* [gentoo-commits] proj/sci:master commit in: sci-biology/Scaffolder-evaluation/
@ 2016-04-10 13:22 Martin Mokrejs
0 siblings, 0 replies; 4+ messages in thread
From: Martin Mokrejs @ 2016-04-10 13:22 UTC (permalink / raw
To: gentoo-commits
commit: 3106f99effce070e746c05216c333e15e241c79f
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sun Apr 10 13:19:23 2016 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sun Apr 10 13:19:23 2016 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3106f99e
sci-biology/Scaffolder-evaluation: new package
Package-Manager: portage-2.2.28
.../Scaffolder-evaluation-9999.ebuild | 34 ++++++++++++++++++++++
sci-biology/Scaffolder-evaluation/metadata.xml | 12 ++++++++
2 files changed, 46 insertions(+)
diff --git a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
new file mode 100644
index 0000000..746863a
--- /dev/null
+++ b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
@@ -0,0 +1,34 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+inherit git-r3
+
+DESCRIPTION="Scripts to run genome assembly scaffolding tools and analyse output for accuracy"
+HOMEPAGE="https://github.com/martinghunt/Scaffolder-evaluation
+ http://genomebiology.com/2014/15/3/R42"
+EGIT_REPO_URI="https://github.com/martinghunt/Scaffolder-evaluation.git"
+
+LICENSE="GPL-3"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}
+ dev-lang/perl
+ dev-lang/python
+ dev-lang/R
+ media-gfx/graphviz
+ sci-biology/mummer
+ sci-biology/bowtie
+ sci-biology/samtools
+ sci-biology/ncbi-tools
+ sci-biology/Fastaq"
+
+src_install(){
+ dobin Analysis-scripts/* Wrapper-scripts/*
+ dodoc README.md
+}
diff --git a/sci-biology/Scaffolder-evaluation/metadata.xml b/sci-biology/Scaffolder-evaluation/metadata.xml
new file mode 100644
index 0000000..f68a1b6
--- /dev/null
+++ b/sci-biology/Scaffolder-evaluation/metadata.xml
@@ -0,0 +1,12 @@
+<?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>
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/Scaffolder-evaluation/
@ 2021-02-13 10:54 Andrew Ammerlaan
0 siblings, 0 replies; 4+ messages in thread
From: Andrew Ammerlaan @ 2021-02-13 10:54 UTC (permalink / raw
To: gentoo-commits
commit: b8539295143cbbfcf4a3006fafa7080b7a1efac9
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Feb 13 10:54:23 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sat Feb 13 10:54:23 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=b8539295
sci-biology/Scaffolder-evaluation: correctly depend on python
Package-Manager: Portage-3.0.14, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
.../Scaffolder-evaluation-9999.ebuild | 23 +++++++++++++---------
1 file changed, 14 insertions(+), 9 deletions(-)
diff --git a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
index 298dc7b22..e6c7578fa 100644
--- a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
+++ b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
@@ -1,33 +1,38 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=6
+EAPI=7
-inherit git-r3
+PYTHON_COMPAT=( python3_{7,8,9} )
+
+inherit python-r1 perl-functions git-r3
DESCRIPTION="Scripts to run genome assembly scaffolding tools and analyse output for accuracy"
HOMEPAGE="https://github.com/martinghunt/Scaffolder-evaluation
- http://genomebiology.com/2014/15/3/R42"
+ https://genomebiology.biomedcentral.com/articles/10.1186/gb-2014-15-3-r42"
EGIT_REPO_URI="https://github.com/martinghunt/Scaffolder-evaluation.git"
LICENSE="GPL-3"
SLOT="0"
KEYWORDS=""
-IUSE=""
-DEPEND=""
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+DEPEND="${PYTHON_DPES}"
RDEPEND="${DEPEND}
dev-lang/perl
- dev-lang/python
dev-lang/R
media-gfx/graphviz
sci-biology/mummer
sci-biology/bowtie
sci-biology/samtools
sci-biology/ncbi-tools
- sci-biology/Fastaq"
+ sci-biology/Fastaq[${PYTHON_USEDEP}]
+"
src_install(){
- dobin Analysis-scripts/* Wrapper-scripts/*
+ python_foreach_impl python_doscript Analysis-scripts/*.py
+ dobin Analysis-scripts/*.sh
+ perl_domodule Wrapper-scripts/*
dodoc README.md
}
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/Scaffolder-evaluation/
@ 2021-02-13 11:34 Andrew Ammerlaan
0 siblings, 0 replies; 4+ messages in thread
From: Andrew Ammerlaan @ 2021-02-13 11:34 UTC (permalink / raw
To: gentoo-commits
commit: 87893ee728847969b6c1923ed8b9c0d982a39b6a
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Feb 13 11:34:28 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sat Feb 13 11:34:28 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=87893ee7
sci-biology/Scaffolder-evaluation: fix small typo
Package-Manager: Portage-3.0.14, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
index e6c7578fa..4e291ece2 100644
--- a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
+++ b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
@@ -18,7 +18,7 @@ KEYWORDS=""
REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-DEPEND="${PYTHON_DPES}"
+DEPEND="${PYTHON_DEPS}"
RDEPEND="${DEPEND}
dev-lang/perl
dev-lang/R
^ permalink raw reply related [flat|nested] 4+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/Scaffolder-evaluation/
@ 2021-08-31 9:24 Andrew Ammerlaan
0 siblings, 0 replies; 4+ messages in thread
From: Andrew Ammerlaan @ 2021-08-31 9:24 UTC (permalink / raw
To: gentoo-commits
commit: edf2691cf2c7787a766dbd1a8b1083448f693a9d
Author: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Tue Aug 31 09:21:53 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue Aug 31 09:21:53 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=edf2691c
sci-biology/Scaffolder-evaluation: remove last-rited pack
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>
.../Scaffolder-evaluation-9999.ebuild | 38 ----------------------
sci-biology/Scaffolder-evaluation/metadata.xml | 15 ---------
2 files changed, 53 deletions(-)
diff --git a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild b/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
deleted file mode 100644
index 4e291ece2..000000000
--- a/sci-biology/Scaffolder-evaluation/Scaffolder-evaluation-9999.ebuild
+++ /dev/null
@@ -1,38 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-PYTHON_COMPAT=( python3_{7,8,9} )
-
-inherit python-r1 perl-functions git-r3
-
-DESCRIPTION="Scripts to run genome assembly scaffolding tools and analyse output for accuracy"
-HOMEPAGE="https://github.com/martinghunt/Scaffolder-evaluation
- https://genomebiology.biomedcentral.com/articles/10.1186/gb-2014-15-3-r42"
-EGIT_REPO_URI="https://github.com/martinghunt/Scaffolder-evaluation.git"
-
-LICENSE="GPL-3"
-SLOT="0"
-KEYWORDS=""
-
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-DEPEND="${PYTHON_DEPS}"
-RDEPEND="${DEPEND}
- dev-lang/perl
- dev-lang/R
- media-gfx/graphviz
- sci-biology/mummer
- sci-biology/bowtie
- sci-biology/samtools
- sci-biology/ncbi-tools
- sci-biology/Fastaq[${PYTHON_USEDEP}]
-"
-
-src_install(){
- python_foreach_impl python_doscript Analysis-scripts/*.py
- dobin Analysis-scripts/*.sh
- perl_domodule Wrapper-scripts/*
- dodoc README.md
-}
diff --git a/sci-biology/Scaffolder-evaluation/metadata.xml b/sci-biology/Scaffolder-evaluation/metadata.xml
deleted file mode 100644
index 337db209e..000000000
--- a/sci-biology/Scaffolder-evaluation/metadata.xml
+++ /dev/null
@@ -1,15 +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>
- <upstream>
- <remote-id type="github">martinghunt/Scaffolder-evaluation</remote-id>
- </upstream>
-</pkgmetadata>
^ permalink raw reply related [flat|nested] 4+ messages in thread
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