From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ricardo Wurmus Subject: [PATCH] gnu: Add r-genomationdata. Date: Mon, 23 May 2016 16:57:16 +0200 Message-ID: <1464015436-27911-1-git-send-email-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]:34760) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1b4rIZ-0006TT-Pv for guix-devel@gnu.org; Mon, 23 May 2016 10:57:40 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1b4rIT-0001CY-U6 for guix-devel@gnu.org; Mon, 23 May 2016 10:57:38 -0400 Received: from sinope02.bbbm.mdc-berlin.de ([141.80.25.24]:53483) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1b4rIT-0001BC-Je for guix-devel@gnu.org; Mon, 23 May 2016 10:57:33 -0400 Received: from localhost (localhost [127.0.0.1]) by sinope02.bbbm.mdc-berlin.de (Postfix) with ESMTP id 96F9D85EB6 for ; Mon, 23 May 2016 16:57:31 +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 lhowoOoMmdnA for ; Mon, 23 May 2016 16:57:26 +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 ; Mon, 23 May 2016 16:57:26 +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-genomationdata): New variable. --- gnu/packages/bioinformatics.scm | 26 ++++++++++++++++++++++++++ 1 file changed, 26 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index fbaae12..51c371c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5002,6 +5002,32 @@ genomic feature data as long as it has minimal information on the locations of genomic intervals. In addition, it can use BAM or BigWig files as input.") (license license:artistic2.0))) +(define-public r-genomationdata + (package + (name "r-genomationdata") + (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 "https://bioconductor.org/packages/" + "release/data/experiment/src/contrib/" + "genomationData_" version ".tar.gz")) + (sha256 + (base32 + "1xzq2j722d8lcn5bc3aq3yb34xwis2d0bpsf6jsq4xw1bg0bsy79")))) + (build-system r-build-system) + (arguments `(#:substitutable? #f)) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "http://bioinformatics.mdc-berlin.de/genomation/") + (synopsis "Experimental data for use with the genomation package") + (description + "This package contains experimental genetic data for use with the +genomation package. Included are Chip Seq, Methylation and Cage data, +downloaded from Encode.") + (license license:gpl3+))) + (define-public r-org-hs-eg-db (package (name "r-org-hs-eg-db") -- 2.7.3