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Reply-To: bug#73230 <73230@debbugs.gnu.org> Date: Sat, 21 Jun 2025 03:05:08 +0000 retitle 73230 [PATCH] gnu: Add r-scdesign2. reassign 73230 guix-patches submitter 73230 "Afkhami, Navid" severity 73230 normal tag 73230 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Fri Sep 13 10:12:48 2024 Received: (at submit) by debbugs.gnu.org; 13 Sep 2024 14:12:48 +0000 Received: from localhost ([127.0.0.1]:43878 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sp72V-00014Z-LJ for submit@debbugs.gnu.org; Fri, 13 Sep 2024 10:12:48 -0400 Received: from lists.gnu.org ([209.51.188.17]:48388) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1sp72U-00014S-Ah for submit@debbugs.gnu.org; Fri, 13 Sep 2024 10:12:46 -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 1sp72K-0005FM-T4 for guix-patches@gnu.org; Fri, 13 Sep 2024 10:12:36 -0400 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1sp72G-0000j6-Gx for guix-patches@gnu.org; Fri, 13 Sep 2024 10:12:34 -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=1726236739; x=1728051140; bh=vv0n1NUABURZzzq Fvz4Jl4wzaU6BKHUiHXCWKifFTuo=; b=WqN4IzhOunAZyWDcBuu1RY0ZaXlEMgg Gh7BA/Qiul+N3rZ/pBRRuW5q0y8eYAhyI5DO3uYVTBOGQBJ30Kwib4C3kBh9CHUM jrb34cqY/h1/tJFNgDfZ/kuHmBYLOJvMLjxbVWaAeR4b4T2zWXVh/RKCpArWNn0U Rnw12qnUgIMQ= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by b2062.mx.srv.dfn.de (Postfix) with ESMTPS id 624B916018F for ; Fri, 13 Sep 2024 16:12:19 +0200 (CEST) Received: from localhost (141.80.218.27) 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 15.2.1544.11; Fri, 13 Sep 2024 16:12:18 +0200 From: "Afkhami, Navid" To: Subject: [PATCH] gnu: Add r-scdesign2. Date: Fri, 13 Sep 2024 14:09:32 +0000 Message-ID: <1449c6e9bfd444ebe80b8dc4098110ad7ead5d5e.1726236572.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-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-14.0.0.3152-9.1.2019-28662.000 X-TM-AS-Result: No-10--3.059400-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfNYhP20o6vOMFY9XYa1m8xAJ3y+iqiko29rIVA3IGfCC6DE DQa+uiKUXJ5suMuDH9GX7N8/O92sJRFj276yv/MdYBS4BO08ckNf0iqNWpSwuD4mDuxB3Odo1cA AdU8KAUxN8KYSdZ2ImGtq8STw2o5QhMuWRNodyWvk+QJ4zu017fVUZDyWvrKuD5teccobfJVbyC HfDNuoEznxJqun3snzhyRlPlpuvG58jn5m/BBaIyQUpPYm4k/LPew71UtoUt5bdbj4vSv1QipvR OaU/Uf6Dv0NpFvG9VuR9PRb1Z5k6wYpQiMGWvQDBpwdq4/0FqH7DHOlPK/9/GuLCTjzz6qi2qQa z8sERlrwQVgIdVG4FE5aD4ZIh+0xjhMO3DAp+0s= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--3.059400-5.000000 X-TMASE-Version: SMEX-14.0.0.3152-9.1.2019-28662.000 X-TM-SNTS-SMTP: 40C2708CE72D4FD6EE24392A651FE669C288BF59098AF2B238AF8734389621372000:F Received-SPF: pass client-ip=194.95.234.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=b2062.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: -1.4 (-) X-Debbugs-Envelope-To: submit Cc: "Afkhami, Navid" 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/bioinformatics.scm (r-scdesign2): New variable. Change-Id: I25599df1cb8493bc2d9cc1839b5232aee03bf848 --- gnu/packages/bioinformatics.scm | 27 +++++++++++++++++++++++++++ 1 file changed, 27 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4653360792..8b722f7bf2 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1184,6 +1184,33 @@ (define-public r-rhtslib12 developers of other R packages who wish to make use of HTSlib.") (license license:lgpl2.0+)))) +(define-public r-scdesign2 + (let ((commit "554f2c4b1a7ee6cc04969a287df9b3b77d7bb2fe") + (revision "1")) + (package + (name "r-scdesign2") + (version (git-version "1.0.0" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/JSB-UCLA/scDesign2") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "09zkz6qdcx54092ab6761ja3pclax9xzana8dk8qvxrdbjshb8p7")))) + (properties `((upstream-name . "scDesign2"))) + (build-system r-build-system) + (propagated-inputs (list r-mass r-pscl)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/JSB-UCLA/scDesign2") + (synopsis "Statistical simulator for scRNA-seq with gene correlation") + (description + "This package offers a flexible statistical simulator for scRNA-seq data. +It can generate data that captures gene correlation. Additionally, it allows +for varying the number of cells and sequencing depth.") + (license license:expat)))) + (define-public r-scenic (let ((commit "cedf8490a634da550cea2c831544e5f7f14467d2") (revision "1")) base-commit: 98bc13b9ea5f22a60de6c289d59072638001e08e -- 2.34.1 From debbugs-submit-bounces@debbugs.gnu.org Fri Nov 01 07:25:26 2024 Received: (at 73230-done) by debbugs.gnu.org; 1 Nov 2024 11:25:26 +0000 Received: from localhost ([127.0.0.1]:48752 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1t6pmP-0005KM-Ox for submit@debbugs.gnu.org; Fri, 01 Nov 2024 07:25:26 -0400 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21114) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1t6pmO-0005KE-5v for 73230-done@debbugs.gnu.org; Fri, 01 Nov 2024 07:25:24 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1730460322; cv=none; d=zohomail.com; s=zohoarc; b=OO28tyIgSBjghLuoFq9juZcwb5PmeG5jKZ2BDul9fBKK6g1bMb75Ghnq+q3b3Kxo2g3qgtLzpA+aKA8menzvkfjVZMhwpETytH/S6m3CsUtnh9OK0AoQojyhpy3DB/+GK6NQ5pyYthivsYMlPn3AM4kH8qJ3evyjpJqZpCMQKgo= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1730460322; h=Content-Type:Date:Date:From:From:MIME-Version:Message-ID:Subject:Subject:To:To:Message-Id:Reply-To:Cc; bh=VG1LAp/EGbsdBwo79AT5alOgM25zAG9b1t+IIDa4dWU=; b=eP3lWgBdFZh/6MN9FvnxvZN0fRzk2fedskeR+7qZv3vwTtqnCyfylBDQf/eoNMhlfL7FaYpyqd54eRK62ZvbHrNeeJR/cQObrpq5HqGzOhZvaD+d2a+gKMRClEKjYxJx7+6fPj619nSRpC3eeSv8elDzPyRBkJ4xKivUQAVpRq4= 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=1730460322; 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=fb1G198d7fMdTYGW40c85C2gSFcYBLQXMP+O3Fps9LZKF+eYkarsn9QgRm7FzPsW FOqDoIE5J5Q5ATHh61JbiPRbGHALyewIHmPlGc8lOyza+TOvtzCS5o7ywwPNIssQlBH eJeSvIelMoCFf7GEjyB/5X20JNljKKoT6x5K9hzM= Received: by mx.zohomail.com with SMTPS id 173046032048849.91885065403983; Fri, 1 Nov 2024 04:25:20 -0700 (PDT) From: Ricardo Wurmus To: 73230-done@debbugs.gnu.org Subject: [PATCH] gnu: Add r-scdesign2. 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