[gentoo-commits] proj/sci:master commit in: sci-biology/SnpEff/, profiles/

[gentoo-commits] proj/sci:master commit in: sci-biology/SnpEff/, profiles/

[Andrew Ammerlaan]

commit:     a0e0a0d9d53e45889552358f44d6efe8f43bcec9
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Tue Jan 19 09:22:34 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Tue Jan 19 09:22:47 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=a0e0a0d9

sci-biology/SnpEff: fix fetching

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

 profiles/package.mask                                   |  1 -
 .../SnpEff/{SnpEff-4.3i.ebuild => SnpEff-4.3t.ebuild}   | 17 +++++------------
 2 files changed, 5 insertions(+), 13 deletions(-)

diff --git a/profiles/package.mask b/profiles/package.mask
index 9232daefe..75f194351 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -102,4 +102,3 @@ sci-biology/scaffold_builder
 sci-biology/sgp2
 sci-biology/skewer-bin
 sci-biology/smalt
-sci-biology/SnpEff

diff --git a/sci-biology/SnpEff/SnpEff-4.3i.ebuild b/sci-biology/SnpEff/SnpEff-4.3t.ebuild
similarity index 86%
rename from sci-biology/SnpEff/SnpEff-4.3i.ebuild
rename to sci-biology/SnpEff/SnpEff-4.3t.ebuild
index 2bd2bfb1d..ddece0256 100644
--- a/sci-biology/SnpEff/SnpEff-4.3i.ebuild
+++ b/sci-biology/SnpEff/SnpEff-4.3t.ebuild
@@ -1,24 +1,20 @@
-# Copyright 1999-2020 Gentoo Authors
+# Copyright 1999-2021 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=6
+EAPI=7
 
 inherit java-pkg-2 java-ant-2
 
-MY_PV=${PV/./_}
-
 DESCRIPTION="SnpEff, SnpSift: Annotate SNP changes and predict effect in HGVS-compliant VCF"
 HOMEPAGE="https://pcingola.github.io/SnpEff/"
 SRC_URI="
-	https://sourceforge.net/projects/snpeff/files/snpEff_v${MY_PV}_core.zip
+	https://downloads.sourceforge.net/project/snpeff/snpEff_v${PV//./_}_core.zip
 	https://pcingola.github.io/SnpEff/index.html -> ${P}.html"
 
 LICENSE="LGPL-3"
 SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE=""
+KEYWORDS=""
 
-# https://github.com/pcingola/SnpEff/blob/master/README_release.txt
 RDEPEND="
 	>=virtual/jre-1.7:*
 	dev-java/maven-bin:*
@@ -26,13 +22,10 @@ RDEPEND="
 DEPEND="${RDEPEND}
 	>=virtual/jdk-1.7:*
 	dev-java/ant-core"
+BDEPEND="app-arch/unzip"
 
 S="${WORKDIR}"
 
-#src_compile(){
-#	mvn || die
-#}
-
 src_install(){
 	cd .. || die
 	mkdir -p "${ED}"/usr/share || die