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

["Martin Mokrejs" <mmokrejs@fold.natur.cuni.cz>]

commit:     a4cb204b1513efc3901a92bebacf0cb45f134a5b
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Thu Mar 19 10:33:12 2015 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Thu Mar 19 10:33:12 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=a4cb204b

removing KEYWORDS until the perl files are installed to some other place. At the moment I get: 'perl-module.eclass: Suspicious environment values found. PERL5LIB="/usr/lib64/perl5/vendor_perl/5.18.2/TransDecoder"'

Package-Manager: portage-2.2.15

 sci-biology/transdecoder/ChangeLog                      |  8 ++++++++
 ...ecoder-20140704.ebuild => transdecoder-2.0.1.ebuild} | 17 ++++++++---------
 sci-biology/transdecoder/transdecoder-20140704.ebuild   |  2 +-
 3 files changed, 17 insertions(+), 10 deletions(-)

diff --git a/sci-biology/transdecoder/ChangeLog b/sci-biology/transdecoder/ChangeLog
index 87a58f9..2b30ad0 100644
--- a/sci-biology/transdecoder/ChangeLog
+++ b/sci-biology/transdecoder/ChangeLog
@@ -2,6 +2,14 @@
 # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+*transdecoder-2.0.1 (19 Mar 2015)
+
+  19 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+  +transdecoder-2.0.1.ebuild, transdecoder-20140704.ebuild:
+  removing KEYWORDS until the perl files are installed to some other place. At
+  the moment I get: 'perl-module.eclass: Suspicious environment values found.
+  PERL5LIB="/usr/lib64/perl5/vendor_perl/5.18.2/TransDecoder"'
+
   15 Feb 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
   transdecoder-20140704.ebuild:
   drop hmmer-3 dependency, it is an optional dependency only

diff --git a/sci-biology/transdecoder/transdecoder-20140704.ebuild b/sci-biology/transdecoder/transdecoder-2.0.1.ebuild
similarity index 80%
copy from sci-biology/transdecoder/transdecoder-20140704.ebuild
copy to sci-biology/transdecoder/transdecoder-2.0.1.ebuild
index c8af896..eaa6e69 100644
--- a/sci-biology/transdecoder/transdecoder-20140704.ebuild
+++ b/sci-biology/transdecoder/transdecoder-2.0.1.ebuild
@@ -8,11 +8,11 @@ inherit perl-module
 
 DESCRIPTION="Extract ORF/CDS regions from FASTA sequences"
 HOMEPAGE="http://sourceforge.net/projects/transdecoder/"
-SRC_URI="http://downloads.sourceforge.net/project/transdecoder/TransDecoder_r20140704.tar.gz"
+SRC_URI="https://github.com/TransDecoder/TransDecoder/archive/"${PV}".tar.gz -> ${P}.tar.gz"
 
 LICENSE="BSD-BroadInstitute"
 SLOT="0"
-KEYWORDS="~amd64"
+KEYWORDS=""
 IUSE=""
 
 DEPEND="sci-biology/hmmer
@@ -21,14 +21,13 @@ DEPEND="sci-biology/hmmer
 	sci-biology/ffindex"
 RDEPEND="${DEPEND}"
 
-S="${WORKDIR}"/TransDecoder_r20140704
+S="${WORKDIR}"/TransDecoder-2.0.1
 
-src_prepare(){
-	rm -rf 3rd_party
-	mv Makefile Makefile.old
-	epatch "${FILESDIR}"/TransDecoder.patch
-	epatch "${FILESDIR}"/pfam_runner.pl.patch
-}
+##src_prepare(){
+#	#mv Makefile Makefile.old
+#	#epatch "${FILESDIR}"/TransDecoder.patch
+#	#epatch "${FILESDIR}"/pfam_runner.pl.patch
+#}
 
 # avoid fetching 1.5TB "${S}"/pfam/Pfam-AB.hmm.bin, see
 # "Re: [Transdecoder-users] Announcement: Transdecoder release r20140704" thread in archives

diff --git a/sci-biology/transdecoder/transdecoder-20140704.ebuild b/sci-biology/transdecoder/transdecoder-20140704.ebuild
index c8af896..ed060b3 100644
--- a/sci-biology/transdecoder/transdecoder-20140704.ebuild
+++ b/sci-biology/transdecoder/transdecoder-20140704.ebuild
@@ -12,7 +12,7 @@ SRC_URI="http://downloads.sourceforge.net/project/transdecoder/TransDecoder_r201
 
 LICENSE="BSD-BroadInstitute"
 SLOT="0"
-KEYWORDS="~amd64"
+KEYWORDS=""
 IUSE=""
 
 DEPEND="sci-biology/hmmer