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

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

[Justin Lecher]

commit:     6b489b420d273e687131c514e8deed8764284b48
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Jun 24 12:55:11 2011 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Jun 24 12:55:11 2011 +0000
URL:        http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=6b489b42

Sort inherit and/or USE

(Portage version: 2.2.0_alpha41/git/Linux x86_64, signed Manifest commit with key 70EB7916)

---
 sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild |    2 +-
 1 files changed, 1 insertions(+), 1 deletions(-)

diff --git a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
index 4c65db7..d4ad593 100644
--- a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
+++ b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
@@ -2,7 +2,7 @@
 # Distributed under the terms of the GNU General Public License v2
 # $Header: /var/cvsroot/gentoo-x86/sci-biology/mrbayes/mrbayes-3.1.2.ebuild,v 1.7 2008/06/11 18:10:48 ken69267 Exp $
 
-inherit eutils toolchain-funcs mpi
+inherit eutils mpi toolchain-funcs
 
 DESCRIPTION="Bayesian Inference of Phylogeny"
 LICENSE="GPL-2"

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

[Justin Lecher]

commit:     d510ea19782b4e68bf53ac5beb1d38b64fb5c459
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sat Jun 25 13:44:37 2011 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Jun 25 13:44:37 2011 +0000
URL:        http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=d510ea19

RDEPEND is not explicitly assigned -> fixed

(Portage version: 2.2.0_alpha41/git/Linux x86_64, signed Manifest commit with key 70EB7916)

---
 sci-biology/mrbayes/ChangeLog               |    6 +++++-
 sci-biology/mrbayes/metadata.xml            |    4 ++--
 sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild |   13 ++++++++-----
 3 files changed, 15 insertions(+), 8 deletions(-)

diff --git a/sci-biology/mrbayes/ChangeLog b/sci-biology/mrbayes/ChangeLog
index f2ce305..7c54e60 100644
--- a/sci-biology/mrbayes/ChangeLog
+++ b/sci-biology/mrbayes/ChangeLog
@@ -1,7 +1,11 @@
 # ChangeLog for sci-biology/mrbayes
-# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
 # $Header: /var/cvsroot/gentoo-x86/sci-biology/mrbayes/ChangeLog,v 1.19 2008/06/11 18:10:48 ken69267 Exp $
 
+  25 Jun 2011; Justin Lecher <jlec@gentoo.org> mrbayes-3.1.2-r1.ebuild,
+  metadata.xml:
+  RDEPEND is not explicitly assigned -> fixed
+
   27 Jun 2010; Andreas K. Huettel (dilfridge) <mail@akhuettel.de>
   mrbayes-3.1.2-r1.ebuild:
   QA fixes

diff --git a/sci-biology/mrbayes/metadata.xml b/sci-biology/mrbayes/metadata.xml
index d33282d..102b1ec 100644
--- a/sci-biology/mrbayes/metadata.xml
+++ b/sci-biology/mrbayes/metadata.xml
@@ -1,8 +1,8 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-<herd>sci-biology</herd>
-<longdescription>
+	<herd>sci-biology</herd>
+	<longdescription>
 MrBayes is a program for the Bayesian estimation of phylogeny.
 Bayesian inference of phylogeny is based upon a quantity called the
 posterior probability distribution of trees, which is the probability of a

diff --git a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
index d4ad593..f29856a 100644
--- a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
+++ b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
@@ -1,25 +1,28 @@
-# Copyright 1999-2010 Gentoo Foundation
+# Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Header: /var/cvsroot/gentoo-x86/sci-biology/mrbayes/mrbayes-3.1.2.ebuild,v 1.7 2008/06/11 18:10:48 ken69267 Exp $
 
 inherit eutils mpi toolchain-funcs
 
 DESCRIPTION="Bayesian Inference of Phylogeny"
-LICENSE="GPL-2"
 HOMEPAGE="http://mrbayes.csit.fsu.edu/"
 SRC_URI="mirror://sourceforge/${PN}/${P}.tar.gz"
 
 SLOT="0"
-IUSE="mpi readline"
+LICENSE="GPL-2"
 KEYWORDS="~amd64 ~x86"
+IUSE="mpi readline"
 
-DEPEND="mpi? ( $(mpi_pkg_deplist) )
+DEPEND="
+	mpi? ( $(mpi_pkg_deplist) )
 	readline? ( sys-libs/readline )"
+RDEPEND="${DEPEND}"
 
 src_unpack() {
 	unpack ${A}
 	cd "${S}"
-	sed -e "s:OPTFLAGS ?= -O3:CFLAGS = ${CFLAGS}:" \
+	sed \
+		-e "s:OPTFLAGS ?= -O3:CFLAGS = ${CFLAGS}:" \
 		-e "s:CC = gcc:CC = $(tc-getCC):" \
 		-e "s:CC = mpicc:CC = $(mpi_pkg_cc):" \
 		-e "s:LDFLAGS =:LDFLAGS ?=:" \

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

[Justin Lecher]

commit:     54f2d948f5441b0a67dd18b46e77c918bf7c7b33
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Mon Nov 10 14:41:24 2014 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Mon Nov 10 14:41:24 2014 +0000
URL:        http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=54f2d948

sci-biology/mrbayes: Bump EAPI

Package-Manager: portage-2.2.14

---
 sci-biology/mrbayes/ChangeLog               |  6 +++++-
 sci-biology/mrbayes/metadata.xml            |  4 ++--
 sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild | 10 +++++-----
 3 files changed, 12 insertions(+), 8 deletions(-)

diff --git a/sci-biology/mrbayes/ChangeLog b/sci-biology/mrbayes/ChangeLog
index 7c54e60..0d081c1 100644
--- a/sci-biology/mrbayes/ChangeLog
+++ b/sci-biology/mrbayes/ChangeLog
@@ -1,7 +1,11 @@
 # ChangeLog for sci-biology/mrbayes
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
 # $Header: /var/cvsroot/gentoo-x86/sci-biology/mrbayes/ChangeLog,v 1.19 2008/06/11 18:10:48 ken69267 Exp $
 
+  10 Nov 2014; Justin Lecher <jlec@gentoo.org> mrbayes-3.1.2-r1.ebuild,
+  metadata.xml:
+  Bump EAPI
+
   25 Jun 2011; Justin Lecher <jlec@gentoo.org> mrbayes-3.1.2-r1.ebuild,
   metadata.xml:
   RDEPEND is not explicitly assigned -> fixed

diff --git a/sci-biology/mrbayes/metadata.xml b/sci-biology/mrbayes/metadata.xml
index 102b1ec..9b0503f 100644
--- a/sci-biology/mrbayes/metadata.xml
+++ b/sci-biology/mrbayes/metadata.xml
@@ -1,8 +1,8 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-	<herd>sci-biology</herd>
-	<longdescription>
+  <herd>sci-biology</herd>
+  <longdescription>
 MrBayes is a program for the Bayesian estimation of phylogeny.
 Bayesian inference of phylogeny is based upon a quantity called the
 posterior probability distribution of trees, which is the probability of a

diff --git a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
index 05469a2..b83d6cf 100644
--- a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
+++ b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
@@ -2,6 +2,8 @@
 # Distributed under the terms of the GNU General Public License v2
 # $Header: $
 
+EAPI=5
+
 inherit eutils mpi toolchain-funcs
 
 DESCRIPTION="Bayesian Inference of Phylogeny"
@@ -18,9 +20,7 @@ DEPEND="
 	readline? ( sys-libs/readline )"
 RDEPEND="${DEPEND}"
 
-src_unpack() {
-	unpack ${A}
-	cd "${S}"
+src_prepare() {
 	sed \
 		-e "s:OPTFLAGS ?= -O3:CFLAGS = ${CFLAGS}:" \
 		-e "s:CC = gcc:CC = $(tc-getCC):" \
@@ -42,9 +42,9 @@ src_unpack() {
 
 src_compile() {
 	mpi_pkg_set_env
-	emake || die
+	emake
 }
 
 src_install() {
-	mpi_dobin mb || die "Installation failed."
+	mpi_dobin mb
 }

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

[Justin Lecher]

commit:     726dec12c79cdd9d33b601a95612b4fad06575e1
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Wed Feb 18 13:25:20 2015 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Feb 18 13:25:20 2015 +0000
URL:        http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=726dec12

sci-biology/mrbayes: fix SLOT operators

Package-Manager: portage-2.2.17

---
 sci-biology/mrbayes/ChangeLog               | 6 ++++--
 sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild | 4 ++--
 2 files changed, 6 insertions(+), 4 deletions(-)

diff --git a/sci-biology/mrbayes/ChangeLog b/sci-biology/mrbayes/ChangeLog
index 0d081c1..ca36e0f 100644
--- a/sci-biology/mrbayes/ChangeLog
+++ b/sci-biology/mrbayes/ChangeLog
@@ -1,7 +1,10 @@
 # ChangeLog for sci-biology/mrbayes
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
 # $Header: /var/cvsroot/gentoo-x86/sci-biology/mrbayes/ChangeLog,v 1.19 2008/06/11 18:10:48 ken69267 Exp $
 
+  18 Feb 2015; Justin Lecher <jlec@gentoo.org> mrbayes-3.1.2-r1.ebuild:
+  sci-biology/mrbayes: fix SLOT operators
+
   10 Nov 2014; Justin Lecher <jlec@gentoo.org> mrbayes-3.1.2-r1.ebuild,
   metadata.xml:
   Bump EAPI
@@ -89,4 +92,3 @@
 
   19 Jan 2005; Lina Pezzella <j4rg0n@gentoo.org> :
   Initial commit
-

diff --git a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
index b83d6cf..9ead9a6 100644
--- a/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
+++ b/sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Header: $
 
@@ -17,7 +17,7 @@ IUSE="mpi readline"
 
 DEPEND="
 	mpi? ( $(mpi_pkg_deplist) )
-	readline? ( sys-libs/readline )"
+	readline? ( sys-libs/readline:0 )"
 RDEPEND="${DEPEND}"
 
 src_prepare() {