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commit: 61dd48b0c1dc243678bc613f51ab3aedd6e13ba7 |
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Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Thu Apr 30 22:46:51 2015 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Thu Apr 30 22:46:51 2015 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=61dd48b0 |
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|
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sci-biology/Trinotate: new package |
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|
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Package-Manager: portage-2.2.18 |
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|
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sci-biology/Trinotate/ChangeLog | 9 ++++++ |
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sci-biology/Trinotate/Trinotate-2.0.1.ebuild | 45 ++++++++++++++++++++++++++++ |
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sci-biology/Trinotate/metadata.xml | 9 ++++++ |
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3 files changed, 63 insertions(+) |
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|
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diff --git a/sci-biology/Trinotate/ChangeLog b/sci-biology/Trinotate/ChangeLog |
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new file mode 100644 |
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index 0000000..4ef519a |
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--- /dev/null |
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+++ b/sci-biology/Trinotate/ChangeLog |
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@@ -0,0 +1,9 @@ |
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+# ChangeLog for sci-biology/Trinotate |
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+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 |
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+# $Header: $ |
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+ |
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+*Trinotate-2.0.1 (30 Apr 2015) |
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+ |
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+ 30 Apr 2015; Martin Mokrejs <mmokrejs@×××××××××××××××.cz> |
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+ +Trinotate-2.0.1.ebuild, +metadata.xml: |
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+ sci-biology/Trinotate: new package |
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|
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diff --git a/sci-biology/Trinotate/Trinotate-2.0.1.ebuild b/sci-biology/Trinotate/Trinotate-2.0.1.ebuild |
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new file mode 100644 |
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index 0000000..8665fb4 |
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--- /dev/null |
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+++ b/sci-biology/Trinotate/Trinotate-2.0.1.ebuild |
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@@ -0,0 +1,45 @@ |
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+# Copyright 1999-2015 Gentoo Foundation |
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+# Distributed under the terms of the GNU General Public License v2 |
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+# $Header: $ |
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+ |
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+EAPI=5 |
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+ |
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+PERL_EXPORT_PHASE_FUNCTIONS=no |
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+inherit perl-module eutils toolchain-funcs |
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+ |
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+DESCRIPTION="Annotation and analysis pipeline for de novo assembled transcriptomes" |
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+HOMEPAGE="http://trinotate.github.io" |
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+SRC_URI="https://github.com/Trinotate/Trinotate/archive/v${PV}.tar.gz" |
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+ |
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+LICENSE="BSD-BroadInstitute" |
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+SLOT="0" |
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+KEYWORDS="~amd64" |
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+IUSE="" |
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+ |
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+DEPEND="" |
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+RDEPEND="${DEPEND} |
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+ sci-biology/ncbi-tools++ |
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+ sci-biology/trinityrnaseq |
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+ sci-biology/TransDecoder" |
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+ |
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+# http://www.cbs.dtu.dk/cgi-bin/sw_request?rnammer |
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+# >=sci-biology/rnammer-2.3.2 |
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+# |
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+# http://www.cbs.dtu.dk/cgi-bin/nph-sw_request?signalp |
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+# >=sci-biology/signalp-4 |
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+# |
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+# http://www.cbs.dtu.dk/cgi-bin/nph-sw_request?tmhmm |
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+ |
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+# We suggest you rename this version of hmmsearch from hmmer-2 package to 'hmmsearch2'. |
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+# In the 'rnammer' software configuration, edit the rnammer script to point |
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+# $HMMSEARCH_BINARY = "/path/to/hmmsearch2"; |
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+ |
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+src_install(){ |
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+ perl_set_version |
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+ dobin Trinotate |
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+ insinto /usr/share/"${PN}" |
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+ doins -r admin java sample_data util TrinotateWeb |
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+ insinto ${VENDOR_LIB}/${PN} |
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+ doins -r PerlLib/* |
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+ dodoc Release.Notes |
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+} |
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|
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diff --git a/sci-biology/Trinotate/metadata.xml b/sci-biology/Trinotate/metadata.xml |
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new file mode 100644 |
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index 0000000..2bc8930 |
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--- /dev/null |
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+++ b/sci-biology/Trinotate/metadata.xml |
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@@ -0,0 +1,9 @@ |
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+<?xml version="1.0" encoding="UTF-8"?> |
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+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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+<pkgmetadata> |
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+ <herd>sci-biology</herd> |
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+ <maintainer> |
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+ <email>mmokrejs@×××××××××××××××.cz</email> |
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+ <name>Martin Mokrejs</name> |
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+ </maintainer> |
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+</pkgmetadata> |
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