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Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Thu, 23 Jun 2022 09:44:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 56158 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 56158@debbugs.gnu.org X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.16559774123378 (code B ref -1); Thu, 23 Jun 2022 09:44:02 +0000 Received: (at submit) by debbugs.gnu.org; 23 Jun 2022 09:43:32 +0000 Received: from localhost ([127.0.0.1]:37459 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1o4JN6-0000sQ-5t for submit@debbugs.gnu.org; Thu, 23 Jun 2022 05:43:32 -0400 Received: from lists.gnu.org ([209.51.188.17]:43516) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1o4JN3-0000sI-Ia for submit@debbugs.gnu.org; Thu, 23 Jun 2022 05:43:30 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:48220) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1o4JN2-0006p0-Nh for guix-patches@gnu.org; Thu, 23 Jun 2022 05:43:29 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:45599) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1o4JN0-0007aA-2y for guix-patches@gnu.org; Thu, 23 Jun 2022 05:43:28 -0400 Received: from localhost (localhost [127.0.0.1]) by a2062.mx.srv.dfn.de (Postfix) with ESMTP id 0E8A6A03A3 for ; Thu, 23 Jun 2022 11:43:22 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received:received:received; s=mdc; t=1655977401; x=1657791802; bh=4G756RzNg1rNPWAIkrEq4EGb/O9RKZDgwUOFIgRek24=; b=UcrCeMN/VnKK idozR/EnZ0X8IFmUhSDVnChn6h896nX8l1Po0hQPH+McMI4NE+6AO40NyYaoktXl 8HNvN2kUKpk/3N4f2XA9aIDYEc1QM2W5cKPJtFmnAD/zA8Q/jwQDy7xz85l6vmwn IOYHynhBqYgTbEktEeb9OL5DPkTaiNU= Received: from a2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-han.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id 8NksEK6U28er for ; Thu, 23 Jun 2022 11:43:21 +0200 (CEST) Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS for ; Thu, 23 Jun 2022 11:43:21 +0200 (CEST) Received: from Guix-Ubuntu18.04 (141.80.113.106) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.9; Thu, 23 Jun 2022 11:43:20 +0200 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Thu, 23 Jun 2022 11:42:57 +0200 Message-ID: <20220623094257.21985-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.36.1 MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-26972.006 X-TM-AS-Result: No-10--9.184900-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6194/5X9VfCz/j4ZByyZz4oc5XWJfryopiwO YVASrRsvGtAmRUeCs+zUHbqc6NlKIWi8Qip68NgfdCok3ibXlQT5//buCv56OlwV2iaAfSWcURS Scn+QSXhhJCIHRlO51+gtHj7OwNO2BSJy8ngwKGafoyaYSWzsLVAqahW8Ab5H9yzXt70Gw9Ei9m M4/ZywnAKqL34WGEvg= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--9.184900-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-26972.006 X-TM-SNTS-SMTP: 9C6C305613A73AEFB0574C97205EF4D08A06C28DAF62B60C7E44A91ED35C75CB2002:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=MadalinIonel.Patrascu@mdc-berlin.de; helo=a2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-assessorf): New variable. --- gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) base-commit: e74fa406e1043547242a8b67ab9907fea7aae6b9 diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 1e87b190c2..3f7743b0cb 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2029,6 +2029,35 @@ (define-public r-aneufinder sequencing data.") (license license:artistic2.0))) +(define-public r-assessorf + (package + (name "r-assessorf") + (version "1.14.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "AssessORF" version)) + (sha256 + (base32 + "1l87bpny9k3jbzbzmb9h2ijvblrj471gqv26fyzbvb3vr6y406z7")))) + (properties `((upstream-name . "AssessORF"))) + (build-system r-build-system) + (propagated-inputs + (list r-biostrings + r-decipher + r-genomicranges + r-iranges)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/AssessORF") + (synopsis "Assess gene predictions using proteomics and evolutionary conservation") + (description + "In order to assess the quality of a set of predicted genes for a genome, +evidence must first be mapped to that genome. Next, each gene must be categorized +based on how strong the evidence is for or against that gene. The @code{AssessORF} +package provides the functions and class structures necessary for accomplishing +those tasks, using proteomics hits and evolutionarily conserved start codons as +the forms of evidence.") + (license license:gpl3))) + (define-public r-biocversion (package (name "r-biocversion")