From: | Martin Mokrejs <mmokrejs@×××××××××××××××.cz> |
---|---|
To: | gentoo-commits@l.g.o |
Subject: | [gentoo-commits] proj/sci:master commit in: sci-biology/BRAKER/ |
Date: | Sat, 31 Mar 2018 00:15:22 |
Message-Id: | 1522455301.3724acdd4d192ac400d81a94f91e957c0e832ccd.mmokrejs@gentoo |
1 | commit: 3724acdd4d192ac400d81a94f91e957c0e832ccd |
2 | Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
3 | AuthorDate: Sat Mar 31 00:15:01 2018 +0000 |
4 | Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
5 | CommitDate: Sat Mar 31 00:15:01 2018 +0000 |
6 | URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=3724acdd |
7 | |
8 | sci-biology/BRAKER: version bump, update LICENSE |
9 | |
10 | Package-Manager: Portage-2.3.24, Repoman-2.3.6 |
11 | |
12 | .../{BRAKER-2.ebuild => BRAKER-2.1.0.ebuild} | 30 +++++++++------------- |
13 | 1 file changed, 12 insertions(+), 18 deletions(-) |
14 | |
15 | diff --git a/sci-biology/BRAKER/BRAKER-2.ebuild b/sci-biology/BRAKER/BRAKER-2.1.0.ebuild |
16 | similarity index 58% |
17 | rename from sci-biology/BRAKER/BRAKER-2.ebuild |
18 | rename to sci-biology/BRAKER/BRAKER-2.1.0.ebuild |
19 | index b4c752457..13d63d4b8 100644 |
20 | --- a/sci-biology/BRAKER/BRAKER-2.ebuild |
21 | +++ b/sci-biology/BRAKER/BRAKER-2.1.0.ebuild |
22 | @@ -10,15 +10,17 @@ DESCRIPTION="Gene prediction based on RNA-Seq using GeneMark-ET and AUGUSTUS" |
23 | # http://bioinf.uni-greifswald.de/bioinf/publications/pag2015.pdf |
24 | HOMEPAGE="http://bioinf.uni-greifswald.de/bioinf/braker |
25 | http://bioinf.uni-greifswald.de/augustus/downloads" |
26 | -SRC_URI="http://bioinf.uni-greifswald.de/augustus/binaries/BRAKER"${PV}".tar.gz -> ${P}.tar.gz" |
27 | -# Download BRAKER1 from http://bioinf.uni-greifswald.de/augustus/binaries/BRAKER1.tar.gz. |
28 | -# The most recent release is version 1.8, from December 15th 2015. |
29 | -# Example data for testing the BRAKER1 pipeline is available at |
30 | -# http://bioinf.uni-greifswald.de/augustus/binaries/BRAKER1examples.tar.gz (1.1 GB). |
31 | - |
32 | -LICENSE="GPL-3" |
33 | +SRC_URI="http://bioinf.uni-greifswald.de/augustus/binaries/BRAKER_v"${PV}".tar.gz -> ${P}.tar.gz" |
34 | +# Example data for testing the BRAKER2 pipeline is available at |
35 | +# http://bioinf.uni-greifswald.de/augustus/binaries/BRAKER2examples.tar.gz (1.1 GB). |
36 | + |
37 | +# BRAKER2 is using the Artistic-1.0 version without clause 8 about |
38 | +# commercial distribution |
39 | +# See discussion at https://opensource.org/licenses/artistic-license-1.0 |
40 | +# Practically the license is same as http://dev.perl.org/licenses/artistic.html |
41 | +LICENSE="Artistic" |
42 | SLOT="0" |
43 | -KEYWORDS="" |
44 | +KEYWORDS="~amd64 ~x86" |
45 | IUSE="" |
46 | |
47 | DEPEND="" |
48 | @@ -26,23 +28,15 @@ RDEPEND="${DEPEND} |
49 | dev-perl/Scalar-Util-Numeric |
50 | sci-biology/augustus" |
51 | #>=sci-biology/GeneMark_ET-bin-4.29" |
52 | -# |
53 | -# BUG: |
54 | -# this causes: |
55 | -# [blocks B ] <perl-core/Scalar-List-Utils-1.380.0 ("<perl-core/Scalar-List-Utils-1.380.0" is blocking virtual/perl-Scalar-List-Utils-1.380.0) |
56 | - |
57 | -S="${WORKDIR}"/BRAKER_v"${PV}".0 |
58 | |
59 | -src_prepare(){ |
60 | - sed -e 's/^use helpMod/use BRAKER::helpMod/' -i braker.pl || die |
61 | -} |
62 | +S="${WORKDIR}"/BRAKER_v"${PV}" |
63 | |
64 | src_install(){ |
65 | perl_set_version |
66 | dobin *.pl |
67 | insinto ${VENDOR_LIB}/${PN} |
68 | doins *.pm |
69 | - dodoc README.braker |
70 | + dodoc userguide.pdf |
71 | } |
72 | |
73 | pkg_postinst(){ |