commit: 33b9b9c2651f06e55e4fb8a3e4654d1d0ccc4afd
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Tue Jan 19 10:08:12 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Tue Jan 19 10:08:35 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=33b9b9c2
sci-biology/prokka: version bump. fix fetch
Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
profiles/package.mask | 1 -
.../{prokka-1.11.ebuild => prokka-1.14.6.ebuild} | 21 ++++++++++++---------
2 files changed, 12 insertions(+), 10 deletions(-)
diff --git a/profiles/package.mask b/profiles/package.mask
index 2abd24cac..a43ddc581 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -95,4 +95,3 @@ sci-biology/ORFcor
sci-biology/pairagon
sci-biology/polyphen
sci-biology/primerD
-sci-biology/prokka
diff --git a/sci-biology/prokka/prokka-1.11.ebuild
b/sci-biology/prokka/prokka-1.14.6.ebuild
similarity index 69%
rename from sci-biology/prokka/prokka-1.11.ebuild
rename to sci-biology/prokka/prokka-1.14.6.ebuild
index 06cc2a630..b56fd143f 100644
--- a/sci-biology/prokka/prokka-1.11.ebuild
+++ b/sci-biology/prokka/prokka-1.14.6.ebuild
@@ -1,28 +1,26 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=5
+EAPI=7
DESCRIPTION="Prokaryotic whole genome annotation pipeline"
-HOMEPAGE="http://www.bioinformatics.net.au/software.prokka.shtml";
-SRC_URI="http://www.vicbioinformatics.com/prokka-"${PV}".tar.gz";
-# 360MB
+HOMEPAGE="https://vicbioinformatics.com/software.prokka.shtml";
+SRC_URI="https://github.com/tseemann/prokka/archive/v${PV}.tar.gz ->
${P}.tar.gz"
LICENSE="GPL-2"
SLOT="0"
KEYWORDS="~amd64"
-IUSE=""
-DEPEND=""
-RDEPEND="${DEPEND}
+RDEPEND="
sys-process/parallel
sci-biology/bioperl
sci-biology/prodigal
|| ( sci-biology/ncbi-tools++ sci-biology/ncbi-blast+ )
- sci-biology/hmmer
+ sci-biology/hmmer:*
sci-biology/infernal
sci-biology/exonerate
sci-biology/barrnap"
+DEPEND="${RDEPEND}"
# sci-biology/minced
# >=sci-biolohy/hmmer-3.1
# Aragorn
@@ -31,3 +29,8 @@ RDEPEND="${DEPEND}
# SignalP >= 3.0
# sequin
# tbl2asn >= 23.0 from wget --mirror -nH -nd
ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools/converters/by_program/tbl2asn/linux64.tbl2asn.gz
+
+src_install() {
+ default
+ dobin bin/prokka
+}
