* [gentoo-commits] proj/sci:master commit in: sci-biology/rum/
@ 2015-04-18 1:07 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2015-04-18 1:07 UTC (permalink / raw
To: gentoo-commits
commit: 7516202601abbac750c7fb7ed7a8c52bafb16a49
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sat Apr 18 01:06:45 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sat Apr 18 01:06:45 2015 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=75162026
sci-biology/rum: new package
Package-Manager: portage-2.2.18
sci-biology/rum/ChangeLog | 9 +++++++++
sci-biology/rum/metadata.xml | 9 +++++++++
sci-biology/rum/rum-2.0.5.5.ebuild | 40 ++++++++++++++++++++++++++++++++++++++
3 files changed, 58 insertions(+)
diff --git a/sci-biology/rum/ChangeLog b/sci-biology/rum/ChangeLog
new file mode 100644
index 0000000..3dd7b15
--- /dev/null
+++ b/sci-biology/rum/ChangeLog
@@ -0,0 +1,9 @@
+# ChangeLog for sci-biology/rum
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*rum-2.0.5.5 (18 Apr 2015)
+
+ 18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
+ +rum-2.0.5.5.ebuild:
+ sci-biology/rum: new package
diff --git a/sci-biology/rum/metadata.xml b/sci-biology/rum/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/rum/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+ <herd>sci-biology</herd>
+ <maintainer>
+ <email>mmokrejs@fold.natur.cuni.cz</email>
+ <name>Martin Mokrejs</name>
+ </maintainer>
+</pkgmetadata>
diff --git a/sci-biology/rum/rum-2.0.5.5.ebuild b/sci-biology/rum/rum-2.0.5.5.ebuild
new file mode 100644
index 0000000..c8fc01b
--- /dev/null
+++ b/sci-biology/rum/rum-2.0.5.5.ebuild
@@ -0,0 +1,40 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit perl-module eutils
+
+DESCRIPTION="RNA-Seq Unified Mapper (digital normalization)"
+HOMEPAGE="https://github.com/itmat/rum/wiki"
+SRC_URI="https://github.com/itmat/rum/archive/v2.0.5_05.tar.gz"
+
+# stable
+#EGIT_REPO_URI="https://github.com/PGFI/rum/tags"
+
+# dev
+#EGIT_REPO_URI="https://github.com/PGFI/rum"
+
+LICENSE="UPennState"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+DEPEND="dev-lang/perl
+ dev-perl/Log-Log4perl
+ perl-core/autodie"
+RDEPEND="${DEPEND}
+ sci-biology/seqclean
+ sci-biology/blat
+ sci-biology/bowtie
+ sci-biology/seqclean"
+
+S="${WORKDIR}/${PN}-2.0.5_05"
+
+src_install(){
+ emake install
+ rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/bowtie
+ rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/blat
+ rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/mdust
+}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/rum/
@ 2015-06-05 11:20 Justin Lecher
0 siblings, 0 replies; 4+ messages in thread
From: Justin Lecher @ 2015-06-05 11:20 UTC (permalink / raw
To: gentoo-commits
commit: a24b771a65c03adcef67e3eaefb32aeba790122b
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Jun 5 11:08:31 2015 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Jun 5 11:08:31 2015 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=a24b771a
sci-biology/rum: Add github to remote-id in metadata.xml
Package-Manager: portage-2.2.20
sci-biology/rum/ChangeLog | 3 +++
sci-biology/rum/metadata.xml | 3 +++
2 files changed, 6 insertions(+)
diff --git a/sci-biology/rum/ChangeLog b/sci-biology/rum/ChangeLog
index 3dd7b15..279db7d 100644
--- a/sci-biology/rum/ChangeLog
+++ b/sci-biology/rum/ChangeLog
@@ -2,6 +2,9 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
+ sci-biology/rum: Add github to remote-id in metadata.xml
+
*rum-2.0.5.5 (18 Apr 2015)
18 Apr 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
diff --git a/sci-biology/rum/metadata.xml b/sci-biology/rum/metadata.xml
index 2bc8930..e6b052f 100644
--- a/sci-biology/rum/metadata.xml
+++ b/sci-biology/rum/metadata.xml
@@ -6,4 +6,7 @@
<email>mmokrejs@fold.natur.cuni.cz</email>
<name>Martin Mokrejs</name>
</maintainer>
+ <upstream>
+ <remote-id type="github">itmat/rum/wiki</remote-id>
+ </upstream>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/rum/
@ 2015-06-05 11:20 Justin Lecher
0 siblings, 0 replies; 4+ messages in thread
From: Justin Lecher @ 2015-06-05 11:20 UTC (permalink / raw
To: gentoo-commits
commit: 35c38b15a2dc73ae4e9a62ca1f2d17e37a56d685
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Jun 5 11:12:33 2015 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Jun 5 11:12:33 2015 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=35c38b15
sci-biology/rum: Use perl virtuals, add missing die; use PN for tarball
Package-Manager: portage-2.2.20
sci-biology/rum/ChangeLog | 3 +++
sci-biology/rum/rum-2.0.5.5.ebuild | 14 ++++++--------
2 files changed, 9 insertions(+), 8 deletions(-)
diff --git a/sci-biology/rum/ChangeLog b/sci-biology/rum/ChangeLog
index 279db7d..62ff2bf 100644
--- a/sci-biology/rum/ChangeLog
+++ b/sci-biology/rum/ChangeLog
@@ -2,6 +2,9 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 05 Jun 2015; Justin Lecher <jlec@gentoo.org> rum-2.0.5.5.ebuild:
+ sci-biology/rum: Use perl virtuals, add missing die; use PN for tarball
+
05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
sci-biology/rum: Add github to remote-id in metadata.xml
diff --git a/sci-biology/rum/rum-2.0.5.5.ebuild b/sci-biology/rum/rum-2.0.5.5.ebuild
index c8fc01b..3411f20 100644
--- a/sci-biology/rum/rum-2.0.5.5.ebuild
+++ b/sci-biology/rum/rum-2.0.5.5.ebuild
@@ -8,7 +8,7 @@ inherit perl-module eutils
DESCRIPTION="RNA-Seq Unified Mapper (digital normalization)"
HOMEPAGE="https://github.com/itmat/rum/wiki"
-SRC_URI="https://github.com/itmat/rum/archive/v2.0.5_05.tar.gz"
+SRC_URI="https://github.com/itmat/rum/archive/v2.0.5_05.tar.gz -> ${P}.tar.gz"
# stable
#EGIT_REPO_URI="https://github.com/PGFI/rum/tags"
@@ -21,9 +21,9 @@ SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE=""
-DEPEND="dev-lang/perl
- dev-perl/Log-Log4perl
- perl-core/autodie"
+DEPEND="
+ dev-perl/Log-Log4perl
+ virtual/perl-autodie"
RDEPEND="${DEPEND}
sci-biology/seqclean
sci-biology/blat
@@ -33,8 +33,6 @@ RDEPEND="${DEPEND}
S="${WORKDIR}/${PN}-2.0.5_05"
src_install(){
- emake install
- rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/bowtie
- rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/blat
- rm "${D}"/usr/lib64/perl5/vendor_perl/*/RUM/mdust
+ default
+ rm "${ED}"/usr/lib64/perl5/vendor_perl/*/RUM/{bowtie,blat,mdust} ]] die
}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/rum/
@ 2021-03-06 13:50 Andrew Ammerlaan
0 siblings, 0 replies; 4+ messages in thread
From: Andrew Ammerlaan @ 2021-03-06 13:50 UTC (permalink / raw
To: gentoo-commits
commit: 17d2e58071c5fde0f28798734997a516c40cb12e
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Mar 6 13:49:30 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sat Mar 6 13:49:30 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=17d2e580
sci-biology/rum: EAPI bump
Package-Manager: Portage-3.0.16, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
.../rum/{rum-2.0.5.5.ebuild => rum-2.0.5.06.ebuild} | 19 ++++++-------------
1 file changed, 6 insertions(+), 13 deletions(-)
diff --git a/sci-biology/rum/rum-2.0.5.5.ebuild b/sci-biology/rum/rum-2.0.5.06.ebuild
similarity index 60%
rename from sci-biology/rum/rum-2.0.5.5.ebuild
rename to sci-biology/rum/rum-2.0.5.06.ebuild
index 015bb1499..7234c72e7 100644
--- a/sci-biology/rum/rum-2.0.5.5.ebuild
+++ b/sci-biology/rum/rum-2.0.5.06.ebuild
@@ -1,24 +1,17 @@
-# 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
-inherit perl-module eutils
+inherit perl-module
DESCRIPTION="RNA-Seq Unified Mapper (digital normalization)"
HOMEPAGE="https://github.com/itmat/rum/wiki"
-SRC_URI="https://github.com/itmat/rum/archive/v2.0.5_05.tar.gz -> ${P}.tar.gz"
-
-# stable
-#EGIT_REPO_URI="https://github.com/PGFI/rum/tags"
-
-# dev
-#EGIT_REPO_URI="https://github.com/PGFI/rum"
+SRC_URI="https://github.com/itmat/rum/archive/v$(ver_rs 3-4 _).tar.gz -> ${P}.tar.gz"
LICENSE="UPennState"
SLOT="0"
KEYWORDS="~amd64 ~x86"
-IUSE=""
DEPEND="
dev-perl/Log-Log4perl
@@ -29,9 +22,9 @@ RDEPEND="${DEPEND}
sci-biology/bowtie
sci-biology/seqclean"
-S="${WORKDIR}/${PN}-2.0.5_05"
+S="${WORKDIR}/${PN}-$(ver_rs 3-4 _)"
src_install(){
default
- rm "${ED}"/usr/lib64/perl5/vendor_perl/*/RUM/{bowtie,blat,mdust} ]] die
+ rm "${ED}"/usr/lib64/perl5/vendor_perl/*/RUM/{bowtie,blat,mdust} ]] || die
}
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