[gentoo-commits] proj/sci:master commit in: sci-biology/scythe/

[gentoo-commits] proj/sci:master commit in: sci-biology/scythe/

[Martin Mokrejs]

commit:     0272e6869c544d92b7d4f585ba1987fa6db1e8b3
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Mon Mar 24 00:39:36 2014 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Mar 24 00:39:36 2014 +0000
URL:        http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=0272e686

sci-biology/scythe: new package, bundled Makefile forces -O3, wrong version number, but works

---
 sci-biology/scythe/ChangeLog           | 10 ++++++++++
 sci-biology/scythe/metadata.xml        |  9 +++++++++
 sci-biology/scythe/scythe-0.992.ebuild | 26 ++++++++++++++++++++++++++
 3 files changed, 45 insertions(+)

diff --git a/sci-biology/scythe/ChangeLog b/sci-biology/scythe/ChangeLog
new file mode 100644
index 0000000..679d1b1
--- /dev/null
+++ b/sci-biology/scythe/ChangeLog
@@ -0,0 +1,10 @@
+# ChangeLog for sci-biology/scythe
+# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*scythe-0.992 (24 Mar 2014)
+
+  24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+  +scythe-0.992.ebuild, +metadata.xml:
+  bundled Makefile forces -O3, wrong version number, but works
+

diff --git a/sci-biology/scythe/metadata.xml b/sci-biology/scythe/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/scythe/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/scythe/scythe-0.992.ebuild b/sci-biology/scythe/scythe-0.992.ebuild
new file mode 100644
index 0000000..608ac3f
--- /dev/null
+++ b/sci-biology/scythe/scythe-0.992.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 eutils git-r3
+
+DESCRIPTION="Bayesian adapter trimmer for Illumina/Solexa"
+HOMEPAGE="https://github.com/vsbuffalo/scythe"
+EGIT_REPO_URI="https://github.com/vsbuffalo/scythe"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}
+	sys-libs/zlib"
+
+src_install(){
+	dobin scythe
+	dodoc README.md
+	dodoc illumina_adapters.fa
+}

[gentoo-commits] proj/sci:master commit in: sci-biology/scythe/

[Justin Lecher]

commit:     f3b0e9a370045712309c270513135df689d8a026
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Jun  5 11:12:52 2015 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Jun  5 11:12:52 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=f3b0e9a3

sci-biology/scythe: Add github to remote-id in metadata.xml

Package-Manager: portage-2.2.20

 sci-biology/scythe/ChangeLog    | 6 ++++--
 sci-biology/scythe/metadata.xml | 3 +++
 2 files changed, 7 insertions(+), 2 deletions(-)

diff --git a/sci-biology/scythe/ChangeLog b/sci-biology/scythe/ChangeLog
index 679d1b1..d577319 100644
--- a/sci-biology/scythe/ChangeLog
+++ b/sci-biology/scythe/ChangeLog
@@ -1,10 +1,12 @@
 # ChangeLog for sci-biology/scythe
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+  05 Jun 2015; Justin Lecher <jlec@gentoo.org> metadata.xml:
+  sci-biology/scythe: Add github to remote-id in metadata.xml
+
 *scythe-0.992 (24 Mar 2014)
 
   24 Mar 2014; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
   +scythe-0.992.ebuild, +metadata.xml:
   bundled Makefile forces -O3, wrong version number, but works
-

diff --git a/sci-biology/scythe/metadata.xml b/sci-biology/scythe/metadata.xml
index 2bc8930..540814e 100644
--- a/sci-biology/scythe/metadata.xml
+++ b/sci-biology/scythe/metadata.xml
@@ -6,4 +6,7 @@
     <email>mmokrejs@fold.natur.cuni.cz</email>
     <name>Martin Mokrejs</name>
   </maintainer>
+  <upstream>
+    <remote-id type="github">vsbuffalo/scythe</remote-id>
+  </upstream>
 </pkgmetadata>

[gentoo-commits] proj/sci:master commit in: sci-biology/scythe/

[Martin Mokrejs]

commit:     3ebfc205e78caba8d9fc74022e398fb4c1fb96fd
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Thu Mar 17 09:39:36 2016 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Thu Mar 17 09:39:36 2016 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=3ebfc205

sci-biology/scythe: improve DESCRIPTION

Package-Manager: portage-2.2.26

 sci-biology/scythe/scythe-0.992.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-biology/scythe/scythe-0.992.ebuild b/sci-biology/scythe/scythe-0.992.ebuild
index 1ff2754..fd35791 100644
--- a/sci-biology/scythe/scythe-0.992.ebuild
+++ b/sci-biology/scythe/scythe-0.992.ebuild
@@ -6,7 +6,7 @@ EAPI=5
 
 inherit eutils git-r3
 
-DESCRIPTION="Bayesian adapter trimmer for Illumina/Solexa"
+DESCRIPTION="Bayesian 3'-end adapter (only) trimmer for Illumina/Solexa"
 HOMEPAGE="https://github.com/vsbuffalo/scythe"
 EGIT_REPO_URI="https://github.com/vsbuffalo/scythe"
 

[gentoo-commits] proj/sci:master commit in: sci-biology/scythe/

[Andrew Ammerlaan]

commit:     5abc5fcb04376b3ccd55c1d74d6cc1e89e4c6972
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Mar  6 14:01:54 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sat Mar  6 14:01:54 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=5abc5fcb

sci-biology/scythe: EAPI bump

mark this live ebuild as a live ebuild

Package-Manager: Portage-3.0.16, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>

 .../scythe/{scythe-0.992.ebuild => scythe-9999.ebuild}   | 16 ++++++++--------
 1 file changed, 8 insertions(+), 8 deletions(-)

diff --git a/sci-biology/scythe/scythe-0.992.ebuild b/sci-biology/scythe/scythe-9999.ebuild
similarity index 71%
rename from sci-biology/scythe/scythe-0.992.ebuild
rename to sci-biology/scythe/scythe-9999.ebuild
index 1ae6fddf7..d2f051ef1 100644
--- a/sci-biology/scythe/scythe-0.992.ebuild
+++ b/sci-biology/scythe/scythe-9999.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=5
+EAPI=7
 
-inherit eutils git-r3
+inherit git-r3
 
 DESCRIPTION="Bayesian 3'-end adapter (only) trimmer for Illumina/Solexa"
 HOMEPAGE="https://github.com/vsbuffalo/scythe"
@@ -11,12 +11,12 @@ EGIT_REPO_URI="https://github.com/vsbuffalo/scythe"
 
 LICENSE="MIT"
 SLOT="0"
-KEYWORDS="~amd64"
-IUSE=""
+KEYWORDS=""
 
-DEPEND=""
-RDEPEND="${DEPEND}
-	sys-libs/zlib"
+RESTRICT="test"
+
+DEPEND="sys-libs/zlib"
+RDEPEND="${DEPEND}"
 
 src_install(){
 	dobin scythe