From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ricardo Wurmus Subject: [PATCH] gnu: Add Biopython. Date: Wed, 15 Apr 2015 17:47:32 +0200 Message-ID: Mime-Version: 1.0 Content-Type: text/x-patch Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:47951) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1YiPXS-0005gU-VI for guix-devel@gnu.org; Wed, 15 Apr 2015 11:47:44 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1YiPXP-0002YA-Cz for guix-devel@gnu.org; Wed, 15 Apr 2015 11:47:42 -0400 Received: from venus.bbbm.mdc-berlin.de ([141.80.25.30]:56604) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1YiPXP-0002Y4-7e for guix-devel@gnu.org; Wed, 15 Apr 2015 11:47:39 -0400 Received: from localhost (localhost [127.0.0.1]) by venus.bbbm.mdc-berlin.de (Postfix) with ESMTP id 7172B3807BC for ; Wed, 15 Apr 2015 17:47:38 +0200 (CEST) Received: from venus.bbbm.mdc-berlin.de ([127.0.0.1]) by localhost (venus.bbbm.mdc-berlin.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id kEWt2lIsDak3 for ; Wed, 15 Apr 2015 17:47:32 +0200 (CEST) Received: from HTCAONE.mdc-berlin.net (mab.citx.mdc-berlin.de [141.80.36.102]) by venus.bbbm.mdc-berlin.de (Postfix) with ESMTP for ; Wed, 15 Apr 2015 17:47:32 +0200 (CEST) Content-Disposition: inline; filename="0001-gnu-Add-Biopython.patch" 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 >From ca3474b1a639e43d708aad4385057cd84e3cce8b Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Wed, 15 Apr 2015 17:46:35 +0200 Subject: [PATCH] gnu: Add Biopython. * gnu/packages/bioinformatics.scm (python-biopython, python2-biopython): New variables. --- gnu/packages/bioinformatics.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 0239e97..6d53e4e 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -187,6 +187,35 @@ pybedtools extends BEDTools by offering feature-level manipulations from with Python.") (license license:gpl2+))) +(define-public python-biopython + (package + (name "python-biopython") + (version "1.65") + (source (origin + (method url-fetch) + (uri (string-append + "http://biopython.org/DIST/biopython-" + version ".tar.gz")) + (sha256 + (base32 + "13m8s9jkrw40zvdp1rl709n6lmgdh4f52aann7gzr6sfp0fwhg26")))) + (build-system python-build-system) + (inputs + `(("python-numpy" ,python-numpy))) + (native-inputs + `(("python-setuptools" ,python2-setuptools))) + (home-page "http://biopython.org/") + (synopsis "Set of tools for biological computation in Python") + (description + "Biopython is a set of tools for biological computation written in Python +by an international team of developers.") + (license license:expat))) + +(define-public python2-biopython + (package (inherit (package-with-python2 python-biopython)) + (inputs + `(("python2-numpy" ,python2-numpy))))) + (define-public bowtie (package (name "bowtie") -- 2.1.0