Gentoo Archives: gentoo-commits

From: Martin Mokrejs <mmokrejs@×××××××××××××××.cz>
To: gentoo-commits@l.g.o
Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/act-bin/
Date: Wed, 30 Mar 2016 14:26:38
Message-Id: 1459347524.aeb330b5d14397ab0a558befd4ff1434a6835e91.mmokrejs@gentoo
1 commit: aeb330b5d14397ab0a558befd4ff1434a6835e91
2 Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
3 AuthorDate: Wed Mar 30 14:18:44 2016 +0000
4 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
5 CommitDate: Wed Mar 30 14:18:44 2016 +0000
6 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=aeb330b5
7
8 sci-biology/act-bin: new java package with upstream binaries
9
10 Package-Manager: portage-2.2.28
11
12 sci-biology/act-bin/act-bin-13.0.0.ebuild | 50 +++++++++++++++++++++++++++++++
13 sci-biology/act-bin/metadata.xml | 12 ++++++++
14 2 files changed, 62 insertions(+)
15
16 diff --git a/sci-biology/act-bin/act-bin-13.0.0.ebuild b/sci-biology/act-bin/act-bin-13.0.0.ebuild
17 new file mode 100644
18 index 0000000..debf770
19 --- /dev/null
20 +++ b/sci-biology/act-bin/act-bin-13.0.0.ebuild
21 @@ -0,0 +1,50 @@
22 +# Copyright 1999-2016 Gentoo Foundation
23 +# Distributed under the terms of the GNU General Public License v2
24 +# $Id$
25 +
26 +EAPI=6
27 +
28 +inherit java-pkg-2
29 +
30 +DESCRIPTION="DNA contig sequence comparison tool supplementing Artemis"
31 +HOMEPAGE="http://www.sanger.ac.uk/science/tools/artemis-comparison-tool-act"
32 +SRC_URI="ftp://ftp.sanger.ac.uk/pub/resources/software/act/v13/sact_v13.jar
33 + ftp://ftp.sanger.ac.uk/pub/resources/software/act/v13/act_v13.jar
34 + ftp://ftp.sanger.ac.uk/pub/resources/software/act/v13/act_manual_complete.pdf -> ${P}.manual.pdf
35 + ftp://ftp.sanger.ac.uk/pub/resources/software/act/v13/act_html_build.zip -> ${P}.html_build.zip"
36 +
37 +LICENSE="GPL-2"
38 +SLOT="0"
39 +KEYWORDS="~amd64"
40 +IUSE=""
41 +
42 +DEPEND="
43 + !sci-biology/artemis"
44 +RDEPEND="${DEPEND}
45 + >=virtual/jre-1.6:*"
46 +
47 +S="${WORKDIR}"
48 +
49 +src_unpack(){
50 + unzip "${DISTDIR}"/${P}.html_build.zip || die
51 +}
52 +
53 +src_prepare(){
54 + default
55 + cd act_html_build || die
56 + rm -f .DS_Store HTML.index HTML.manifest || die
57 +}
58 +
59 +src_install(){
60 + java-pkg_dojar "${DISTDIR}"/*.jar
61 + dodoc "${DISTDIR}"/${P}.manual.pdf
62 + insinto /usr/share/doc/"${PN}"/html
63 + doins act_html_build/*
64 +}
65 +
66 +pkg_postinst(){
67 + einfo "For BAM file support please install sci-biology/BamView"
68 + einfo "You may find interesting the additional web resources:"
69 + einfo "http://www.webact.org/WebACT"
70 + einfo "http://www.hpa-bioinfotools.org.uk/pise/double_act.html"
71 +}
72
73 diff --git a/sci-biology/act-bin/metadata.xml b/sci-biology/act-bin/metadata.xml
74 new file mode 100644
75 index 0000000..f68a1b6
76 --- /dev/null
77 +++ b/sci-biology/act-bin/metadata.xml
78 @@ -0,0 +1,12 @@
79 +<?xml version="1.0" encoding="UTF-8"?>
80 +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
81 +<pkgmetadata>
82 + <maintainer type="person">
83 + <email>mmokrejs@×××××××××××××××.cz</email>
84 + <name>Martin Mokrejs</name>
85 + </maintainer>
86 + <maintainer type="project">
87 + <email>sci-biology@g.o</email>
88 + <name>Gentoo Biology Project</name>
89 + </maintainer>
90 +</pkgmetadata>