From c38274779a20385ad70d5c2aa2dac34d8525868d Mon Sep 17 00:00:00 2001 From: Justin Lecher Date: Sun, 29 Jan 2017 13:44:25 +0000 Subject: sci-biology/SEECER: QA fixes Bump to6 EAPI drop non active code add missing slot operator Package-Manager: Portage-2.3.3, Repoman-2.3.1 Signed-off-by: Justin Lecher --- sci-biology/SEECER/SEECER-0.1.3-r2.ebuild | 23 +++++++++++------------ 1 file changed, 11 insertions(+), 12 deletions(-) (limited to 'sci-biology/SEECER/SEECER-0.1.3-r2.ebuild') diff --git a/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild b/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild index 8d8e91972..f2b5a67a4 100644 --- a/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild +++ b/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild @@ -1,41 +1,40 @@ -# Copyright 1999-2015 Gentoo Foundation +# Copyright 1999-2017 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Id$ -EAPI=5 +EAPI=6 inherit eutils DESCRIPTION="SEquencing Error Corrector for RNA-Seq reads" HOMEPAGE="http://sb.cs.cmu.edu/seecer/" -if [ "$PV" == "9999" ]; then - EGIT_REPO_URI="https://github.com/haisonle/SEECER.git" - KEYWORDS="" -else - SRC_URI=" +SRC_URI=" http://sb.cs.cmu.edu/seecer/downloads/"${P}".tar.gz http://sb.cs.cmu.edu/seecer/downloads/manual.pdf -> "${PN}"-manual.pdf" - KEYWORDS="~amd64" -fi LICENSE="GPL-3" SLOT="0" IUSE="" +KEYWORDS="~amd64" # although has bundled jellyfish-1.1.11 copy it just calls the executable during runtime # seems jellyfish-2 does not accept same commandline arguments DEPEND=" - sci-libs/gsl - sci-biology/seqan" + sci-libs/gsl:0= + sci-biology/seqan:0=" RDEPEND="${DEPEND} =sci-biology/jellyfish-1.1.11" S="${S}"/SEECER +PATCHES=( + "${FILESDIR}"/remove-hardcoded-paths.patch +) + src_prepare(){ # http://seecer-rna-read-error-correction-mailing-list.21961.x6.nabble.com/Segmentation-fault-in-step-4-td41.html cp -p "${FILESDIR}"/replace_ids.cc "${S}"/src/ || die - epatch "${FILESDIR}"/remove-hardcoded-paths.patch + default } src_install(){ -- cgit v1.2.3-65-gdbad