From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ricardo Wurmus Subject: [PATCH] gnu: Add r-bsgenome-mmusculus-ucsc-mm10. Date: Tue, 14 Jun 2016 14:50:30 +0200 Message-ID: <20160614125030.13866-1-ricardo.wurmus@mdc-berlin.de> Mime-Version: 1.0 Content-Type: text/plain Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:58249) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bD5Bs-0006uP-J4 for guix-devel@gnu.org; Wed, 15 Jun 2016 03:24:45 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1bD5Bn-0001wu-I9 for guix-devel@gnu.org; Wed, 15 Jun 2016 03:24:44 -0400 Received: from metis.bbbm.mdc-berlin.de ([141.80.25.40]:38674) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bD5Bn-0001wP-3Y for guix-devel@gnu.org; Wed, 15 Jun 2016 03:24:39 -0400 Received: from localhost (localhost [127.0.0.1]) by metis.bbbm.mdc-berlin.de (Postfix) with ESMTP id 5BBDD11F4BD for ; Wed, 15 Jun 2016 09:24:37 +0200 (CEST) Received: from metis.bbbm.mdc-berlin.de ([127.0.0.1]) by localhost (metis.bbbm.mdc-berlin.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id rIvls6WbiXYd for ; Wed, 15 Jun 2016 09:24:31 +0200 (CEST) Received: from HTCATWO.mdc-berlin.net (htcatwo.dv10.mdc-berlin.de [141.80.180.190]) (using TLSv1 with cipher ECDHE-RSA-AES256-SHA (256/256 bits)) (No client certificate requested) by metis.bbbm.mdc-berlin.de (Postfix) with ESMTPS for ; Wed, 15 Jun 2016 09:24:31 +0200 (CEST) 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" To: guix-devel@gnu.org * gnu/packages/bioinformatics.scm (r-bsgenome-mmusculus-ucsc-mm10): New variable. --- gnu/packages/bioinformatics.scm | 32 ++++++++++++++++++++++++++++++++ 1 file changed, 32 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 753e657..0b6698f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5245,6 +5245,38 @@ by UCSC (hg19, February 2009) and stored in Biostrings objects.") provided by UCSC (mm9, July 2007) and stored in Biostrings objects.") (license license:artistic2.0))) +(define-public r-bsgenome-mmusculus-ucsc-mm10 + (package + (name "r-bsgenome-mmusculus-ucsc-mm10") + (version "1.4.0") + (source (origin + (method url-fetch) + ;; We cannot use bioconductor-uri here because this tarball is + ;; located under "data/annotation/" instead of "bioc/". + (uri (string-append "http://www.bioconductor.org/packages/" + "release/data/annotation/src/contrib/" + "BSgenome.Mmusculus.UCSC.mm10_" + version ".tar.gz")) + (sha256 + (base32 + "12s0nm2na9brjad4rn9l7d3db2aj8qa1xvz0y1k7gk08wayb6bkf")))) + (properties + `((upstream-name . "BSgenome.Mmusculus.UCSC.mm10"))) + (build-system r-build-system) + ;; As this package provides little more than a very large data file it + ;; doesn't make sense to build substitutes. + (arguments `(#:substitutable? #f)) + (propagated-inputs + `(("r-bsgenome" ,r-bsgenome))) + (home-page + "http://www.bioconductor.org/packages/BSgenome.Mmusculus.UCSC.mm10/") + (synopsis "Full genome sequences for Mouse") + (description + "This package provides full genome sequences for Mus +musculus (Mouse) as provided by UCSC (mm10, December 2011) and stored +in Biostrings objects.") + (license license:artistic2.0))) + (define-public r-bsgenome-celegans-ucsc-ce6 (package (name "r-bsgenome-celegans-ucsc-ce6") -- 2.8.4