From mboxrd@z Thu Jan 1 00:00:00 1970 From: Pjotr Prins Subject: [PATCH] gnu: Add bio-blastxmlparser. Date: Wed, 16 Sep 2015 08:53:13 +0200 Message-ID: <55f911d9.XIRLUtsjiVH5Usi9%pjotr.public12@thebird.nl> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:53268) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1Zc6cg-00070h-CV for guix-devel@gnu.org; Wed, 16 Sep 2015 02:55:19 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1Zc6cd-0003fR-2u for guix-devel@gnu.org; Wed, 16 Sep 2015 02:55:18 -0400 Received: from mail.thebird.nl ([95.154.246.10]:57489) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1Zc6cc-0003dv-Tt for guix-devel@gnu.org; Wed, 16 Sep 2015 02:55:15 -0400 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 * gnu/packages/bioinformatics.scm (bio-blastxmlparser): New variable. --- gnu/packages/bioinformatics.scm | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1f34211..b9e1158 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2642,3 +2642,28 @@ position for indels. Bio-locus allows users to store this chr+pos or chr+pos+alt information in a database.") (home-page "https://github.com/pjotrp/bio-locus") (license license:expat))) + +(define-public bio-blastxmlparser + (package + (name "bio-blastxmlparser") + (version "2.0.4") + (source + (origin + (method url-fetch) + (uri (rubygems-uri "bio-blastxmlparser" version)) + (sha256 + (base32 + "1wf4qygcmdjgcqm6flmvsagfr1gs9lf63mj32qv3z1f481zc5692")))) + (build-system ruby-build-system) + (propagated-inputs + `(("ruby-bio-logger" ,ruby-bio-logger) + ("ruby-nokogiri" ,ruby-nokogiri))) + (inputs + `(("ruby-rspec" ,ruby-rspec))) + (synopsis "Fast big data BLAST XML parser and library") + (description "Very fast parallel big-data BLAST XML file parser +which can be used as command line utility. Use blastxmlparser to: +Parse BLAST XML; filter output; generate FASTA, JSON, YAML, RDF, +JSON-LD, HTML, csv, tabular output etc.") + (home-page "http://github.com/pjotrp/blastxmlparser") + (license license:expat))) -- 2.4.3