* [gentoo-commits] proj/sci:master commit in: sci-biology/nesoni/
@ 2014-04-15 8:56 Martin Mokrejs
0 siblings, 0 replies; 3+ messages in thread
From: Martin Mokrejs @ 2014-04-15 8:56 UTC (permalink / raw
To: gentoo-commits
commit: e6aadf2268b6d9cb675653b9c8e3717ca2597298
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Apr 15 08:55:06 2014 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Apr 15 08:55:06 2014 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e6aadf22
sci-biology/nesoni: new package, needs some dev-lang/R -based packages to be installed
Package-Manager: portage-2.2.7
---
sci-biology/nesoni/ChangeLog | 10 ++++++++++
sci-biology/nesoni/metadata.xml | 9 +++++++++
sci-biology/nesoni/nesoni-0.117.ebuild | 33 +++++++++++++++++++++++++++++++++
3 files changed, 52 insertions(+)
diff --git a/sci-biology/nesoni/ChangeLog b/sci-biology/nesoni/ChangeLog
new file mode 100644
index 0000000..1e9ab42
--- /dev/null
+++ b/sci-biology/nesoni/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/nesoni
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*nesoni-0.117 (15 Apr 2014)
+
+ 15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
+ +nesoni-0.117.ebuild:
+ sci-biology/nesoni: new package, needs some dev-lang/R -based packages to be
+ installed
diff --git a/sci-biology/nesoni/metadata.xml b/sci-biology/nesoni/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/nesoni/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/nesoni/nesoni-0.117.ebuild b/sci-biology/nesoni/nesoni-0.117.ebuild
new file mode 100644
index 0000000..9f14d79
--- /dev/null
+++ b/sci-biology/nesoni/nesoni-0.117.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit distutils-r1 eutils
+
+DESCRIPTION="Analysis package for next-generation sequencing data and prepare for IGV display"
+HOMEPAGE="http://www.vicbioinformatics.com/software.nesoni.shtml"
+SRC_URI="http://www.vicbioinformatics.com/"${P}".tar.gz"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}
+ sci-biology/shrimp
+ sci-biology/bowtie
+ sci-biology/mummer
+ sci-biology/biopython
+ sci-biology/picard
+ dev-lang/R"
+
+ # sci-biology/freebayes
+ # SplitsTree4
+ # BioConductor (limma, edgeR, goseq)
+ # seriation
+ # NMF
^ permalink raw reply related [flat|nested] 3+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/nesoni/
@ 2015-01-08 12:49 Martin Mokrejs
0 siblings, 0 replies; 3+ messages in thread
From: Martin Mokrejs @ 2015-01-08 12:49 UTC (permalink / raw
To: gentoo-commits
commit: 195995fe9501d3f96fb48cfd8fee356d0e4b8639
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Thu Jan 8 12:47:51 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Thu Jan 8 12:47:51 2015 +0000
URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=195995fe
sci-biology/nesoni: version bump
Package-Manager: portage-2.2.7
---
sci-biology/nesoni/ChangeLog | 8 +++++++-
sci-biology/nesoni/{nesoni-0.117.ebuild => nesoni-0.128.ebuild} | 4 ++--
2 files changed, 9 insertions(+), 3 deletions(-)
diff --git a/sci-biology/nesoni/ChangeLog b/sci-biology/nesoni/ChangeLog
index 1e9ab42..330016e 100644
--- a/sci-biology/nesoni/ChangeLog
+++ b/sci-biology/nesoni/ChangeLog
@@ -1,7 +1,13 @@
# ChangeLog for sci-biology/nesoni
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*nesoni-0.128 (08 Jan 2015)
+
+ 08 Jan 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ +nesoni-0.128.ebuild, -nesoni-0.117.ebuild:
+ sci-biology/nesoni: version bump
+
*nesoni-0.117 (15 Apr 2014)
15 Apr 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
diff --git a/sci-biology/nesoni/nesoni-0.117.ebuild b/sci-biology/nesoni/nesoni-0.128.ebuild
similarity index 88%
rename from sci-biology/nesoni/nesoni-0.117.ebuild
rename to sci-biology/nesoni/nesoni-0.128.ebuild
index 9f14d79..96497e3 100644
--- a/sci-biology/nesoni/nesoni-0.117.ebuild
+++ b/sci-biology/nesoni/nesoni-0.128.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: $
@@ -27,7 +27,7 @@ RDEPEND="${DEPEND}
dev-lang/R"
# sci-biology/freebayes
- # SplitsTree4
+ # SplitsTree4 http://www.splitstree.org/
# BioConductor (limma, edgeR, goseq)
# seriation
# NMF
^ permalink raw reply related [flat|nested] 3+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/nesoni/
@ 2020-09-27 7:48 Horea Christian
0 siblings, 0 replies; 3+ messages in thread
From: Horea Christian @ 2020-09-27 7:48 UTC (permalink / raw
To: gentoo-commits
commit: 881e4dfb05d5743b030dcc678b98b56a95bb5322
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sun Sep 27 07:47:04 2020 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sun Sep 27 07:47:04 2020 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=881e4dfb
sci-biology/nesoni: removed package with deprecated dep
sci-biology/shrimp is dead upstream and will be pulled from ::gentoo
https://bugs.gentoo.org/735440
Package-Manager: Portage-3.0.8, Repoman-3.0.1
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/nesoni/metadata.xml | 12 ------------
sci-biology/nesoni/nesoni-0.128.ebuild | 32 --------------------------------
2 files changed, 44 deletions(-)
diff --git a/sci-biology/nesoni/metadata.xml b/sci-biology/nesoni/metadata.xml
deleted file mode 100644
index 138cb7705..000000000
--- a/sci-biology/nesoni/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
- <maintainer type="person">
- <email>mmokrejs@fold.natur.cuni.cz</email>
- <name>Martin Mokrejs</name>
- </maintainer>
- <maintainer type="project">
- <email>sci-biology@gentoo.org</email>
- <name>Gentoo Biology Project</name>
- </maintainer>
-</pkgmetadata>
diff --git a/sci-biology/nesoni/nesoni-0.128.ebuild b/sci-biology/nesoni/nesoni-0.128.ebuild
deleted file mode 100644
index 096214e35..000000000
--- a/sci-biology/nesoni/nesoni-0.128.ebuild
+++ /dev/null
@@ -1,32 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit distutils-r1 eutils
-
-DESCRIPTION="Analysis package for next-generation sequencing data and prepare for IGV display"
-HOMEPAGE="http://www.vicbioinformatics.com/software.nesoni.shtml"
-SRC_URI="http://www.vicbioinformatics.com/"${P}".tar.gz"
-
-LICENSE="GPL-2"
-SLOT="0"
-KEYWORDS="~amd64"
-IUSE=""
-
-DEPEND=""
-RDEPEND="${DEPEND}
- sci-biology/shrimp
- sci-biology/bowtie
- sci-biology/mummer
- sci-biology/biopython
- sci-biology/picard
- dev-lang/R"
-
- # sci-biology/freebayes
- # SplitsTree4 http://www.splitstree.org/
- # BioConductor (limma, edgeR, goseq)
- # seriation
- # NMF
^ permalink raw reply related [flat|nested] 3+ messages in thread
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