[gentoo-commits] proj/sci:master commit in: sci-biology/germline/

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

commit:     8b619eeb663750fa7dfc2b674eb16505ec788c8d
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sun Jan 24 14:34:46 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sun Jan 24 14:34:46 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=8b619eeb

sci-biology/germline: version bump, EAPI bump

Package-Manager: Portage-3.0.14, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>

 sci-biology/germline/germline-1.5.1.ebuild         | 34 ----------------------
 ...germline-1.5.2.ebuild => germline-1.5.3.ebuild} | 15 ++++------
 2 files changed, 6 insertions(+), 43 deletions(-)

diff --git a/sci-biology/germline/germline-1.5.1.ebuild b/sci-biology/germline/germline-1.5.1.ebuild
deleted file mode 100644
index 1a9063ee5..000000000
--- a/sci-biology/germline/germline-1.5.1.ebuild
+++ /dev/null
@@ -1,34 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit versionator toolchain-funcs
-
-MY_PV=$(replace_all_version_separators '-')
-
-DESCRIPTION="Find shared segments of Identity by Descent (IBD) between pairs of individuals"
-HOMEPAGE="http://www.cs.columbia.edu/~gusev/germline
-	http://genome.cshlp.org/content/19/2/318.full"
-SRC_URI="http://www.cs.columbia.edu/~gusev/${PN}/${PN}-${MY_PV}.tar.gz"
-
-LICENSE="GPL-2"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE=""
-
-DEPEND="dev-libs/boost"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}"/${PN}-${MY_PV}
-
-src_prepare(){
-	sed -e "s/-O3 /${CXXFLAGS} /;s/g++/$(tc-getCXX)/" -i Makefile || die
-	sed -e "s#diff -q -s test/expected.match test/generated.match#diff -q -s test/expected.match test/generated.match || cat test/generated.err#" -i Makefile || die
-	sed -e "s/^all: clean germline bmatch test/all: clean germline bmatch/" -i Makefile || die
-	default
-}
-
-src_install(){
-	dobin germline parse_bmatch
-}

diff --git a/sci-biology/germline/germline-1.5.2.ebuild b/sci-biology/germline/germline-1.5.3.ebuild
similarity index 71%
rename from sci-biology/germline/germline-1.5.2.ebuild
rename to sci-biology/germline/germline-1.5.3.ebuild
index c7c5f8396..0363b8fa8 100644
--- a/sci-biology/germline/germline-1.5.2.ebuild
+++ b/sci-biology/germline/germline-1.5.3.ebuild
@@ -1,26 +1,23 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=6
+EAPI=7
 
-inherit versionator toolchain-funcs
-
-MY_PV=$(replace_all_version_separators '-')
+inherit toolchain-funcs
 
 DESCRIPTION="Find shared segments of Identity by Descent (IBD) between pairs of individuals"
-HOMEPAGE="http://www.cs.columbia.edu/~gusev/germline
+HOMEPAGE="http://gusevlab.org/projects/germline/
 	http://genome.cshlp.org/content/19/2/318.full"
-SRC_URI="http://www.cs.columbia.edu/~gusev/${PN}/${PN}-${MY_PV}.tar.gz"
+SRC_URI="http://gusevlab.org/projects/${PN}/release/${PN}-${PV//./-}.tar.gz"
 
 LICENSE="GPL-2"
 SLOT="0"
 KEYWORDS="~amd64 ~x86"
-IUSE=""
 
 DEPEND="dev-libs/boost"
 RDEPEND="${DEPEND}"
 
-S="${WORKDIR}"/${PN}-${MY_PV}
+S="${WORKDIR}"/${PN}-${PV//./-}
 
 src_prepare(){
 	sed -e "s/-O3 /${CXXFLAGS} /;s/g++/$(tc-getCXX)/" -i Makefile || die