From patchwork Wed Sep 21 20:45:33 2016 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Ricardo Wurmus X-Patchwork-Id: 15876 Received: (qmail 46947 invoked by uid 89); 21 Sep 2016 20:50:24 -0000 Authentication-Results: sourceware.org; auth=none X-Virus-Checked: by ClamAV 0.99.2 on sourceware.org X-Virus-Found: No X-Spam-SWARE-Status: No, score=-4.8 required=5.0 tests=AWL, BAYES_00, RP_MATCHES_RCVD, SPF_PASS autolearn=ham version=3.3.2 spammy= X-Spam-Status: No, score=-4.8 required=5.0 tests=AWL, BAYES_00, RP_MATCHES_RCVD, SPF_PASS autolearn=ham version=3.3.2 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on sourceware.org X-Spam-Level: X-HELO: lists.gnu.org Received: from lists.gnu.org (HELO lists.gnu.org) (208.118.235.17) by sourceware.org (qpsmtpd/0.93/v0.84-503-g423c35a) with ESMTP; Wed, 21 Sep 2016 20:50:14 +0000 Received: from localhost ([::1]:55792 helo=lists.gnu.org) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bmoT6-0001Ug-JO for patchwork@sourceware.org; Wed, 21 Sep 2016 16:50:12 -0400 Received: from eggs.gnu.org ([2001:4830:134:3::10]:48160) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bmoQv-00085Y-4j for guix-devel@gnu.org; Wed, 21 Sep 2016 16:48:00 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1bmoQr-0002hp-3S for guix-devel@gnu.org; Wed, 21 Sep 2016 16:47:56 -0400 Received: from pegasus.bbbm.mdc-berlin.de ([141.80.25.20]:43149) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1bmoQq-0002hd-Sb for guix-devel@gnu.org; Wed, 21 Sep 2016 16:47:53 -0400 Received: from localhost (localhost [127.0.0.1]) by pegasus.bbbm.mdc-berlin.de (Postfix) with ESMTP id 5216A380E12 for ; Wed, 21 Sep 2016 22:47:52 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:mime-version:references:in-reply-to :x-mailer:message-id:date:date:subject:subject:from:from :received:received:received; s=mdc; t=1474490866; x=1476305267; bh=Agnwi4o2B5mo1kxtaKoBhUd6iLreczFVTsadCSsFDCU=; b=hwhW2OME0/tl IrSdOrwrpzMcQ0Y/w2M3Tf9pfarfvum2f7pnJaPV3YWMfpQrZ38RZ0MUxZ5UfK6Z 0X0UAX0/xlwXh849ttgBMVwpChxT4sFzvboOO8vMTMfet9rGPn2y5y8RHkYO51/3 b7C0wjuNL6kRQdP2Y11e16PCfTvDR1Q= X-Virus-Scanned: amavisd-new at mdc-berlin.de 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 uh08fhTPr1jn for ; Wed, 21 Sep 2016 22:47:46 +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 pegasus.bbbm.mdc-berlin.de (Postfix) with ESMTPS for ; Wed, 21 Sep 2016 22:47:46 +0200 (CEST) Received: from localhost (141.80.180.135) by HTCAONE.mdc-berlin.net (141.80.180.125) with Microsoft SMTP Server (TLS) id 14.3.319.2; Wed, 21 Sep 2016 22:47:44 +0200 From: Ricardo Wurmus To: Subject: [PATCH 17/25] gnu: Add r-annotationforge. Date: Wed, 21 Sep 2016 22:45:33 +0200 Message-ID: <20160921204541.3981-17-ricardo.wurmus@mdc-berlin.de> X-Mailer: git-send-email 2.9.3 In-Reply-To: <20160921204541.3981-1-ricardo.wurmus@mdc-berlin.de> References: <20160921204541.3981-1-ricardo.wurmus@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [141.80.180.135] X-TM-AS-Product-Ver: SMEX-11.0.0.4283-8.000.1202-22592.002 X-TM-AS-Result: No-0.177200-0.000000-31 X-TM-AS-MatchedID: 703786-704425-188019-702911-862751-704496-701590-706817-1 39704-701604-702003-704568-704992-148004-148036-42000-42003 X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-detected-operating-system: by eggs.gnu.org: GNU/Linux 3.x X-Received-From: 141.80.25.20 X-BeenThere: guix-devel@gnu.org X-Mailman-Version: 2.1.21 Precedence: list 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+patchwork=sourceware.org@gnu.org Sender: "Guix-devel" * gnu/packages/bioinformatics.scm (r-annotationforge): New variable. --- gnu/packages/bioinformatics.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 2df63ee..a5aadd0 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5163,6 +5163,35 @@ differential expression based on a model using the negative binomial distribution.") (license license:lgpl3+))) +(define-public r-annotationforge + (package + (name "r-annotationforge") + (version "1.14.2") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "AnnotationForge" version)) + (sha256 + (base32 + "1vkdd1qdv5g680ipw4vwjvn52xn66xpg6ngmwyknz77ckxnnpf4q")))) + (properties + `((upstream-name . "AnnotationForge"))) + (build-system r-build-system) + (propagated-inputs + `(("r-annotationdbi" ,r-annotationdbi) + ("r-biobase" ,r-biobase) + ("r-biocgenerics" ,r-biocgenerics) + ("r-dbi" ,r-dbi) + ("r-rsqlite" ,r-rsqlite) + ("r-s4vectors" ,r-s4vectors) + ("r-xml" ,r-xml))) + (home-page "http://bioconductor.org/packages/AnnotationForge") + (synopsis "Code for building annotation database packages") + (description + "This package provides code for generating Annotation packages and their +databases. Packages produced are intended to be used with AnnotationDbi.") + (license license:artistic2.0))) + (define-public vsearch (package (name "vsearch")