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

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

[Martin Mokrejs]

commit:     b4e77f4cf03a055b7af8a2566bc1252590da2662
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Thu Mar 31 21:57:29 2016 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Thu Mar 31 21:57:29 2016 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=b4e77f4c

sci-biology/karect: new package

Package-Manager: portage-2.2.28

 sci-biology/karect/karect-1.0.0.ebuild | 33 +++++++++++++++++++++++++++++++++
 sci-biology/karect/metadata.xml        | 12 ++++++++++++
 2 files changed, 45 insertions(+)

diff --git a/sci-biology/karect/karect-1.0.0.ebuild b/sci-biology/karect/karect-1.0.0.ebuild
new file mode 100644
index 0000000..9189910
--- /dev/null
+++ b/sci-biology/karect/karect-1.0.0.ebuild
@@ -0,0 +1,33 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit toolchain-funcs
+
+DESCRIPTION="Correct mismatches and indels of raw reads incl. paired-end"
+HOMEPAGE="https://github.com/aminallam/karect
+	http://bioinformatics.oxfordjournals.org/content/31/21/3421.abstract"
+SRC_URI="https://codeload.github.com/aminallam/karect/legacy.tar.gz/master -> karect-1.0.0.tar.gz"
+# actually fetches aminallam-karect-v1.0-0-gba3ad54.tar.gz
+# https://github.com/aminallam/karect.git
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}"
+
+S="${WORKDIR}"/aminallam-karect-ba3ad54/
+
+src_compile(){
+	$(tc-getCXX) ${CXXFLAGS} -pthread -lpthread karect.cpp -o karect || die
+}
+
+src_install(){
+	dobin karect
+	dodoc karect_manual.pdf README README.md
+}

diff --git a/sci-biology/karect/metadata.xml b/sci-biology/karect/metadata.xml
new file mode 100644
index 0000000..f68a1b6
--- /dev/null
+++ b/sci-biology/karect/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>

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

[Martin Mokrejs]

commit:     5d984c55e23a14a93b75a09f691cdf98933af18d
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sun Jan 29 18:56:33 2017 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sun Jan 29 18:56:33 2017 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=5d984c55

sci-biology/karect: improve DESCRIPTION line

Package-Manager: Portage-2.3.3, Repoman-2.3.1

 sci-biology/karect/karect-1.0.0.ebuild | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/sci-biology/karect/karect-1.0.0.ebuild b/sci-biology/karect/karect-1.0.0.ebuild
index 9189910..a1d8654 100644
--- a/sci-biology/karect/karect-1.0.0.ebuild
+++ b/sci-biology/karect/karect-1.0.0.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2017 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Id$
 
@@ -6,7 +6,7 @@ EAPI=5
 
 inherit toolchain-funcs
 
-DESCRIPTION="Correct mismatches and indels of raw reads incl. paired-end"
+DESCRIPTION="Error-correct mismatches and InDels of raw reads incl. paired-end"
 HOMEPAGE="https://github.com/aminallam/karect
 	http://bioinformatics.oxfordjournals.org/content/31/21/3421.abstract"
 SRC_URI="https://codeload.github.com/aminallam/karect/legacy.tar.gz/master -> karect-1.0.0.tar.gz"

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

[Andrew Ammerlaan]

commit:     d7e2414e5b8a9bb47aff10aba7da04ed25e298ac
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Mar  6 11:37:07 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sat Mar  6 11:37:07 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=d7e2414e

sci-biology/karect: EAPI bump

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

 sci-biology/karect/{karect-1.0.0.ebuild => karect-1.0.ebuild} | 9 +++------
 1 file changed, 3 insertions(+), 6 deletions(-)

diff --git a/sci-biology/karect/karect-1.0.0.ebuild b/sci-biology/karect/karect-1.0.ebuild
similarity index 76%
rename from sci-biology/karect/karect-1.0.0.ebuild
rename to sci-biology/karect/karect-1.0.ebuild
index ddb015dbc..2360395ba 100644
--- a/sci-biology/karect/karect-1.0.0.ebuild
+++ b/sci-biology/karect/karect-1.0.ebuild
@@ -1,27 +1,24 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=5
+EAPI=7
 
 inherit toolchain-funcs
 
 DESCRIPTION="Error-correct mismatches and InDels of raw reads incl. paired-end"
 HOMEPAGE="https://github.com/aminallam/karect
 	http://bioinformatics.oxfordjournals.org/content/31/21/3421.abstract"
-SRC_URI="https://codeload.github.com/aminallam/karect/legacy.tar.gz/master -> karect-1.0.0.tar.gz"
+SRC_URI="https://github.com/aminallam/karect/archive/v${PV}.tar.gz -> ${P}.tar.gz"
 # actually fetches aminallam-karect-v1.0-0-gba3ad54.tar.gz
 # https://github.com/aminallam/karect.git
 
 LICENSE="GPL-2"
 SLOT="0"
 KEYWORDS="~amd64"
-IUSE=""
 
 DEPEND=""
 RDEPEND="${DEPEND}"
 
-S="${WORKDIR}"/aminallam-karect-ba3ad54/
-
 src_compile(){
 	$(tc-getCXX) ${CXXFLAGS} -pthread -lpthread karect.cpp -o karect || die
 }