From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp0 ([2001:41d0:2:bcc0::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms0.migadu.com with LMTPS id wAZvJDQZqGDqCwEAgWs5BA (envelope-from ) for ; Fri, 21 May 2021 22:33:56 +0200 Received: from aspmx1.migadu.com ([2001:41d0:2:bcc0::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp0 with LMTPS id AB8gIDQZqGCkQgAA1q6Kng (envelope-from ) for ; Fri, 21 May 2021 20:33:56 +0000 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by aspmx1.migadu.com (Postfix) with ESMTPS id E6F3E1AF31 for ; Fri, 21 May 2021 22:33:55 +0200 (CEST) Received: from localhost ([::1]:47882 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lkBqF-0004zk-0R for larch@yhetil.org; Fri, 21 May 2021 16:33:55 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:52576) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lkBkl-00052d-6F for guix-patches@gnu.org; Fri, 21 May 2021 16:28:15 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:54513) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1lkBkk-00031v-UJ for guix-patches@gnu.org; Fri, 21 May 2021 16:28:14 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1lkBkk-0000P3-Qt for guix-patches@gnu.org; Fri, 21 May 2021 16:28:14 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#48575] [PATCH 36/50] gnu: r-motifrg: Move to (gnu packages bioconductor). Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 21 May 2021 20:28:14 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 48575 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 48575@debbugs.gnu.org. Cc: zimoun Received: via spool by 48575-submit@debbugs.gnu.org id=B48575.16216288551178 (code B ref 48575); Fri, 21 May 2021 20:28:14 +0000 Received: (at 48575) by debbugs.gnu.org; 21 May 2021 20:27:35 +0000 Received: from localhost ([127.0.0.1]:37765 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lkBk6-0000Iq-Ko for submit@debbugs.gnu.org; Fri, 21 May 2021 16:27:35 -0400 Received: from mail-wr1-f53.google.com ([209.85.221.53]:36371) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lkBjU-0000BR-TZ for 48575@debbugs.gnu.org; Fri, 21 May 2021 16:26:57 -0400 Received: by mail-wr1-f53.google.com with SMTP id c14so20429585wrx.3 for <48575@debbugs.gnu.org>; Fri, 21 May 2021 13:26:56 -0700 (PDT) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20161025; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=GNE7B5p9yFT2jKkL0Wi0iSOeeBRpdM4BYuuDctd4u8U=; b=Iz/A0duSAM6KARw0FBrLWKEQGV3mhc9Otq4SNkBs9DqI/gtCztbZjaKYEYvVjSeITA iQ3P4WRiGDQnFZjkmZtY4a6+IpWc/1DsbZRBd66Y6YfsQ2B80QeFvhO7fE0WM0gqO4qM zZod6FRup60/FccKDxW5Lw+GhHv49x3w+o1ljry16DwmecywQa0jB2tttfpEn/5JMcfC hpnDw/U0fdu43HxDVyeJVnEI69eJxMlRqTN2138ULy8p5sLiqPr3C7R/Smb7Sy8xrFgz UjJzPdB3HFifP+GYnAH5QWl9kn56o7QrY4KGc7HtNC8v0c2EVvsYBW+38FmSkEaL3T4l DuZA== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20161025; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=GNE7B5p9yFT2jKkL0Wi0iSOeeBRpdM4BYuuDctd4u8U=; b=TNqJDAgPaGNU2pi7rQiZRTNJ+lQQvLaBh15qHACwxEgeuCK5JH6Y0jfybBBA56ik+6 rWEERGxoGlDmKovojEA11yqviLe5gQAQ2/aiUNMHAD/rT986j6ZUAugnWb0v1UwVJbO5 4Dl2ZmQTLB4mQCifmNYFsY0sdBNRLvlphTb+Hz+9H09OeihegcDB4KyYBkGux09VkOYD zc0qaCyrfyJLHBA/8LKUqAnaLVG7M1PGmOe0ORp90+TPtSuSUxGNYkZFpmQjEVpaODsu vGHexYL3B6/GNuAVEaqle60O2HeQQWQ0gBqFXMdfnoMs8ReQX7bpuZEC4WqzXH7QNEcE fejA== X-Gm-Message-State: AOAM530sANgTbTc7Lu+xkvG9DB/SaPNWNU5SENVc8S1fgL341rM5nJdA lV+XZt4SK26PScmW0vDS0cdGlWHbQ5E= X-Google-Smtp-Source: ABdhPJyn22LKIE7ubs3c9Evun+F9gtPSFBSZbjIjXbVYFvXbDL0LXEErYWr2VbCoBZZWO/PsdXKbHA== X-Received: by 2002:a5d:64a6:: with SMTP id m6mr11384233wrp.425.1621628811421; Fri, 21 May 2021 13:26:51 -0700 (PDT) Received: from localhost.localdomain ([193.48.40.110]) by smtp.gmail.com with ESMTPSA id j18sm542711wmq.27.2021.05.21.13.26.51 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Fri, 21 May 2021 13:26:51 -0700 (PDT) From: zimoun Date: Fri, 21 May 2021 22:26:08 +0200 Message-Id: <20210521202622.26591-36-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.30.1 In-Reply-To: <20210521202622.26591-1-zimon.toutoune@gmail.com> References: <20210521202622.26591-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit 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+larch=yhetil.org@gnu.org Sender: "Guix-patches" X-Migadu-Flow: FLOW_IN ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=yhetil.org; s=key1; t=1621629236; h=from:from:sender:sender:reply-to:subject:subject:date:date: message-id:message-id:to:to:cc:cc:mime-version:mime-version: content-transfer-encoding:content-transfer-encoding:resent-cc: resent-from:resent-sender:resent-message-id:in-reply-to:in-reply-to: references:references:list-id:list-help:list-unsubscribe: list-subscribe:list-post:dkim-signature; bh=GNE7B5p9yFT2jKkL0Wi0iSOeeBRpdM4BYuuDctd4u8U=; b=r2fmt8Rv4tw9t3cSFLAKolgSsJI1xqGd9a3+4EAzDmnwnD362RnnBUgwkcwirGjp4wDhAt ZSW37P9XlK35Nlq9a30xEo4JL/bwnnV7p6cV3UBNqpz4eKrpmEPwk/c6OnRwRsw/40NAXr DyqeCwzn+niRDuWx2BaXA7n/zaWr6wzbVUTHwE2Sjdc9EuMysHzAP2Yr1lRIPckxSzILLn BlfWvVu57i1RAuT+Jh+Fgpc12Gq+kDMWJSKuDfisw7ndeJarMJsAqQKZXyOIOEY2aAsgJG xRoWV/6sMRCwtKe72KGY6Pep3QqxVGTUPZoe50fPewcHb1elKgrQJssw0VS+dg== ARC-Seal: i=1; s=key1; d=yhetil.org; t=1621629236; a=rsa-sha256; cv=none; b=RQBWku6ovgsf0+w9twj6Pbiv7ISTyEAxVS7Z+iw26OT2JLlBL91uirD6gNJuN74eCh0swH flUHqlqBUVOHthyPVFokSFg7d2Nzly+0kCmxT0YKyDGu0E+kfZkYpYi2BJUc0oVRpXPYLc C92JMoBfihVz6Y8V1ngXq5b0/yUDo/NiFSujrhrGX7K9IIrDI1A8xkEFMB0pbjVeZBIWJn tzaBNOmuw7NH8IhZ5nff9WDSB5On2yTOh9nUMLf1vw13Tm2Z36dN3t9NP5o9sv7qXS7ByH kN+MGwpLFJiPsznuZKuAIf5aE0J5/RlO+ZgzSTUmN3sKtFp1JYnhROrJPsSIzw== ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gmail.com header.s=20161025 header.b="Iz/A0duS"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Spam-Score: 2.66 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gmail.com header.s=20161025 header.b="Iz/A0duS"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Queue-Id: E6F3E1AF31 X-Spam-Score: 2.66 X-Migadu-Scanner: scn1.migadu.com X-TUID: gAVBsWxMBr7W * gnu/packages/bioinformatics.scm (r-motifrg): Move from here... * gnu/packages/bioconductor.scm (r-motifrg): ...to here. --- gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++ gnu/packages/bioinformatics.scm | 27 --------------------------- 2 files changed, 27 insertions(+), 27 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index a7b1c63b56..47a245b4f5 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2924,6 +2924,33 @@ and the assessment of differential expression. The analysis methods apply to different technologies, including microarrays, RNA-seq, and quantitative PCR.") (license license:gpl2+))) +(define-public r-motifrg + (package + (name "r-motifrg") + (version "1.31.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "motifRG" version)) + (sha256 + (base32 + "1ml6zyzlk8yjbnfhga2qnw8nl43rankvka0kc1yljxr2b66aqbhn")))) + (properties `((upstream-name . "motifRG"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biostrings" ,r-biostrings) + ("r-bsgenome" ,r-bsgenome) + ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19) + ("r-iranges" ,r-iranges) + ("r-seqlogo" ,r-seqlogo) + ("r-xvector" ,r-xvector))) + (home-page "https://bioconductor.org/packages/motifRG") + (synopsis "Discover motifs in high throughput sequencing data") + (description + "This package provides tools for discriminative motif discovery in high +throughput genetic sequencing data sets using regression methods.") + (license license:artistic2.0))) + (define-public r-msnbase (package (name "r-msnbase") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 2cc41b7e98..e2000ccb68 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7872,33 +7872,6 @@ plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).") (license license:lgpl2.0+))) -(define-public r-motifrg - (package - (name "r-motifrg") - (version "1.31.0") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "motifRG" version)) - (sha256 - (base32 - "1ml6zyzlk8yjbnfhga2qnw8nl43rankvka0kc1yljxr2b66aqbhn")))) - (properties `((upstream-name . "motifRG"))) - (build-system r-build-system) - (propagated-inputs - `(("r-biostrings" ,r-biostrings) - ("r-bsgenome" ,r-bsgenome) - ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19) - ("r-iranges" ,r-iranges) - ("r-seqlogo" ,r-seqlogo) - ("r-xvector" ,r-xvector))) - (home-page "https://bioconductor.org/packages/motifRG") - (synopsis "Discover motifs in high throughput sequencing data") - (description - "This package provides tools for discriminative motif discovery in high -throughput genetic sequencing data sets using regression methods.") - (license license:artistic2.0))) - (define-public r-zlibbioc (package (name "r-zlibbioc") -- 2.30.1