From patchwork Fri Mar 24 23:19:00 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 48652 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id CA5DF16FF1; Fri, 24 Mar 2023 23:21:49 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-1.8 required=5.0 tests=DKIM_INVALID,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id E413116FC9 for ; Fri, 24 Mar 2023 23:21:48 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1pfqhk-0002vu-Bf; Fri, 24 Mar 2023 19:20:16 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pfqhc-0002tI-SI for guix-patches@gnu.org; Fri, 24 Mar 2023 19:20:09 -0400 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1pfqhc-0002Di-Bs for guix-patches@gnu.org; Fri, 24 Mar 2023 19:20:08 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1pfqhc-0005p5-7g for guix-patches@gnu.org; Fri, 24 Mar 2023 19:20:08 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#62428] [PATCH 14/14] gnu: Add r-arrayqualitymetrics. Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 24 Mar 2023 23:20:08 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 62428 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: To: <62428@debbugs.gnu.org> Received: via spool by 62428-submit@debbugs.gnu.org id=B62428.167969998122246 (code B ref 62428); Fri, 24 Mar 2023 23:20:08 +0000 Received: (at 62428) by debbugs.gnu.org; 24 Mar 2023 23:19:41 +0000 Received: from localhost ([127.0.0.1]:41680 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pfqhA-0005mc-Pf for submit@debbugs.gnu.org; Fri, 24 Mar 2023 19:19:41 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:44897) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pfqgz-0005kP-2q for 62428@debbugs.gnu.org; Fri, 24 Mar 2023 19:19:29 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :references:in-reply-to:x-mailer:message-id:date:date:subject :subject:from:from:received; s=mdc; t=1679699960; x=1681514361; bh=hw63NtPPgj/cEoqZIlmcR95LDRQlFpJgL8NaL5NGHRE=; b=CsFiaK4V6J5B 1oTgNuCJQgf8PPyAfUdqANnluk2lubvHkjbEOFbU7qHP0TwbmUmdxtVSw6XhBNvZ RoezklMDT7YS/O00y0oM9fgTK+kNzI3+rCpiurinfw5os1gob1Jcz8Uv+LGBMdNJ HgnTka/quiQeQ3kQ2+IEcytYrXpSTPg= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS id 1F0CC3001CD for <62428@debbugs.gnu.org>; Sat, 25 Mar 2023 00:19:20 +0100 (CET) Received: from pimi-TRX40-AORUS-PRO-WIFI.lan (77.23.232.54) 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 15.1.2507.23; Sat, 25 Mar 2023 00:19:13 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Sat, 25 Mar 2023 00:19:00 +0100 Message-ID: <20230324231900.28367-14-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.39.2 In-Reply-To: <20230324231900.28367-1-madalinionel.patrascu@mdc-berlin.de> References: <20230324231900.28367-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [77.23.232.54] X-ClientProxiedBy: SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27524.003 X-TM-AS-Result: No-10--2.105400-5.000000 X-TMASE-MatchedRID: 4r2MyAYFTnf/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6rIGj0lq6L0YXjfR3d0weRhh1mpCXNVC8qbd h+ZHR69rF+KCpGE37CJsoi2XrUn/J8m+hzBStansfRoCwBzgRYsK21zBg2KlfCQvlWYtoEBHLqa IYEBIRhIU3Gs62OX1uQndELcZsq4lJ7Z0rexjc6sOFCT51VwnScK6BPLcMIqcshzQkxO+/gdD1q km1QqYayBr8AT+uPPcoQg4MrLBPLqN8mCVfMdDqzFFXNLNe3bF/6uEw9r+ytQ== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.105400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27524.003 X-TM-SNTS-SMTP: 08CC6DD37CC7598EFEF6A3ECF6F2323DB216039CE3511D85806A3ED7182D40602002:F 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-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-arrayqualitymetrics): New variable. --- gnu/packages/bioconductor.scm | 38 +++++++++++++++++++++++++++++++++++ 1 file changed, 38 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 6c114efd21..8792c94d29 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -3190,6 +3190,44 @@ (define-public r-antiprofiles tumor samples from healthy controls.") (license license:artistic2.0))) +(define-public r-arrayqualitymetrics + (package + (name "r-arrayqualitymetrics") + (version "3.54.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "arrayQualityMetrics" version)) + (sha256 + (base32 "0jz9b3f8x1aal4sskq1a09jpavhm8alggwbj3ka42fb89xymrz33")))) + (properties `((upstream-name . "arrayQualityMetrics"))) + (build-system r-build-system) + (propagated-inputs + (list r-affy + r-affyplm + r-beadarray + r-biobase + r-genefilter + r-gridsvg + r-hmisc + r-hwriter + r-lattice + r-latticeextra + r-limma + r-rcolorbrewer + r-setrng + r-svglite + r-vsn + r-xml)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/arrayQualityMetrics") + (synopsis "Quality metrics report for microarray data sets") + (description + "This package generates microarray quality metrics reports for data in +Bioconductor microarray data containers (ExpressionSet, NChannelSet, AffyBatch). +One and two color array platforms are supported.") + (license license:lgpl2.0+))) + (define-public r-arrayexpress (package (name "r-arrayexpress")