_only || \
die "Could not patch finish_cDNA"
}
src_compile() {
echo; einfo "Nothing to compile"; echo
}
src_install() {
# There is no Makefile.
dodir /opt/staden
cp -R "${S}"/* "${D}"/opt/staden/ || die "Could not copy package files."
dosym /opt/staden/doc /usr/share/doc/${PF} || die "Could not symlink docs."
# Staden programs look for the tcl/tk/itcl/itk/iwidgets libraries in the
# package root.
dosym /usr/$(get_libdir)/itcl${ITCLTK_PV} /opt/staden/lib/itcl${ITCLTK_PV} \
|| die "Could not symlink itcl."
dosym /usr/$(get_libdir)/itk${ITCLTK_PV} /opt/staden/lib/itk${ITCLTK_PV} \
|| die "Could not symlink itk."
dosym /usr/$(get_libdir)/iwidgets${IWIDGETS_PV} /opt/staden/lib/iwidgets \
|| die "Could not symlink iwidgets."
dodir /etc/env.d
cat <<- EOF > "${D}"/etc/env.d/60staden
STADENROOT="/opt/staden"
EOF
}
pkg_postinst() {
echo
einfo "Before using Staden applications, csh users should source"
einfo "\"/opt/staden/staden.login\", whilst bash users should source"
einfo "\"/opt/staden/staden.profile\"."
echo
}
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