From debbugs-submit-bounces@debbugs.gnu.org Fri Aug 25 07:16:24 2023 Received: (at submit) by debbugs.gnu.org; 25 Aug 2023 11:16:24 +0000 Received: from localhost ([127.0.0.1]:39439 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qZUnf-0005Wj-NS for submit@debbugs.gnu.org; Fri, 25 Aug 2023 07:16:24 -0400 Received: from lists.gnu.org ([2001:470:142::17]:56728) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qZUnd-0005WU-3R for submit@debbugs.gnu.org; Fri, 25 Aug 2023 07:16:21 -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 1qZUnS-00072F-QX for guix-patches@gnu.org; Fri, 25 Aug 2023 07:16:10 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1qZUnP-0008Pi-Sz for guix-patches@gnu.org; Fri, 25 Aug 2023 07:16:10 -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 :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1692962162; x=1694776563; bh=hOFePf0QXCUAnbC wxJ9seRmaCkJxFRNo9EkINW/OMbU=; b=NvgGXrxBaEXA+zLxmWmDL68g6ZrB70E momnkH6JfzDtrbMeakPKTnS9Kk6Y3H8vlIjPO322ICgsUoE8wkIKT/9EXh46vgNE NaFnGSuzQCdudY4uOrCRCXhlLKJlNrR/D9USVOPknYAtSVU+d5B1NTiTlZc3VPZG bkjSgQEMV/QU= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS id 572DF3003A0 for ; Fri, 25 Aug 2023 13:16:02 +0200 (CEST) Received: from localhost (141.80.218.27) by SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.32; Fri, 25 Aug 2023 13:16:01 +0200 From: Navid Afkhami To: Subject: [PATCH] gnu: r-classdiscovery: Update to 3.4.0. Date: Fri, 25 Aug 2023 11:15:51 +0000 Message-ID: <86f4a95a7ee7469b7e79f26a481700f6ba2d1395.1692962151.git.navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27834.007 X-TM-AS-Result: No-10--2.281700-5.000000 X-TMASE-MatchedRID: TmNStTWUwr0v+0FNnM7lDQPZZctd3P4BArRmBtM54pQvpwCyYSvA/q4r mQIDoB6SezEj+0i6bhiL/bBjrat2kuW5YZxMb7aK3QqJN4m15UE+f/27gr+ejpcFdomgH0lnFEU knJ/kEl5lVdRvgpNpe/oLR4+zsDTtEPs/OvZqkzNruV6hT84yE3BrgQfKED5dgQV/+ylxkCvxpP 6qfRhUTlPzc8xTOIlh53L7MlXkINAAkK+wTWvn64B0TwXduCBNDEsdqCu2cam8UvoS2CbF0OkoF VH1kpgqNUhZ7098bYP2V6KaaFydpd7iGSOCYkyWEDyOB8C3mhA= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.281700-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27834.007 X-TM-SNTS-SMTP: 0396CC39AACDE27CA8202F71D86EF7632B44A49ADE7A2F861575AAC04E38BFC12000:F Received-SPF: pass client-ip=194.95.238.172; envelope-from=Navid.Afkhami@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 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: 0.9 (/) X-Debbugs-Envelope-To: submit Cc: Navid Afkhami 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: -0.1 (/) * gnu/packages/cran.scm (r-classdiscovery): Update to 3.4.0. --- gnu/packages/cran.scm | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 43a9e11fea..9226805717 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -66,6 +66,7 @@ (define-module (gnu packages cran) #:use-module (gnu packages algebra) #:use-module (gnu packages autotools) #:use-module (gnu packages base) + #:use-module (gnu packages bioconductor) #:use-module (gnu packages bioinformatics) #:use-module (gnu packages c) #:use-module (gnu packages compression) @@ -1630,7 +1631,7 @@ (define-public r-classdiscovery (synopsis "Classes and methods for \"Class Discovery\" with microarrays or proteomics") (description - "This package defines classes for \"class discovery\" in OOMPA project. + "This package defines classes for \"class discovery\" in OOMPA project. Class discovery primarily consists of unsupervised clustering methods with attempts to assess their statistical significance.") (license license:asl2.0))) base-commit: 1c916c167b7eb1f2f8af2cf621aa1512b00b1033 prerequisite-patch-id: ab9aad8c0ca60c38323f24b41dd3d5b1c3286e10 prerequisite-patch-id: c57cd1d51559f364cccdc54030deb28d7692bf48 prerequisite-patch-id: fbceb485e63c38a57a5c46288287479afe028191 -- 2.34.1 From debbugs-submit-bounces@debbugs.gnu.org Mon Aug 28 08:34:47 2023 Received: (at 65530) by debbugs.gnu.org; 28 Aug 2023 12:34:47 +0000 Received: from localhost ([127.0.0.1]:47329 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qabSA-0003m8-L8 for submit@debbugs.gnu.org; Mon, 28 Aug 2023 08:34:46 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:49489) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qabS7-0003lr-76 for 65530@debbugs.gnu.org; Mon, 28 Aug 2023 08:34:45 -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 :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1693226069; x=1695040470; bh=nepYGk822if6Uy5 QLV3Hq5dsNW/AQ+INh3sYduuSYmw=; b=ROQRSTe879fBF+rYumKpM3+mTKW5V/1 0I5x2Yn30ZaEsDGuexMXbI/hQFPJ4kS01lW5wOZAvgMEzH3NhtbB07A5QF22HBJA YkrATyAM2r0C5sTze381d/VsMsc5V/8bfjWRIucTHpvSE+wf+0kG869TiNgEx1Ia oL2r4mvahrZY= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 60C6CA026C for <65530@debbugs.gnu.org>; Mon, 28 Aug 2023 14:34:29 +0200 (CEST) Received: from localhost (141.80.218.27) by SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.32; Mon, 28 Aug 2023 14:34:28 +0200 From: Navid Afkhami To: <65530@debbugs.gnu.org> Subject: [PATCH] gnu: Add r-classdiscovery. Date: Mon, 28 Aug 2023 12:34:18 +0000 Message-ID: <97955c28991010a44b9c3579b1798fd38c20c6f5.1693226058.git.navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27840.007 X-TM-AS-Result: No-10--2.247100-5.000000 X-TMASE-MatchedRID: /+von0vPuFH/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeM3ZbGC9oP/O0op D+RCCRBkRRa406V/YwyBUGewL2YXt8Z8zsjIitoJ71Wx2uUbPLfkwFzTzcgzhF/TJVF6hUztqbs +nJ/tFJGGsZX0q3FpiOhAZQXEXXZuLJutez2dKWfi8zVgXoAltlPcOF1Vw1gmC24oEZ6SpSk6XE E7Yhw4FjQ/UKvyEzEdmunxcvFSUZxpxF/1UEQ/Df+ZeHsbkCeiD/7d8r9Y2GeU+WXlwWoNAOTfG rW0f9IgSnF4V/oqrxpgWgdYAwt8dbdKECLo/klXhRFX0MbNzemQ4JrfEHpLweZmgnjb/yyM1RkH asLA4hI= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.247100-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27840.007 X-TM-SNTS-SMTP: E54F0E7497CF5EC95D0F50687837316C6EC9D00A892A8729BACF9E55462747ED2000:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 65530 Cc: Navid Afkhami 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: -3.3 (---) * gnu/packages/bioconductor.scm (r-classdiscovery): 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 0e01f3115d..81fe723779 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -13924,6 +13924,31 @@ (define-public r-enrichplot All the visualization methods are developed based on ggplot2 graphics.") (license license:artistic2.0))) +;; This is a CRAN package, but it depends on Bioconductor packages and module. +;; That is why we added it here! +(define-public r-classdiscovery + (package + (name "r-classdiscovery") + (version "3.4.0") + (source (origin + (method url-fetch) + (uri (cran-uri "ClassDiscovery" version)) + (sha256 + (base32 + "06l7jvpcdynij05hb0ka33zpg7xdyqyzfzx24s0bnlspp83yc62s")))) + (properties `((upstream-name . "ClassDiscovery"))) + (build-system r-build-system) + (propagated-inputs (list r-biobase r-cluster r-mclust r-oompabase + r-oompadata)) + (home-page "http://oompa.r-forge.r-project.org/") + (synopsis + "Classes and Methods for \"Class Discovery\" with Microarrays or Proteomics") + (description + "This package defines classes for \"class discovery\" in OOMPA project. +Class discovery primarily consists of unsupervised clustering methods +with attempts to assess their statistical significance.") + (license license:asl2.0))) + (define-public r-clusterprofiler (package (name "r-clusterprofiler") base-commit: 4a49a89b09d07d96f4d6ef3c0ca93801370f7b20 -- 2.34.1 From debbugs-submit-bounces@debbugs.gnu.org Mon Aug 28 11:11:34 2023 Received: (at 65530-done) by debbugs.gnu.org; 28 Aug 2023 15:11:34 +0000 Received: from localhost ([127.0.0.1]:48758 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qadtu-0008TN-7s for submit@debbugs.gnu.org; Mon, 28 Aug 2023 11:11:34 -0400 Received: from sender4-of-o50.zoho.com ([136.143.188.50]:21023) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qadts-0008TB-Rj for 65530-done@debbugs.gnu.org; Mon, 28 Aug 2023 11:11:33 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1693235484; cv=none; d=zohomail.com; s=zohoarc; b=PG3G5GhODOVMp1SvIW1Y6eMDDLd0hk4fwKJ3+9z66cPt+943WOWEeyN0LV+eW8CRPh/jgL78lF/x74Z/jL39Q/ejspSnZHgiRY43QUj7qcs4NAmoACRJDO1ec5rkRHBqVjw1DzFW3tC1qOoCtrumF5yCpPmJ8DLaWV0i/F6dVhE= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1693235484; h=Content-Type:Content-Transfer-Encoding:Date:Date:From:From:MIME-Version:Message-ID:Subject:Subject:To:To:Message-Id:Reply-To:Cc; bh=Tugx7K/Ovsl40B0gfj5mSiT0KqbruLQ1USn13y+uZhg=; b=HwBNBhEmyFhM2OjC+K2HZzsJzKTIn0hi1xK6jLS6SJSfHFrSL1Tos45n1yIR7DjOgVs5Kd23kLprGxImytWktJJfFlcjmlficp5r+o5tRUiMkI26letoeAeXdDgt53lWQEc+Zlw8L3R+xfyO8PAaPg3lQZ2Lm70C11f/1cAK0Go= 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=1693235484; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Subject:Subject:Date:Date:Message-ID:MIME-Version:Content-Type:Content-Transfer-Encoding:Message-Id:Reply-To:Cc; bh=Tugx7K/Ovsl40B0gfj5mSiT0KqbruLQ1USn13y+uZhg=; b=BCmfLx8Ar8FR+FQFP9ylKOZG9Evu5PpYh6zpgK9xyzEjNNgyyjTRP5hSZaLdQjPb 0LGEYIoALekEdBSqzbzgdkRw1uU5YYdjBE7o5zIOR3ehr1uaaedt9CYeIYJPrOITt+R /2QZt4KINljgdjdlvS3Wwei0Dcm0F9y4wJsk9UFY= Received: from localhost (113-111-142-46.pool.kielnet.net [46.142.111.113]) by mx.zohomail.com with SMTPS id 16932354821991022.6164971256196; Mon, 28 Aug 2023 08:11:22 -0700 (PDT) User-agent: mu4e 1.10.5; emacs 28.2 From: Ricardo Wurmus To: 65530-done@debbugs.gnu.org Subject: [PATCH] gnu: r-classdiscovery: Update to 3.4.0. Date: Mon, 28 Aug 2023 17:10:54 +0200 Message-ID: <87r0nndwx4.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: 65530-done 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 (-) Thanks for the corrected patch. I=E2=80=99ve applied it. --=20 Ricardo From unknown Fri Jun 20 07:23:36 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. 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