From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ricardo Wurmus Subject: [PATCH] gnu: Add r-bsgenome-celegans-ucsc-ce10. Date: Wed, 5 Oct 2016 14:27:20 +0200 Message-ID: <20161005122720.14916-1-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]:57105) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1brlIN-0005Fr-Kp for guix-devel@gnu.org; Wed, 05 Oct 2016 08:27:36 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1brlII-000886-2s for guix-devel@gnu.org; Wed, 05 Oct 2016 08:27:34 -0400 Received: from sinope02.bbbm.mdc-berlin.de ([141.80.25.24]:55661) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1brlIH-00087c-Ol for guix-devel@gnu.org; Wed, 05 Oct 2016 08:27:30 -0400 Received: from localhost (localhost [127.0.0.1]) by sinope02.bbbm.mdc-berlin.de (Postfix) with ESMTP id E4EA35F33C6 for ; Wed, 5 Oct 2016 14:27:27 +0200 (CEST) Received: from sinope02.bbbm.mdc-berlin.de ([127.0.0.1]) by localhost (sinope02.bbbm.mdc-berlin.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id I8qQHVNZ1o1a for ; Wed, 5 Oct 2016 14:27:22 +0200 (CEST) Received: from HTCAONE.mdc-berlin.net (puck.citx.mdc-berlin.de [141.80.36.101]) (using TLSv1 with cipher ECDHE-RSA-AES256-SHA (256/256 bits)) (No client certificate requested) by sinope02.bbbm.mdc-berlin.de (Postfix) with ESMTPS for ; Wed, 5 Oct 2016 14:27:22 +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-celegans-ucsc-ce10): 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 ac46fe4..76e6c31 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -6929,6 +6929,38 @@ elegans (Worm) as provided by UCSC (ce6, May 2008) and stored in Biostrings objects.") (license license:artistic2.0))) +(define-public r-bsgenome-celegans-ucsc-ce10 + (package + (name "r-bsgenome-celegans-ucsc-ce10") + (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.Celegans.UCSC.ce10_" + version ".tar.gz")) + (sha256 + (base32 + "1zaym97jk4npxk14ifvwz2rvhm4zx9xgs33r9vvx9rlynp0gydrk")))) + (properties + `((upstream-name . "BSgenome.Celegans.UCSC.ce10"))) + (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.Celegans.UCSC.ce10/") + (synopsis "Full genome sequences for Worm") + (description + "This package provides full genome sequences for Caenorhabditis +elegans (Worm) as provided by UCSC (ce10, Oct 2010) and stored in Biostrings +objects.") + (license license:artistic2.0))) + (define-public r-bsgenome-dmelanogaster-ucsc-dm3 (package (name "r-bsgenome-dmelanogaster-ucsc-dm3") -- 2.9.3