gentoo-ebuilds/sci-biology/qrna/qrna-2.0.4.ebuild
Eli Schwartz c19c464def
sci-biology/qrna: add 2.0.4
This is the 2006 edition of the software. It has a bunch of useful
fixes:
- it fixes Modern C porting issues
- it fixes LTO errors
- it incorporates the glibc-2.10 patch

just by upgrading! It's about time we upgrade, since it is 18 years
later.

Along the way we fix up the ebuild a bit:
- bump to EAPI 8
- acquire an actual SRC_URI, not just the gentoo mirror
- update the homepage along with the SRC_URI. The original homepage is
  dead, and the domain redirects to a new domain (whence comes the new
  distfile).

It has some shortcomings too:
- the distfile comes with free .svn directories, which have to be
  pruned.
- the distfile comes without the 80mb demos

To solve this, we use the old distfile (which I think only exists on
Gentoo's mirror network) and gate it behind a USE=examples flag, in case
anyone needs them.

Closes: https://bugs.gentoo.org/862285
Closes: https://bugs.gentoo.org/884283
Signed-off-by: Eli Schwartz <eschwartz93@gmail.com>
Signed-off-by: Sam James <sam@gentoo.org>
2024-03-21 05:57:37 +00:00

61 lines
1.1 KiB
Bash

# Copyright 1999-2024 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
inherit toolchain-funcs vcs-clean
DESCRIPTION="Prototype ncRNA genefinder"
HOMEPAGE="http://eddylab.org/software.html"
SRC_URI="
http://eddylab.org/software/qrna/qrna.tar.gz -> ${P}.tar.gz
examples? ( mirror://gentoo/qrna-2.0.3c.tar.bz2 )
"
LICENSE="GPL-2"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="examples"
RDEPEND="
dev-lang/perl
sci-biology/hmmer:2"
DEPEND="${RDEPEND}"
PATCHES=(
"${FILESDIR}"/${P}-ldflags.patch
)
src_prepare() {
default
esvn_clean
rm -v squid*/*.a || die
}
src_configure() {
tc-export AR CC RANLIB
}
src_compile() {
local d
for d in squid squid02 src; do
emake -C ${d}
done
}
src_install() {
dobin src/{cfgbuild,eqrna,eqrna_sample,rnamat_main} scripts/*
newdoc 00README README
dodoc -r documentation/.
insinto /usr/share/${PN}/data
doins -r lib/.
if use examples; then
insinto /usr/share/${PN}/demos
doins -r "${WORKDIR}"/qrna-2.0.3c/Demos/.
fi
# Sets the path to the QRNA data files
doenvd "${FILESDIR}"/26qrna
}