* [gentoo-commits] proj/sci:master commit in: sci-biology/trim_galore/
@ 2015-02-24 23:04 Martin Mokrejs
0 siblings, 0 replies; 5+ messages in thread
From: Martin Mokrejs @ 2015-02-24 23:04 UTC (permalink / raw
To: gentoo-commits
commit: 0332b789cf3cc7708353f519155cc504b9a3ce4c
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue Feb 24 23:03:47 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue Feb 24 23:03:47 2015 +0000
URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=0332b789
version bump; installs the simple perl script and PDF doc files
Package-Manager: portage-2.2.15
---
sci-biology/trim_galore/ChangeLog | 8 +++++++-
...trim_galore-0.3.3.ebuild => trim_galore-0.3.7.ebuild} | 16 ++++++++++++----
2 files changed, 19 insertions(+), 5 deletions(-)
diff --git a/sci-biology/trim_galore/ChangeLog b/sci-biology/trim_galore/ChangeLog
index 3dba931..e87a544 100644
--- a/sci-biology/trim_galore/ChangeLog
+++ b/sci-biology/trim_galore/ChangeLog
@@ -1,7 +1,13 @@
# ChangeLog for sci-biology/trim_galore
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*trim_galore-0.3.7 (24 Feb 2015)
+
+ 24 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ +trim_galore-0.3.7.ebuild, -trim_galore-0.3.3.ebuild:
+ version bump; installs the simple perl script and PDF doc files
+
*trim_galore-0.3.3 (23 Mar 2014)
23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
diff --git a/sci-biology/trim_galore/trim_galore-0.3.3.ebuild b/sci-biology/trim_galore/trim_galore-0.3.7.ebuild
similarity index 56%
rename from sci-biology/trim_galore/trim_galore-0.3.3.ebuild
rename to sci-biology/trim_galore/trim_galore-0.3.7.ebuild
index 258ee38..4a0c4bd 100644
--- a/sci-biology/trim_galore/trim_galore-0.3.3.ebuild
+++ b/sci-biology/trim_galore/trim_galore-0.3.7.ebuild
@@ -1,12 +1,12 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: $
EAPI=5
-DESCRIPTION="Wrapper around Cutadapt and FastQC to consistently apply quality and adapter trimming"
-HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/"
-SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v0.3.3.zip"
+DESCRIPTION="Perl wrapper around Cutadapt and FastQC to adapter and quality trimming"
+HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore"
+SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v"${PV}".zip"
LICENSE="GPL-3"
SLOT="0"
@@ -15,6 +15,14 @@ IUSE=""
DEPEND=""
RDEPEND="
+ dev-lang/perl
sci-biology/cutadapt
sci-biology/fastqc
${DEPEND}"
+
+S="${WORKDIR}"/trim_galore_zip
+
+src_install(){
+ dobin trim_galore
+ dodoc *.pdf
+}
^ permalink raw reply related [flat|nested] 5+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/trim_galore/
@ 2023-05-02 12:15 Andrew Ammerlaan
0 siblings, 0 replies; 5+ messages in thread
From: Andrew Ammerlaan @ 2023-05-02 12:15 UTC (permalink / raw
To: gentoo-commits
commit: 3b04c4a1861db57bdc4198ebe2d5c033207035c0
Author: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Tue May 2 12:11:42 2023 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue May 2 12:15:20 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3b04c4a1
sci-biology/trim_galore: treeclean
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>
sci-biology/trim_galore/metadata.xml | 15 --------------
sci-biology/trim_galore/trim_galore-0.6.6.ebuild | 26 ------------------------
2 files changed, 41 deletions(-)
diff --git a/sci-biology/trim_galore/metadata.xml b/sci-biology/trim_galore/metadata.xml
deleted file mode 100644
index ac0e44aa7..000000000
--- a/sci-biology/trim_galore/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">FelixKrueger/TrimGalore</remote-id>
- </upstream>
-</pkgmetadata>
diff --git a/sci-biology/trim_galore/trim_galore-0.6.6.ebuild b/sci-biology/trim_galore/trim_galore-0.6.6.ebuild
deleted file mode 100644
index c99dcfcc6..000000000
--- a/sci-biology/trim_galore/trim_galore-0.6.6.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-DESCRIPTION="Perl wrapper around Cutadapt and FastQC to adapter and quality trimming"
-HOMEPAGE="https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/ https://github.com/FelixKrueger/TrimGalore"
-SRC_URI="https://github.com/FelixKrueger/TrimGalore/archive/${PV}.tar.gz -> ${P}.tar.gz"
-
-LICENSE="GPL-3"
-SLOT="0"
-KEYWORDS="~amd64"
-
-DEPEND=""
-RDEPEND="
- dev-lang/perl
- sci-biology/cutadapt
- sci-biology/fastqc
- ${DEPEND}"
-
-S="${WORKDIR}/TrimGalore-${PV}"
-
-src_install(){
- dobin trim_galore
- dodoc -r Docs
-}
^ permalink raw reply related [flat|nested] 5+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/trim_galore/
@ 2021-01-18 13:19 Andrew Ammerlaan
0 siblings, 0 replies; 5+ messages in thread
From: Andrew Ammerlaan @ 2021-01-18 13:19 UTC (permalink / raw
To: gentoo-commits
commit: aefef87be970eed9b57309b22c2cae0787e1bccc
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Mon Jan 18 13:19:27 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Mon Jan 18 13:19:27 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=aefef87b
sci-biology/trim_galore: version bump 0.6.6, fix fetching
Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
sci-biology/trim_galore/trim_galore-0.4.0.ebuild | 26 ------------------------
sci-biology/trim_galore/trim_galore-0.6.6.ebuild | 26 ++++++++++++++++++++++++
2 files changed, 26 insertions(+), 26 deletions(-)
diff --git a/sci-biology/trim_galore/trim_galore-0.4.0.ebuild b/sci-biology/trim_galore/trim_galore-0.4.0.ebuild
deleted file mode 100644
index 2ef6d591e..000000000
--- a/sci-biology/trim_galore/trim_galore-0.4.0.ebuild
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-DESCRIPTION="Perl wrapper around Cutadapt and FastQC to adapter and quality trimming"
-HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore"
-SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v${PV}.zip"
-LICENSE="GPL-3"
-SLOT="0"
-KEYWORDS=""
-IUSE=""
-
-DEPEND=""
-RDEPEND="
- dev-lang/perl
- sci-biology/cutadapt
- sci-biology/fastqc
- ${DEPEND}"
-
-S="${WORKDIR}"
-
-src_install(){
- dobin trim_galore
- dodoc *.pdf
-}
diff --git a/sci-biology/trim_galore/trim_galore-0.6.6.ebuild b/sci-biology/trim_galore/trim_galore-0.6.6.ebuild
new file mode 100644
index 000000000..c99dcfcc6
--- /dev/null
+++ b/sci-biology/trim_galore/trim_galore-0.6.6.ebuild
@@ -0,0 +1,26 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+DESCRIPTION="Perl wrapper around Cutadapt and FastQC to adapter and quality trimming"
+HOMEPAGE="https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/ https://github.com/FelixKrueger/TrimGalore"
+SRC_URI="https://github.com/FelixKrueger/TrimGalore/archive/${PV}.tar.gz -> ${P}.tar.gz"
+
+LICENSE="GPL-3"
+SLOT="0"
+KEYWORDS="~amd64"
+
+DEPEND=""
+RDEPEND="
+ dev-lang/perl
+ sci-biology/cutadapt
+ sci-biology/fastqc
+ ${DEPEND}"
+
+S="${WORKDIR}/TrimGalore-${PV}"
+
+src_install(){
+ dobin trim_galore
+ dodoc -r Docs
+}
^ permalink raw reply related [flat|nested] 5+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/trim_galore/
@ 2015-05-30 17:58 Martin Mokrejs
0 siblings, 0 replies; 5+ messages in thread
From: Martin Mokrejs @ 2015-05-30 17:58 UTC (permalink / raw
To: gentoo-commits
commit: c254c619a4bbd10dadb401faa5ed80e51d3300e2
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sat May 30 17:57:43 2015 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sat May 30 17:57:43 2015 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=c254c619
sci-biology/trim_galore: version bump; ajusted S variable to match current upstream's packaging habit; still needs fastqc package to be finished
Package-Manager: portage-2.2.18
sci-biology/trim_galore/ChangeLog | 7 +++++++
.../{trim_galore-0.3.7.ebuild => trim_galore-0.4.0.ebuild} | 5 ++---
2 files changed, 9 insertions(+), 3 deletions(-)
diff --git a/sci-biology/trim_galore/ChangeLog b/sci-biology/trim_galore/ChangeLog
index e87a544..6cb3dfe 100644
--- a/sci-biology/trim_galore/ChangeLog
+++ b/sci-biology/trim_galore/ChangeLog
@@ -2,6 +2,13 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*trim_galore-0.4.0 (30 May 2015)
+
+ 30 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+ +trim_galore-0.4.0.ebuild, -trim_galore-0.3.7.ebuild:
+ sci-biology/trim_galore: version bump; ajusted S variable to match current
+ upstream's packaging habit; still needs fastqc package to be finished
+
*trim_galore-0.3.7 (24 Feb 2015)
24 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
diff --git a/sci-biology/trim_galore/trim_galore-0.3.7.ebuild b/sci-biology/trim_galore/trim_galore-0.4.0.ebuild
similarity index 89%
rename from sci-biology/trim_galore/trim_galore-0.3.7.ebuild
rename to sci-biology/trim_galore/trim_galore-0.4.0.ebuild
index 4a0c4bd..f27f48a 100644
--- a/sci-biology/trim_galore/trim_galore-0.3.7.ebuild
+++ b/sci-biology/trim_galore/trim_galore-0.4.0.ebuild
@@ -6,8 +6,7 @@ EAPI=5
DESCRIPTION="Perl wrapper around Cutadapt and FastQC to adapter and quality trimming"
HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore"
-SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v"${PV}".zip"
-
+SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v${PV}.zip"
LICENSE="GPL-3"
SLOT="0"
KEYWORDS=""
@@ -20,7 +19,7 @@ RDEPEND="
sci-biology/fastqc
${DEPEND}"
-S="${WORKDIR}"/trim_galore_zip
+S="${WORKDIR}"
src_install(){
dobin trim_galore
^ permalink raw reply related [flat|nested] 5+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/trim_galore/
@ 2014-03-23 17:09 Martin Mokrejs
0 siblings, 0 replies; 5+ messages in thread
From: Martin Mokrejs @ 2014-03-23 17:09 UTC (permalink / raw
To: gentoo-commits
commit: 2ae4310a77950f476976a7556b8291a1ad8291ba
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sun Mar 23 17:08:10 2014 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sun Mar 23 17:08:10 2014 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=2ae4310a
sci-biology/trim_galore: a skeleton for a new package, needs sci-biology/fastqc to move ahead
Package-Manager: portage-2.2.7
---
sci-biology/trim_galore/ChangeLog | 10 ++++++++++
sci-biology/trim_galore/metadata.xml | 9 +++++++++
sci-biology/trim_galore/trim_galore-0.3.3.ebuild | 20 ++++++++++++++++++++
3 files changed, 39 insertions(+)
diff --git a/sci-biology/trim_galore/ChangeLog b/sci-biology/trim_galore/ChangeLog
new file mode 100644
index 0000000..3dba931
--- /dev/null
+++ b/sci-biology/trim_galore/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/trim_galore
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*trim_galore-0.3.3 (23 Mar 2014)
+
+ 23 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
+ +trim_galore-0.3.3.ebuild:
+ sci-biology/trim_galore: a skeleton for a new package, needs sci-
+ biology/fastqc to move ahead
diff --git a/sci-biology/trim_galore/metadata.xml b/sci-biology/trim_galore/metadata.xml
new file mode 100644
index 0000000..07b5255
--- /dev/null
+++ b/sci-biology/trim_galore/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/trim_galore/trim_galore-0.3.3.ebuild b/sci-biology/trim_galore/trim_galore-0.3.3.ebuild
new file mode 100644
index 0000000..258ee38
--- /dev/null
+++ b/sci-biology/trim_galore/trim_galore-0.3.3.ebuild
@@ -0,0 +1,20 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+DESCRIPTION="Wrapper around Cutadapt and FastQC to consistently apply quality and adapter trimming"
+HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/"
+SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v0.3.3.zip"
+
+LICENSE="GPL-3"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+DEPEND=""
+RDEPEND="
+ sci-biology/cutadapt
+ sci-biology/fastqc
+ ${DEPEND}"
^ permalink raw reply related [flat|nested] 5+ messages in thread
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