From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ben Woodcroft Subject: Update mafft to 7.245. Date: Tue, 10 Nov 2015 22:18:10 +1000 Message-ID: <5641E082.90801@uq.edu.au> Mime-Version: 1.0 Content-Type: multipart/mixed; boundary="------------040007010008090509020701" Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:49547) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1Zw7sU-0002Ez-Dy for guix-devel@gnu.org; Tue, 10 Nov 2015 07:18:23 -0500 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1Zw7sR-0005Pl-6R for guix-devel@gnu.org; Tue, 10 Nov 2015 07:18:22 -0500 Received: from mailhub1.soe.uq.edu.au ([130.102.132.208]:48609 helo=newmailhub.uq.edu.au) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1Zw7sQ-0005Ou-JR for guix-devel@gnu.org; Tue, 10 Nov 2015 07:18:19 -0500 Received: from smtp1.soe.uq.edu.au (smtp1.soe.uq.edu.au [10.138.113.40]) by newmailhub.uq.edu.au (8.14.5/8.14.5) with ESMTP id tAACIDhe001676 for ; Tue, 10 Nov 2015 22:18:13 +1000 Received: from [192.168.1.105] ([103.25.181.216]) (authenticated bits=0) by smtp1.soe.uq.edu.au (8.14.5/8.14.5) with ESMTP id tAACIBef064306 (version=TLSv1.2 cipher=DHE-RSA-AES128-SHA bits=128 verify=NOT) for ; Tue, 10 Nov 2015 22:18:12 +1000 List-Id: "Development of GNU Guix and the GNU System distribution." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-devel-bounces+gcggd-guix-devel=m.gmane.org@gnu.org Sender: guix-devel-bounces+gcggd-guix-devel=m.gmane.org@gnu.org To: "guix-devel@gnu.org" This is a multi-part message in MIME format. --------------040007010008090509020701 Content-Type: text/plain; charset=utf-8; format=flowed Content-Transfer-Encoding: 7bit Also had to fix the inputs. Hard not to notice these things in the environment container - worked well thanks. --------------040007010008090509020701 Content-Type: text/x-patch; name="0001-gnu-mafft-Update-to-7.245.patch" Content-Transfer-Encoding: 7bit Content-Disposition: attachment; filename="0001-gnu-mafft-Update-to-7.245.patch" >From a540e28db46d7914e66f448ad49850f4365902cb Mon Sep 17 00:00:00 2001 From: Ben Woodcroft Date: Tue, 10 Nov 2015 22:10:39 +1000 Subject: [PATCH] gnu: mafft: Update to 7.245. * gnu/packages/bioinformatics.scm (mafft): Update to 7.245. Fix inputs. --- gnu/packages/bioinformatics.scm | 12 ++++++++---- 1 file changed, 8 insertions(+), 4 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index f13e405..011ce78 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -40,6 +40,7 @@ #:use-module (gnu packages compression) #:use-module (gnu packages cpio) #:use-module (gnu packages file) + #:use-module (gnu packages gawk) #:use-module (gnu packages java) #:use-module (gnu packages linux) #:use-module (gnu packages machine-learning) @@ -1688,7 +1689,7 @@ sequencing tag position and orientation.") (define-public mafft (package (name "mafft") - (version "7.221") + (version "7.245") (source (origin (method url-fetch) (uri (string-append @@ -1697,7 +1698,7 @@ sequencing tag position and orientation.") (file-name (string-append name "-" version ".tgz")) (sha256 (base32 - "0xi7klbsgi049vsrk6jiwh9wfj3b770gz3c8c7zwij448v0dr73d")))) + "0m1l7gdrmfxjw54d3a0g18w6rwqrra9w9zvxix7dcddw6d1qyir2")))) (build-system gnu-build-system) (arguments `(#:tests? #f ; no automated tests, though there are tests in the read me @@ -1731,8 +1732,11 @@ sequencing tag position and orientation.") \\$\\(DESTDIR\\)\\$\\(LIBDIR\\)") "#")) #t)) (delete 'configure)))) - (inputs - `(("perl" ,perl))) + (propagated-inputs + `(("perl" ,perl) + ("gawk" ,gawk) + ("coreutils" ,coreutils) + ("grep" ,grep))) (home-page "http://mafft.cbrc.jp/alignment/software/") (synopsis "Multiple sequence alignment program") (description -- 2.4.3 --------------040007010008090509020701--