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

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

[Andrew Savchenko]

commit:     0dc6bb7902c41f0584e7fe9ce1f95a55fb13464c
Author:     Marius Brehler <marbre <AT> linux <DOT> sungazer <DOT> de>
AuthorDate: Sun Apr 26 09:43:32 2015 +0000
Commit:     Andrew Savchenko <bircoph <AT> gentoo <DOT> org>
CommitDate: Sun Apr 26 09:43:32 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=0dc6bb79

sci-biology/grappa: Bump to EAPI=5

Package-Manager: portage-2.2.14

 sci-biology/grappa/ChangeLog         | 6 ++++--
 sci-biology/grappa/grappa-2.0.ebuild | 9 ++++-----
 2 files changed, 8 insertions(+), 7 deletions(-)

diff --git a/sci-biology/grappa/ChangeLog b/sci-biology/grappa/ChangeLog
index e27a8cc..49ae9d7 100644
--- a/sci-biology/grappa/ChangeLog
+++ b/sci-biology/grappa/ChangeLog
@@ -1,8 +1,10 @@
 # ChangeLog for sci-biology/grappa
-# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+  26 Apr 2015; Marius Brehler <marbre@linux.sungazer.de> grappa-2.0.ebuild:
+  Bump to EAPI=5
+
   14 Jul 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
   New package, ebuild written by Pablo Nehab-Hess <natunobilis@gentoobr.org>
   and me
-

diff --git a/sci-biology/grappa/grappa-2.0.ebuild b/sci-biology/grappa/grappa-2.0.ebuild
index 659fc9b..b95b7eb 100644
--- a/sci-biology/grappa/grappa-2.0.ebuild
+++ b/sci-biology/grappa/grappa-2.0.ebuild
@@ -1,8 +1,8 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Header: $
 
-EAPI="2"
+EAPI=5
 
 MY_P="GRAPPA20"
 
@@ -13,16 +13,15 @@ SRC_URI="http://www.cs.unm.edu/~moret/GRAPPA/${MY_P}.tar.gz"
 LICENSE="GPL-2"
 SLOT="0"
 KEYWORDS="~amd64 ~x86"
-IUSE=""
 
 S="${WORKDIR}/${MY_P}"
 
 src_prepare() {
-	sed -i -e '/CFLAGS := -mcpu/ d' -e 's/\(CFLAGS := -D${OS}\)/\1 ${CFLAGS}/' "${S}/Makefile"
+	sed -i -e '/CFLAGS := -mcpu/ d' -e 's/\(CFLAGS := -D${OS}\)/\1 ${CFLAGS}/' "${S}/Makefile" || die
 }
 
 src_install() {
-	dobin grappa || die
+	dobin grappa
 	dosym grappa /usr/bin/invdist
 	dosym grappa /usr/bin/distmat
 	dodoc README

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

[Martin Mokrejs]

commit:     8e861cf6c87b73b16c6a3526e4388d9c8931f54f
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Wed Jun 22 14:28:51 2016 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Wed Jun 22 14:28:51 2016 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=8e861cf6

sci-biology/grappa: prevent file collision, have emailed upstream now as well

Package-Manager: portage-2.2.28

 sci-biology/grappa/grappa-2.0.ebuild | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/sci-biology/grappa/grappa-2.0.ebuild b/sci-biology/grappa/grappa-2.0.ebuild
index cf0e06e..b07fb04 100644
--- a/sci-biology/grappa/grappa-2.0.ebuild
+++ b/sci-biology/grappa/grappa-2.0.ebuild
@@ -23,6 +23,7 @@ src_prepare() {
 src_install() {
 	dobin grappa
 	dosym grappa /usr/bin/invdist
-	dosym grappa /usr/bin/distmat
+	# avoid file collision with emboss and rename distmat to distmat_grappa
+	dosym grappa /usr/bin/distmat_grappa
 	dodoc README
 }

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

[Andrew Ammerlaan]

commit:     5b55cf9a5312fc3bc2db86d8cd7161303dc47961
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Wed Jan 20 08:58:11 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Wed Jan 20 08:58:11 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=5b55cf9a

sci-biology/grappa: update homepage

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

 sci-biology/grappa/grappa-2.0.ebuild | 9 +++++----
 1 file changed, 5 insertions(+), 4 deletions(-)

diff --git a/sci-biology/grappa/grappa-2.0.ebuild b/sci-biology/grappa/grappa-2.0.ebuild
index a60e024a7..ceb0c34c9 100644
--- a/sci-biology/grappa/grappa-2.0.ebuild
+++ b/sci-biology/grappa/grappa-2.0.ebuild
@@ -1,13 +1,13 @@
-# 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
 
 MY_P="GRAPPA20"
 
 DESCRIPTION="Genome Rearrangements Analysis under Parsimony and other Phylogenetic Algorithms"
-HOMEPAGE="http://www.cs.unm.edu/~moret/GRAPPA/"
-SRC_URI="http://www.cs.unm.edu/~moret/GRAPPA/${MY_P}.tar.gz"
+HOMEPAGE="https://www.cs.unm.edu/~moret/GRAPPA/"
+SRC_URI="https://www.cs.unm.edu/~moret/GRAPPA/${MY_P}.tar.gz"
 
 LICENSE="GPL-2"
 SLOT="0"
@@ -16,6 +16,7 @@ KEYWORDS="~amd64 ~x86"
 S="${WORKDIR}/${MY_P}"
 
 src_prepare() {
+	default
 	sed -i -e '/CFLAGS := -mcpu/ d' -e 's/\(CFLAGS := -D${OS}\)/\1 ${CFLAGS}/' "${S}/Makefile" || die
 }