From unknown Thu Jun 19 13:57:01 2025 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.509 (Entity 5.509) Content-Type: text/plain; charset=utf-8 From: bug#74212 <74212@debbugs.gnu.org> To: bug#74212 <74212@debbugs.gnu.org> Subject: Status: [PATCH] gnu: Add r-seuratextend. Reply-To: bug#74212 <74212@debbugs.gnu.org> Date: Thu, 19 Jun 2025 20:57:01 +0000 retitle 74212 [PATCH] gnu: Add r-seuratextend. reassign 74212 guix-patches submitter 74212 Navid Afkhami severity 74212 normal tag 74212 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Tue Nov 05 11:50:02 2024 Received: (at submit) by debbugs.gnu.org; 5 Nov 2024 16:50:02 +0000 Received: from localhost ([127.0.0.1]:44579 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1t8Mkj-000531-JM for submit@debbugs.gnu.org; Tue, 05 Nov 2024 11:50:02 -0500 Received: from lists.gnu.org ([209.51.188.17]:59528) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1t8Mkd-00052i-Ag for submit@debbugs.gnu.org; Tue, 05 Nov 2024 11:49:59 -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 1t8Mka-0008Bc-JL for guix-patches@gnu.org; Tue, 05 Nov 2024 11:49:53 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1t8MkX-0004ND-8Q for guix-patches@gnu.org; Tue, 05 Nov 2024 11:49:51 -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 :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1730825385; x=1732639786; bh=ixElNNBTuYNrB/Y 5v950HtFRki5KYF9gfFwxE2JO7ug=; b=bte3AGE0Y2GwMWRUu0Rcbr8gU9kVA8M YN1j9REGe71QUSw9cnNPDPHSzjs6iPwOKJ3z2wCZE94dUSuewVgxfMBj7ZT7Khs0 OIRClC7pfLTEJkUrjnE731FDw0pzpr3yhsOdbJqY8R+RHYy14p6lhnAmYcHy5Y4k n8TpB+lX8bIk= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 518FAA023C for ; Tue, 5 Nov 2024 17:49:45 +0100 (CET) Received: from localhost (141.80.121.182) 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; Tue, 5 Nov 2024 17:49:44 +0100 From: Navid Afkhami To: Subject: [PATCH] gnu: Add r-seuratextend. Date: Tue, 5 Nov 2024 16:49:39 +0000 Message-ID: <797d9d30ec2c66d2e4eed6f9e6893a855c5189e3.1730825379.git.navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.43.0 MIME-Version: 1.0 X-Debbugs-Cc: Laurent Gatto , Ricardo Wurmus , Simon Tournier Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.121.182] 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-14.0.0.3223-9.1.2019-28778.001 X-TM-AS-Result: No-10--7.931400-5.000000 X-TMASE-MatchedRID: SzbEz7SZt2sEZ1mm50iAbnOjEKYddvv63O2+pOfl+vcwLJ9PZUBQhdvd jZ1tR/4hz0ptPRZypjnk9EII6md85IdGq5XlvEmXUrLQDoO1CVdrcVVB7l3jO7fZ43CDf3t1gyC DHnWW5JQMkbHh8hhHAI3KNeV/1h2+YyzfEmFWHCfk+QJ4zu017ReMyzU2fkklVc6oxg15iGYRLj qoJJt/9bkluvFQnURkoli4ZoiOHT/uW6lJECluluhy4rv4kGUk4FOQD8uxqjmmrVVYKkDAXToUM RfhCxqh6RKiZhXD+23b4eRTZfitXA== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--7.931400-5.000000 X-TMASE-Version: SMEX-14.0.0.3223-9.1.2019-28778.001 X-TM-SNTS-SMTP: 2B26EED1CA31C2E95C5894765D0AC3007F543FB4404850D9D819833C50508E332000:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=a2062.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, RCVD_IN_VALIDITY_CERTIFIED_BLOCKED=0.001, RCVD_IN_VALIDITY_RPBL_BLOCKED=0.001, 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: 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: -2.4 (--) * gnu/packages/cran.scm (r-seuratextend): New variable. Change-Id: I9ce0d90a2f05d4e074459046c380849cf9f63978 --- gnu/packages/cran.scm | 47 +++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 47 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index ab369c116c..b312c30099 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -38320,6 +38320,53 @@ (define-public r-scattermore data to rasters. It speeds up plotting of data with millions of points.") (license license:gpl3+))) +(define-public r-seuratextend + (let ((commit "5382e921f7b365c7b75b20d07cb455e4390fe36f") + (revision "1")) + (package + (name "r-seuratextend") + (version (git-version "1.0.7" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/huayc09/SeuratExtend") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1rlx20jyfdrymxn8b9dsf9n9jk9rwjjx1wy2f00layvd57g9ch2q")))) + (properties `((upstream-name . "SeuratExtend"))) + (build-system r-build-system) + (propagated-inputs (list r-biocmanager + r-dplyr + r-ggplot2 + r-ggpubr + r-glue + r-hdf5r + r-magrittr + r-mosaic + r-purrr + r-remotes + r-reshape2 + r-reticulate + r-rlist + r-scales + r-seurat + r-seuratextenddata + r-seuratobject + r-tidyr)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/huayc09/SeuratExtend") + (synopsis "Enhanced toolkit for scRNA-seq analysis") + (description + "This package is designed to improve and simplify the analysis of scRNA-seq data. +It uses the Seurat object for this purpose. It provides an array of +enhanced visualization tools, an integrated functional and pathway +analysis pipeline, seamless integration with popular Python tools, +and a suite of utility functions to aid in data manipulation and +presentation.") + (license license:gpl3+)))) + (define-public r-seuratextenddata (let ((commit "e7f17d4bacca436705b06b2cd0c879f83add9271") (revision "1")) base-commit: 4c56d0cccdc44e12484b26332715f54768738c5f prerequisite-patch-id: 8f31c5ea3685b59fb6907a9582c0ca537c9c38bd -- 2.43.0 From debbugs-submit-bounces@debbugs.gnu.org Wed Nov 06 05:49:36 2024 Received: (at 74212-done) by debbugs.gnu.org; 6 Nov 2024 10:49:36 +0000 Received: from localhost ([127.0.0.1]:39775 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1t8dbU-0000eT-5v for submit@debbugs.gnu.org; Wed, 06 Nov 2024 05:49:36 -0500 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21104) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1t8dbR-0000eI-AV for 74212-done@debbugs.gnu.org; Wed, 06 Nov 2024 05:49:34 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1730890169; cv=none; d=zohomail.com; s=zohoarc; b=BDgmEFbHsFBSd8lC2u8dOpoJBPPiR0DEmDDu9QUCOAM/bCda/oKFpPKTB+Jqz0EiKULm7YMD6CtNImtZpBNDo6gYR/WufxHd+sFCjzPOG+C1yzBpwx4YoCVi+23klDbWKB4p7QFDNQ4OTnq9TlCmZLPpofNV7CyaZHHsf5kdN2g= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1730890169; h=Content-Type:Cc:Cc:Date:Date:From:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:Subject:To:To:Message-Id:Reply-To; bh=fwUTJ5/QO0KpxyozHvEjl7WHG/XOm0nvzGI/8jArX64=; b=Y1pZCwYQW3zDoQs8rzsHAKB/U8IwcPY08nkzalvcgjrUY25bQ02xDUx5KHqR+kpD5C6X1zOrmRkgQ4pOHLXIojyhjf9lWcrnbEJ2ZP9kMFv+ipfufV2xuJU+YrYoyl82O7ojQXx09tjX/fkH53gRqyNTBE71Ni5IszDLoJ+fPAE= 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=1730890169; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Cc:Cc:Subject:Subject:In-Reply-To:References:Date:Date:Message-ID:MIME-Version:Content-Type:Message-Id:Reply-To; bh=fwUTJ5/QO0KpxyozHvEjl7WHG/XOm0nvzGI/8jArX64=; b=JHFw1ichO4StUevF9Y4n1vAA6HMXYVMBbQKtrLGgf5s9OVJScrmWSNEEuHBcLMAf gGCu+PFr5YEcDe/Ph+1YdRUSmZpP1VYw0LA7efqq6lKtlSqc1Gc0wzeKY1jLh0NE9NH FnGLBQ5ndBtlYMgxotnX5pfaY/BSaYwiqWnOQmbk= Received: by mx.zohomail.com with SMTPS id 173089016813276.48189870823103; Wed, 6 Nov 2024 02:49:28 -0800 (PST) From: Ricardo Wurmus To: Navid Afkhami Subject: Re: [bug#74212] [PATCH] gnu: Add r-seuratextend. In-Reply-To: <797d9d30ec2c66d2e4eed6f9e6893a855c5189e3.1730825379.git.navid.afkhami@mdc-berlin.de> (Navid Afkhami's message of "Tue, 5 Nov 2024 16:49:39 +0000") References: <797d9d30ec2c66d2e4eed6f9e6893a855c5189e3.1730825379.git.navid.afkhami@mdc-berlin.de> Date: Wed, 06 Nov 2024 11:49:24 +0100 Message-ID: <871pzok56z.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 74212-done Cc: 74212-done@debbugs.gnu.org, Laurent Gatto , Simon Tournier 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 (-) Navid Afkhami writes: > * gnu/packages/cran.scm (r-seuratextend): New variable. Thanks for the patch! I moved the package definition to bioinformatics. -- Ricardo From unknown Thu Jun 19 13:57:01 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Wed, 04 Dec 2024 12:24:07 +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