From mboxrd@z Thu Jan 1 00:00:00 1970 From: Ricardo Wurmus Subject: [PATCH] Add r-graph to fix r-topgo. Date: Wed, 17 Feb 2016 11:30:12 +0100 Message-ID: Mime-Version: 1.0 Content-Type: multipart/mixed; boundary="=-=-=" Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:59205) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1aVzNK-0006It-1p for guix-devel@gnu.org; Wed, 17 Feb 2016 05:30:30 -0500 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1aVzNF-00014F-1h for guix-devel@gnu.org; Wed, 17 Feb 2016 05:30:25 -0500 Received: from pegasus.bbbm.mdc-berlin.de ([141.80.25.20]:39698) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1aVzNE-000140-Fv for guix-devel@gnu.org; Wed, 17 Feb 2016 05:30:20 -0500 Received: from localhost (localhost [127.0.0.1]) by pegasus.bbbm.mdc-berlin.de (Postfix) with ESMTP id B4DAE381175 for ; Wed, 17 Feb 2016 11:30:18 +0100 (CET) Received: from pegasus.bbbm.mdc-berlin.de ([127.0.0.1]) by localhost (pegasus.bbbm.mdc-berlin.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id JcMg4QfzyRK3 for ; Wed, 17 Feb 2016 11:30:13 +0100 (CET) Received: from HTCAONE.mdc-berlin.net (puck.citx.mdc-berlin.de [141.80.36.101]) by pegasus.bbbm.mdc-berlin.de (Postfix) with ESMTP for ; Wed, 17 Feb 2016 11:30:13 +0100 (CET) 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" --=-=-= Content-Type: text/x-patch Content-Disposition: inline; filename="0001-gnu-Add-r-graph.patch" >From c58ff030a4733db2a3ded8100a185a316ad68a22 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Wed, 13 Jan 2016 16:26:13 +0100 Subject: [PATCH 1/2] gnu: Add r-graph. * gnu/packages/bioinformatics.scm (r-graph): New variable. --- gnu/packages/bioinformatics.scm | 19 +++++++++++++++++++ 1 file changed, 19 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index fa208c8..40a38eb 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4162,6 +4162,25 @@ extracting the desired features in a convenient format.") information about the latest version of the Gene Ontologies.") (license license:artistic2.0))) +(define-public r-graph + (package + (name "r-graph") + (version "1.48.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "graph" version)) + (sha256 + (base32 + "16w75rji3kv24gfv44w66y1a2y75ax26rl470y3ypna0ndc3rrcd")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biocgenerics" ,r-biocgenerics))) + (home-page "http://bioconductor.org/packages/graph") + (synopsis "Handle graph data structures in R") + (description + "This package implements some simple graph handling capabilities for R.") + (license license:artistic2.0))) + (define-public r-topgo (package (name "r-topgo") -- 2.1.0 --=-=-= Content-Type: text/x-patch Content-Disposition: inline; filename="0002-gnu-r-topgo-Add-missing-input.patch" >From a7e2c7e04f1521368dfa12ba39b8064e64c6c2a9 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Wed, 13 Jan 2016 16:26:37 +0100 Subject: [PATCH 2/2] gnu: r-topgo: Add missing input. * gnu/packages/bioinformatics.scm (r-topgo)[propagated-inputs]: Add "r-graph". --- gnu/packages/bioinformatics.scm | 1 + 1 file changed, 1 insertion(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 40a38eb..9b5bd12 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4199,6 +4199,7 @@ information about the latest version of the Gene Ontologies.") ("r-biobase" ,r-biobase) ("r-biocgenerics" ,r-biocgenerics) ("r-go-db" ,r-go-db) + ("r-graph" ,r-graph) ("r-sparsem" ,r-sparsem))) (home-page "http://bioconductor.org/packages/topGO") (synopsis "Enrichment analysis for gene ontology") -- 2.1.0 --=-=-=--