From unknown Tue Aug 19 23:13:53 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#61251] [PATCH 2/3] gnu: Add r-bcellviper. Resent-From: Navid Afkhami Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 03 Feb 2023 12:20:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 61251 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 61251@debbugs.gnu.org X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.16754267694970 (code B ref -1); Fri, 03 Feb 2023 12:20:02 +0000 Received: (at submit) by debbugs.gnu.org; 3 Feb 2023 12:19:29 +0000 Received: from localhost ([127.0.0.1]:36660 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNv2O-0001I5-VG for submit@debbugs.gnu.org; Fri, 03 Feb 2023 07:19:29 -0500 Received: from lists.gnu.org ([209.51.188.17]:39730) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNv2O-0001Hm-8i for submit@debbugs.gnu.org; Fri, 03 Feb 2023 07:19:28 -0500 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 1pNv2K-0005Xj-JB for guix-patches@gnu.org; Fri, 03 Feb 2023 07:19:24 -0500 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 1pNv2I-0005p8-9P for guix-patches@gnu.org; Fri, 03 Feb 2023 07:19:24 -0500 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=1675426750; x=1677241151; bh=IzOPx4wThypuvHqyxfAHTEoBHsxmomtjeKTe91Xxwm4=; b=C1MhILLpRDpW 3j9YRnCbehIicnQ8tQmzKtWemkOuK6jTFoZT90DcNwcuBHtn2FTYOYhdzcBwQLkP 6+FWAsClInhMq0N/LWnFyb6ow6kAqwO06URCsh107JPstHiGJ1EDPDed7WpT1R1o YosxskkHqspJuU0BB+aaLwmLeGWvDQg= 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 6F00B300471 for ; Fri, 3 Feb 2023 13:19:10 +0100 (CET) Received: from localhost.localdomain (10.84.128.45) 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 15.1.2507.17; Fri, 3 Feb 2023 13:19:05 +0100 From: Navid Afkhami Date: Fri, 3 Feb 2023 13:18:53 +0100 Message-ID: <20230203121854.95308-2-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 In-Reply-To: <20230203121854.95308-1-navid.afkhami@mdc-berlin.de> References: <20230203121854.95308-1-navid.afkhami@mdc-berlin.de> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [10.84.128.45] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27424.007 X-TM-AS-Result: No-10--4.310400-5.000000 X-TMASE-MatchedRID: /+von0vPuFH/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkENBi hTOKX++2RRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8XjfR3d0weRlFexdJHJX6CepM qtPiQJGkigvsxCV7yoXPF44cFsZvM0N7DjAdxZNTi8zVgXoAltuJ5hXsnxp7jC24oEZ6SpSk6XE E7Yhw4FqEyPuTWsskax2siDKQnB+391IkCwx8EmS2Z6HhmRFk1+CQPx05nlQjrfam4l6XNJzZoi x8YAtS5yCTT9C8fWkqnjH/1auG6Ot8iatREjfpDE8nb9DwdQ4C2jbSab1pg0UjxFpwn53SOfhj5 CZkmSyI= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.310400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27424.007 X-TM-SNTS-SMTP: 542675C4D8BF71FA0DB670CCD57B2CAA75ACF4973867B06E80D415563DE5FEA32002: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: -2.3 (--) 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-bcellviper): New variable. --- gnu/packages/bioconductor.scm | 23 +++++++++++++++++++++++ 1 file changed, 23 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index aeef6f4106..521d6c00be 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1248,6 +1248,29 @@ (define-public r-arrmdata from Illumina 450k methylation arrays.") (license license:artistic2.0))) +(define-public r-bcellviper + (package + (name "r-bcellviper") + (version "1.34.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "bcellViper" version + 'experiment)) + (sha256 + (base32 + "1fpgh70x2r68v0ximgcdphnyzq2hgiwbamyhbac3yka8flhrd1fm")))) + (properties `((upstream-name . "bcellViper"))) + (build-system r-build-system) + (propagated-inputs (list r-biobase)) + (home-page "https://bioconductor.org/packages/bcellViper") + (synopsis + "Transcriptional interactome and normal human B-cell expression data") + (description + "This is a tool for human B-cell context-specific transcriptional regulatory network. +In addition, this package provides a human normal B-cells dataset for +the examples in package viper.") + (license license:gpl2+))) + (define-public r-bladderbatch (package (name "r-bladderbatch") -- 2.34.1 From unknown Tue Aug 19 23:13:53 2025 MIME-Version: 1.0 X-Mailer: MIME-tools 5.505 (Entity 5.505) X-Loop: help-debbugs@gnu.org From: help-debbugs@gnu.org (GNU bug Tracking System) To: Navid Afkhami Subject: bug#61251: closed ([PATCH 2/3] gnu: Add r-bcellviper.) Message-ID: References: <87edr692b9.fsf@elephly.net> <20230203121854.95308-2-navid.afkhami@mdc-berlin.de> X-Gnu-PR-Message: they-closed 61251 X-Gnu-PR-Package: guix-patches X-Gnu-PR-Keywords: patch Reply-To: 61251@debbugs.gnu.org Date: Fri, 03 Feb 2023 15:50:02 +0000 Content-Type: multipart/mixed; boundary="----------=_1675439402-14396-1" This is a multi-part message in MIME format... ------------=_1675439402-14396-1 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Your bug report #61251: [PATCH 2/3] gnu: Add r-bcellviper. which was filed against the guix-patches package, has been closed. The explanation is attached below, along with your original report. If you require more details, please reply to 61251@debbugs.gnu.org. --=20 61251: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D61251 GNU Bug Tracking System Contact help-debbugs@gnu.org with problems ------------=_1675439402-14396-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at 61251-done) by debbugs.gnu.org; 3 Feb 2023 15:49:39 +0000 Received: from localhost ([127.0.0.1]:39812 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNyJm-0003jH-Sb for submit@debbugs.gnu.org; Fri, 03 Feb 2023 10:49:39 -0500 Received: from sender3-of-o57.zoho.com ([136.143.184.57]:21783) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNyJj-0003j7-WC for 61251-done@debbugs.gnu.org; Fri, 03 Feb 2023 10:49:37 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1675439374; cv=none; d=zohomail.com; s=zohoarc; b=eiXs0d2kn9fWhPs9K7X242wEjAsAngna/hZPMDsy4ifeUjSHaCSykjOWh5t9nz0gfht+vSMkeJvGyJcGiDjwkaQk7spClkJpxUvya1HlMBbGhSpHx3pPs2Ju9yrQk69Q8mIlU9HK/kwQIzZHjRY+WwHPDQszvZVJ+SrePaG3DnE= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1675439374; h=Content-Type:Date:From:MIME-Version:Message-ID:Subject:To; bh=VG1LAp/EGbsdBwo79AT5alOgM25zAG9b1t+IIDa4dWU=; b=J9gdbYU2sVWHZPeUE1coPfUjToIR3L7KoEjsAsRD8bdzF1qBIuE1fldg6IHKTZl5ywOZOj6AKtJbz24u9F1C9zYeQhX6WvgFXXfsEM1RNyecrSeNCoU8DiBITaazpEUeXc+LAf3w3w4+CyJyVz2tAv1+IyiICWW8lkIfCZzaJAc= 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=1675439374; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Subject:Subject:Date:Date:Message-ID:MIME-Version:Content-Type:Message-Id:Reply-To:Cc; bh=VG1LAp/EGbsdBwo79AT5alOgM25zAG9b1t+IIDa4dWU=; b=iMEeRuZpsQKCk4lITSvg3bLPLFpSN+ULOzIvr4vxFqwkKfq5gGVTxJCIWeQkqTtx 8V+hmJEhNgBuhcMFBkiWiV7GkUVPfORFeB+JZ0zXtIuyXg5hb5buqTxNcoMSOKKJZ8A FN8ISP7pqzAEGw4/LJmFljsR58ncYsrHxzE6mYz4= Received: from localhost (i5E862D0C.versanet.de [94.134.45.12]) by mx.zohomail.com with SMTPS id 1675439373122710.939155569116; Fri, 3 Feb 2023 07:49:33 -0800 (PST) User-agent: mu4e 1.8.13; emacs 28.2 From: Ricardo Wurmus To: 61251-done@debbugs.gnu.org Subject: [PATCH 2/3] gnu: Add r-bcellviper. Date: Fri, 03 Feb 2023 16:49:15 +0100 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: <87edr692b9.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 61251-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 (-) Applied, thanks! -- Ricardo ------------=_1675439402-14396-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at submit) by debbugs.gnu.org; 3 Feb 2023 12:19:29 +0000 Received: from localhost ([127.0.0.1]:36660 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNv2O-0001I5-VG for submit@debbugs.gnu.org; Fri, 03 Feb 2023 07:19:29 -0500 Received: from lists.gnu.org ([209.51.188.17]:39730) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNv2O-0001Hm-8i for submit@debbugs.gnu.org; Fri, 03 Feb 2023 07:19:28 -0500 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 1pNv2K-0005Xj-JB for guix-patches@gnu.org; Fri, 03 Feb 2023 07:19:24 -0500 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 1pNv2I-0005p8-9P for guix-patches@gnu.org; Fri, 03 Feb 2023 07:19:24 -0500 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=1675426750; x=1677241151; bh=IzOPx4wThypuvHqyxfAHTEoBHsxmomtjeKTe91Xxwm4=; b=C1MhILLpRDpW 3j9YRnCbehIicnQ8tQmzKtWemkOuK6jTFoZT90DcNwcuBHtn2FTYOYhdzcBwQLkP 6+FWAsClInhMq0N/LWnFyb6ow6kAqwO06URCsh107JPstHiGJ1EDPDed7WpT1R1o YosxskkHqspJuU0BB+aaLwmLeGWvDQg= 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 6F00B300471 for ; Fri, 3 Feb 2023 13:19:10 +0100 (CET) Received: from localhost.localdomain (10.84.128.45) 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 15.1.2507.17; Fri, 3 Feb 2023 13:19:05 +0100 From: Navid Afkhami To: Subject: [PATCH 2/3] gnu: Add r-bcellviper. Date: Fri, 3 Feb 2023 13:18:53 +0100 Message-ID: <20230203121854.95308-2-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 In-Reply-To: <20230203121854.95308-1-navid.afkhami@mdc-berlin.de> References: <20230203121854.95308-1-navid.afkhami@mdc-berlin.de> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [10.84.128.45] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27424.007 X-TM-AS-Result: No-10--4.310400-5.000000 X-TMASE-MatchedRID: /+von0vPuFH/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkENBi hTOKX++2RRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8XjfR3d0weRlFexdJHJX6CepM qtPiQJGkigvsxCV7yoXPF44cFsZvM0N7DjAdxZNTi8zVgXoAltuJ5hXsnxp7jC24oEZ6SpSk6XE E7Yhw4FqEyPuTWsskax2siDKQnB+391IkCwx8EmS2Z6HhmRFk1+CQPx05nlQjrfam4l6XNJzZoi x8YAtS5yCTT9C8fWkqnjH/1auG6Ot8iatREjfpDE8nb9DwdQ4C2jbSab1pg0UjxFpwn53SOfhj5 CZkmSyI= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.310400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27424.007 X-TM-SNTS-SMTP: 542675C4D8BF71FA0DB670CCD57B2CAA75ACF4973867B06E80D415563DE5FEA32002: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: -2.3 (--) 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: -3.3 (---) * gnu/packages/bioconductor.scm (r-bcellviper): New variable. --- gnu/packages/bioconductor.scm | 23 +++++++++++++++++++++++ 1 file changed, 23 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index aeef6f4106..521d6c00be 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1248,6 +1248,29 @@ (define-public r-arrmdata from Illumina 450k methylation arrays.") (license license:artistic2.0))) +(define-public r-bcellviper + (package + (name "r-bcellviper") + (version "1.34.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "bcellViper" version + 'experiment)) + (sha256 + (base32 + "1fpgh70x2r68v0ximgcdphnyzq2hgiwbamyhbac3yka8flhrd1fm")))) + (properties `((upstream-name . "bcellViper"))) + (build-system r-build-system) + (propagated-inputs (list r-biobase)) + (home-page "https://bioconductor.org/packages/bcellViper") + (synopsis + "Transcriptional interactome and normal human B-cell expression data") + (description + "This is a tool for human B-cell context-specific transcriptional regulatory network. +In addition, this package provides a human normal B-cells dataset for +the examples in package viper.") + (license license:gpl2+))) + (define-public r-bladderbatch (package (name "r-bladderbatch") -- 2.34.1 ------------=_1675439402-14396-1--