From debbugs-submit-bounces@debbugs.gnu.org Wed Apr 27 06:56:48 2022 Received: (at submit) by debbugs.gnu.org; 27 Apr 2022 10:56:48 +0000 Received: from localhost ([127.0.0.1]:41329 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1njfLk-0005Lk-HS for submit@debbugs.gnu.org; Wed, 27 Apr 2022 06:56:48 -0400 Received: from lists.gnu.org ([209.51.188.17]:55722) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1njfLi-0005Lc-7H for submit@debbugs.gnu.org; Wed, 27 Apr 2022 06:56:46 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:36996) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1njfLe-0000Bf-IZ for guix-patches@gnu.org; Wed, 27 Apr 2022 06:56:44 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:49233) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1njfLb-0003E5-Lj for guix-patches@gnu.org; Wed, 27 Apr 2022 06:56:41 -0400 Received: from localhost (localhost [127.0.0.1]) by c2062.mx.srv.dfn.de (Postfix) with ESMTP id 147DB300131 for ; Wed, 27 Apr 2022 12:56:28 +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=1651056987; x=1652871388; bh=p4xbLIPHF8SkX9m0d9wk6AlqD8jhE8NOqXNxvlEvSPk=; b=qeREP+ZpA2Ia lyUh7I2/KaulSXXgf20GBsPKneU7ucrYVFf2UYinxsoe/1znwfPTsdGy9UrVpQsK R1NyxuSY77i1apLMtI4XMh2nAZFeeWpfOc+/8ldlylh9hAfvKmb3RZc57g8d/3Of PCzuT6MFz4eNln8Q+FWLBlQSjnH/7MM= Received: from c2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-erl.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id lWVnDdrX5j-G for ; Wed, 27 Apr 2022 12:56:27 +0200 (CEST) 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 for ; Wed, 27 Apr 2022 12:56:27 +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 15.1.2375.24; Wed, 27 Apr 2022 12:56:26 +0200 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: Subject: [PATCH] gnu: Add r-affyrnadegradation. Date: Wed, 27 Apr 2022 12:56:14 +0200 Message-ID: <20220427105614.24849-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.34.0 MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain 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-14.0.0.3092-9.0.1000-26858.006 X-TM-AS-Result: No-10--2.387400-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkEJw6 tnDgS/8FRRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8qR3z0aoe9SaY5ZGw7wyeHU7O G9kn+Z5no8YFlXce3zXH6lk8XOkwLjbcgpFl911rGL//8mlodA0LixrsCJ1jTlCkt7JatNPWeAi CmPx4NwBnUJ0Ek6yhjxEHRux+uk8jfhP1xgyx3DDIX5QTaqGXaYbtyYsFhmQb20+BHUkSLmLsNk KqjcfeN/AdS3Xjr6xJmQnInvh8U6FV82UgOwMOfMLMtxsNAjTPttzwFtDryeNxSR7be7fnTFTs4 ljtt094P2K/+wkyxVzs7KL+6XFB4pSBl0hpeDh8= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.387400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1000-26858.006 X-TM-SNTS-SMTP: D966AFE5044A31B21C02F04345A2ABBF0642FD2183D156DEB13CA06296C445C42000:F Received-SPF: pass client-ip=194.95.238.172; envelope-from=MadalinIonel.Patrascu@mdc-berlin.de; helo=c2062.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-Spam-Score: -1.4 (-) X-Debbugs-Envelope-To: submit X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.4 (--) * gnu/packages/bioconductor.scm (r-affyrnadegradation): New variable. --- gnu/packages/bioconductor.scm | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 67ee6079c6..82aaf547a7 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1664,6 +1664,31 @@ (define-public r-adamgui the @code{GFAGpathUi} function.") (license license:gpl2+))) +(define-public r-affyrnadegradation + (package + (name "r-affyrnadegradation") + (version "1.40.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "AffyRNADegradation" version)) + (sha256 + (base32 + "00hzr62xn1i1w4g8krsxhivzwn8hd7hwhkdxyrpz6cs9vgr4x9kd")))) + (properties `((upstream-name . "AffyRNADegradation"))) + (build-system r-build-system) + (propagated-inputs (list r-affy)) + (home-page "https://bioconductor.org/packages/AffyRNADegradation") + (synopsis + "Analyze and correct probe positional bias in data due to RNA degradation") + (description + "The @code{AffyRNADegradation} package helps with the assessment and +correction of RNA degradation effects in Affymetrix 3' expression arrays. The +parameter @code{d} gives a robust and accurate measure of RNA integrity. The +correction removes the probe positional bias, and thus improves comparability +of samples that are affected by RNA degradation.") + ;; the R file header specifies GPL2 or later + (license license:gpl2+))) + (define-public r-aneufinder (package (name "r-aneufinder") base-commit: 4fb6ef6636acd7608889639c1b2e492517256f76 -- 2.34.0 From debbugs-submit-bounces@debbugs.gnu.org Wed Apr 27 10:21:27 2022 Received: (at 55144-done) by debbugs.gnu.org; 27 Apr 2022 14:21:27 +0000 Received: from localhost ([127.0.0.1]:43837 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1njiXn-0001Kf-Gm for submit@debbugs.gnu.org; Wed, 27 Apr 2022 10:21:27 -0400 Received: from sender4-of-o50.zoho.com ([136.143.188.50]:21087) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1njiXj-0001KN-DN for 55144-done@debbugs.gnu.org; Wed, 27 Apr 2022 10:21:26 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1651069280; cv=none; d=zohomail.com; s=zohoarc; b=TAMo+u+wLtk9NFf+40COq3Iw4d5SnszNupi8L1EUT4WHf191eHlqbOQKxYF/rzBe49xdqJYteKAnjZBjAF9BvB+tCVYxZAiLSj0M0lbO1sD1t/QXrF3TZUpWLosPPjFkaHHA48bQcUNmR4zA1oNcgLbjPlpNZZ2RUdNj/xTTUeA= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1651069280; h=Content-Type:Content-Transfer-Encoding:Cc:Date:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:To; bh=0NWs2SI1nVL6kRFzCbekv6e3BwraKvw7WVdn2MAdBts=; b=EKppvnuZNwsmYBm1JBlAVFb1hnY/gfAoyCVuPEjEGP0eJbevCPYCz64WTP753fbvOZA/IPbPspkXZylSlmSKPoQYN/va5KmJ1kL5H/WNS2hxM2745CZDlfcaax1KTc91nc6ix4jnhuzDuHK6WetMr8cE/JlN5icHLPuBszNf4Ow= ARC-Authentication-Results: i=1; mx.zohomail.com; dkim=pass header.i=elephly.net; spf=pass smtp.mailfrom=rekado@elephly.net; dmarc=pass header.from= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; t=1651069280; s=zoho; d=elephly.net; i=rekado@elephly.net; h=References:From:From:To:To:Cc:Cc:Subject:Subject:Date:Date:In-reply-to:Message-ID:MIME-Version:Content-Type:Content-Transfer-Encoding:Message-Id:Reply-To; bh=0NWs2SI1nVL6kRFzCbekv6e3BwraKvw7WVdn2MAdBts=; b=YGD7bsKWW+Kk0Fa2E6RyD+HorfVNKwCu2JmGOKt7iWjxnGh0PyH9IzNZf8G0/TtW bzX9T6BnTJw/Vrf0pujpEM9tdBykAlZUtroQJq0pr/tLKdBeOnbCbL5PotOmgxj+sRh gnqda4+nP+K5FIJVizuy6ydNnhSSNUnWousVxMLs= Received: from localhost (56-111-142-46.pool.kielnet.net [46.142.111.56]) by mx.zohomail.com with SMTPS id 1651069278823711.840303751235; Wed, 27 Apr 2022 07:21:18 -0700 (PDT) References: <20220427105614.24849-1-madalinionel.patrascu@mdc-berlin.de> User-agent: mu4e 1.6.10; emacs 28.0.50 From: Ricardo Wurmus To: =?utf-8?B?TcSDZMSDbGlu?= Ionel =?utf-8?Q?Patra=C8=99cu?= Subject: Re: [bug#55144] [PATCH] gnu: Add r-affyrnadegradation. Date: Wed, 27 Apr 2022 16:21:02 +0200 In-reply-to: <20220427105614.24849-1-madalinionel.patrascu@mdc-berlin.de> X-URL: https://elephly.net X-PGP-Key: https://elephly.net/rekado.pubkey X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6 2150 197A 5888 235F ACAC Message-ID: <87fsly4nfn.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable X-ZohoMailClient: External X-Spam-Score: -0.0 (/) X-Debbugs-Envelope-To: 55144-done Cc: 55144-done@debbugs.gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) M=C4=83d=C4=83lin Ionel Patra=C8=99cu = writes: > * gnu/packages/bioconductor.scm (r-affyrnadegradation): New variable. Applied, thanks! --=20 Ricardo From unknown Sat Aug 16 12:42:41 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Thu, 26 May 2022 11:24:09 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator