[gentoo-commits] proj/sci:master commit in: sci-biology/TransDecoder/files/, sci-biology/TransDecoder/

["Andrew Ammerlaan" <andrewammerlaan@riseup.net>]

commit:     205a84fd4e41b0c09494d8edad2bff30f9610ba3
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Mon Jan 18 13:30:41 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Mon Jan 18 13:30:41 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=205a84fd

sci-biology/TransDecoder: version bump 5.5.0, fix fetching

Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>

 ...oder-2.1.0.ebuild => TransDecoder-5.5.0.ebuild} | 13 +++++++------
 .../files/TransDecoder-2.1.0__fix_paths.patch      | 22 ----------------------
 2 files changed, 7 insertions(+), 28 deletions(-)

diff --git a/sci-biology/TransDecoder/TransDecoder-2.1.0.ebuild b/sci-biology/TransDecoder/TransDecoder-5.5.0.ebuild
similarity index 88%
rename from sci-biology/TransDecoder/TransDecoder-2.1.0.ebuild
rename to sci-biology/TransDecoder/TransDecoder-5.5.0.ebuild
index 6b462ff90..c485d4b86 100644
--- a/sci-biology/TransDecoder/TransDecoder-2.1.0.ebuild
+++ b/sci-biology/TransDecoder/TransDecoder-5.5.0.ebuild
@@ -1,24 +1,26 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=6
+EAPI=7
 
 inherit perl-functions toolchain-funcs
 
 DESCRIPTION="Extract ORF/CDS regions from FASTA sequences"
-HOMEPAGE="http://transdecoder.github.io"
+HOMEPAGE="https://github.com/TransDecoder/TransDecoder/wiki"
 
 if [[ ${PV} == *9999 ]]; then
 	inherit git-r3
 	EGIT_REPO_URI="https://github.com/TransDecoder/TransDecoder.git"
 else
-	SRC_URI="https://github.com/TransDecoder/TransDecoder/archive/v${PV}.tar.gz -> ${P}.tar.gz"
+	SRC_URI="https://github.com/TransDecoder/TransDecoder/archive/TransDecoder-v${PV}.tar.gz"
 	KEYWORDS="~amd64"
+	S="${WORKDIR}/${PN}-${PN}-v${PV}"
 fi
 
 LICENSE="BSD-BroadInstitute"
 SLOT="0"
-IUSE=""
+
+RESTRICT="test"
 
 DEPEND="dev-lang/perl:="
 RDEPEND="${DEPEND}
@@ -35,7 +37,6 @@ src_prepare() {
 		sed -e "s#use $p;#use TransDecoder::$p;#" \
 			-i PerlLib/*.pm util/*.pl TransDecoder.LongOrfs TransDecoder.Predict || die
 	done
-	eapply "${FILESDIR}"/"${P}"__fix_paths.patch
 	eapply "${FILESDIR}"/pfam_runner.pl.patch
 
 	eapply_user

diff --git a/sci-biology/TransDecoder/files/TransDecoder-2.1.0__fix_paths.patch b/sci-biology/TransDecoder/files/TransDecoder-2.1.0__fix_paths.patch
deleted file mode 100644
index 0a6fca050..000000000
--- a/sci-biology/TransDecoder/files/TransDecoder-2.1.0__fix_paths.patch
+++ /dev/null
@@ -1,22 +0,0 @@
---- TransDecoder-2.0.1/TransDecoder.LongOrfs.ori	2015-11-19 21:05:53.340219051 +0100
-+++ TransDecoder-2.0.1/TransDecoder.LongOrfs	2015-11-19 21:20:44.870221380 +0100
-@@ -64,7 +64,7 @@
- use TransDecoder::Fasta_reader;
- use TransDecoder::Longest_orf;
- 
--my $UTIL_DIR = "$FindBin::RealBin/util";
-+my $UTIL_DIR = "/usr/share/TransDecoder/util/";
- $ENV{PATH} = "$UTIL_DIR/bin:$ENV{PATH}";
- 
- 
---- TransDecoder-2.0.1/TransDecoder.Predict.ori	2015-11-19 21:06:04.280219080 +0100
-+++ TransDecoder-2.0.1/TransDecoder.Predict	2015-11-19 21:21:22.560221479 +0100
-@@ -52,7 +52,7 @@
- use TransDecoder::Fasta_reader;
- use TransDecoder::Longest_orf;
- 
--my $UTIL_DIR = "$FindBin::RealBin/util";
-+my $UTIL_DIR = "/usr/share/TransDecoder/util/";
- $ENV{PATH} = "$UTIL_DIR/bin:$ENV{PATH}";
- 
-