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# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
inherit java-pkg-opt-2
DESCRIPTION="Prediction of Protein bb and sc Torsion Angles from NMR Chemical Shifts"
HOMEPAGE="https://spin.niddk.nih.gov/bax/software/TALOS-N/"
SRC_URI="https://spin.niddk.nih.gov/bax/software/TALOS-N/talosn.tZ -> ${P}.tgz"
SLOT="0"
LICENSE="all-rights-reserved"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE="examples"
DEPEND=">=virtual/jre-1.5:*"
RDEPEND="${DEPEND}
app-shells/tcsh
sci-biology/ncbi-tools"
S="${WORKDIR}"
QA_PREBUILT="/opt/.*"
src_prepare() {
default
local s64
use amd64 || s64="_x64"
rm -f bin/TALOSN.{linux,mac,static.*,winxp,linux9${s64}} || die
sed \
-e '/setenv TALOSN_DIR/d' \
-e "/set BLAST/s:=.*:= \"${EPREFIX}/usr/bin/blastpgp\":g" \
-e '/set NR_DBNAME/s:=.*:= ${BLASTDB}:g' \
-i talosn_ss || die
}
src_install() {
local TALOSN="/opt/${PN}"
exeinto ${TALOSN}/bin
doexe bin/*
exeinto ${TALOSN}/com
doexe com/*
exeinto /opt/bin
doexe talosn{,_ss}
insinto ${TALOSN}
doins -r tab
java-pkg_jarinto ${TALOSN}
java-pkg_dojar rama.jar
java-pkg_dolauncher jrama --jar rama.jar -into /opt/
if use examples; then
insinto /usr/share/${PN}
doins -r demo
fi
cat >> "${T}"/40talosn <<- EOF
TALOSN_DIR="${EPREFIX}/${TALOSN}"
#BLASTDB=
EOF
doenvd "${T}"/40talosn
}
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