[gentoo-commits] proj/sci:master commit in: sci-biology/Atlas-Link/
commit: 767570471714492950777b01427b0eeafae98709
Author: Horea Christian chymera eu>
AuthorDate: Sun Sep 27 22:36:25 2020 +
Commit: Horea Christian gmail com>
CommitDate: Sun Sep 27 22:43:20 2020 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=76757047
sci-biology/Atlas-Link: removed discontinued package
Package-Manager: Portage-3.0.8, Repoman-3.0.1
Signed-off-by: Horea Christian chymera.eu>
sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild | 26
sci-biology/Atlas-Link/metadata.xml | 12 ---
2 files changed, 38 deletions(-)
diff --git a/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
b/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
deleted file mode 100644
index 9324bc4f8..0
--- a/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit perl-module
-
-DESCRIPTION="Link and orient genome sequence contigs using mate-pair
information"
-HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas-link;
-SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz
-> ${P}.tar.gz"
-
-LICENSE="HGSC-BCM"
-SLOT="0"
-KEYWORDS=""
-IUSE=""
-
-# https://github.com/gitpan/Algorithm-ClusterPoints
-DEPEND="
- dev-lang/perl
- dev-perl/Graph
- dev-perl/Algorithm-ClusterPoints
- dev-perl/XML-DOM
- dev-perl/Statistics-Descriptive"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}"/Atlas-link
diff --git a/sci-biology/Atlas-Link/metadata.xml
b/sci-biology/Atlas-Link/metadata.xml
deleted file mode 100644
index 138cb7705..0
--- a/sci-biology/Atlas-Link/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-
-http://www.gentoo.org/dtd/metadata.dtd;>
-
-
- mmokr...@fold.natur.cuni.cz
- Martin Mokrejs
-
-
- sci-biol...@gentoo.org
- Gentoo Biology Project
-
-
[gentoo-commits] proj/sci:master commit in: sci-biology/Atlas-Link/
commit: 774fed3afd5665e21069cb814c5e2c2fbc8f7185
Author: Justin Lecher gentoo org>
AuthorDate: Fri Feb 26 09:46:02 2016 +
Commit: Justin Lecher gentoo org>
CommitDate: Fri Feb 26 09:46:02 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=774fed3a
sci-biology/Atlas-Link: Fix source location to new upstream setup * Chop
DESCRIPTION to < 80 chars
* Bump to EAPI=6
Package-Manager: portage-2.2.27
Signed-off-by: Justin Lecher gentoo.org>
.../{Atlas-Link-0.01.ebuild => Atlas-Link-0.01-r1.ebuild} | 11 ++-
sci-biology/Atlas-Link/metadata.xml | 2 +-
2 files changed, 7 insertions(+), 6 deletions(-)
diff --git a/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
b/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
similarity index 68%
rename from sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
rename to sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
index 58e2948..59a33b4 100644
--- a/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
+++ b/sci-biology/Atlas-Link/Atlas-Link-0.01-r1.ebuild
@@ -1,14 +1,14 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
-EAPI=5
+EAPI=6
inherit perl-module
-DESCRIPTION="Links and orients genome sequence contigs using mate-pair
information or superscaffolds .agp files"
+DESCRIPTION="Link and orient genome sequence contigs using mate-pair
information"
HOMEPAGE="https://www.hgsc.bcm.edu/software/atlas-link;
-SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz;
+SRC_URI="https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz
-> ${P}.tar.gz"
LICENSE="HGSC-BCM"
SLOT="0"
@@ -16,7 +16,8 @@ KEYWORDS=""
IUSE=""
# https://github.com/gitpan/Algorithm-ClusterPoints
-DEPEND="dev-lang/perl
+DEPEND="
+ dev-lang/perl
dev-perl/Graph
dev-perl/Algorithm-ClusterPoints
dev-perl/XML-DOM
diff --git a/sci-biology/Atlas-Link/metadata.xml
b/sci-biology/Atlas-Link/metadata.xml
index 1699e58..f68a1b6 100644
--- a/sci-biology/Atlas-Link/metadata.xml
+++ b/sci-biology/Atlas-Link/metadata.xml
@@ -5,7 +5,7 @@
mmokr...@fold.natur.cuni.cz
Martin Mokrejs
-
+
sci-biol...@gentoo.org
Gentoo Biology Project
[gentoo-commits] proj/sci:master commit in: sci-biology/Atlas-Link/
commit: 76473186d32683782345c0271a225416c49e7d27
Author: Martin Mokrejš mmokrejs AT fold DOT natur DOT cuni DOT cz
AuthorDate: Fri Jul 4 13:41:22 2014 +
Commit: Martin Mokrejs mmokrejs AT fold DOT natur DOT cuni DOT cz
CommitDate: Fri Jul 4 13:41:22 2014 +
URL:
http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=76473186
sci-biology/Atlas-Link: noted dependence, see bug #516366
---
sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild | 26 ++
sci-biology/Atlas-Link/ChangeLog | 10 ++
sci-biology/Atlas-Link/metadata.xml | 9 +
3 files changed, 45 insertions(+)
diff --git a/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
b/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
new file mode 100644
index 000..bb15e64
--- /dev/null
+++ b/sci-biology/Atlas-Link/Atlas-Link-0.01.ebuild
@@ -0,0 +1,26 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit perl-module
+
+DESCRIPTION=Links and orients genome sequence contigs using mate-pair
information or superscaffolds .agp files
+HOMEPAGE=https://www.hgsc.bcm.edu/software/atlas-link;
+SRC_URI=https://www.hgsc.bcm.edu/sites/default/files/software/Atlas_Link/Atlas-link.tar.gz;
+
+LICENSE=HGSC-BCM
+SLOT=0
+KEYWORDS=
+IUSE=
+
+# https://github.com/gitpan/Algorithm-ClusterPoints
+DEPEND=dev-lang/perl
+ dev-perl/Graph
+ dev-perl/Algorithm-ClusterPoints
+ dev-perl/XML-DOM
+ dev-perl/Statistics-Descriptive
+RDEPEND=${DEPEND}
+
+S=${WORKDIR}/Atlas-link
diff --git a/sci-biology/Atlas-Link/ChangeLog b/sci-biology/Atlas-Link/ChangeLog
new file mode 100644
index 000..cb92c11
--- /dev/null
+++ b/sci-biology/Atlas-Link/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/Atlas-Link
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*Atlas-Link-0.01 (04 Jul 2014)
+
+ 04 Jul 2014; Martin Mokrejs mmokr...@fold.natur.cuni.cz
+ +Atlas-Link-0.01.ebuild, +metadata.xml:
+ sci-biology/Atlas-Link: noted dependence, see bug #516366
+
diff --git a/sci-biology/Atlas-Link/metadata.xml
b/sci-biology/Atlas-Link/metadata.xml
new file mode 100644
index 000..2bc8930
--- /dev/null
+++ b/sci-biology/Atlas-Link/metadata.xml
@@ -0,0 +1,9 @@
+?xml version=1.0 encoding=UTF-8?
+!DOCTYPE pkgmetadata SYSTEM http://www.gentoo.org/dtd/metadata.dtd;
+pkgmetadata
+ herdsci-biology/herd
+ maintainer
+emailmmokr...@fold.natur.cuni.cz/email
+nameMartin Mokrejs/name
+ /maintainer
+/pkgmetadata
