From unknown Wed Jun 18 23:04:33 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#63447 <63447@debbugs.gnu.org> To: bug#63447 <63447@debbugs.gnu.org> Subject: Status: [PATCH] gnu: Add r-dropletutils. Reply-To: bug#63447 <63447@debbugs.gnu.org> Date: Thu, 19 Jun 2025 06:04:33 +0000 retitle 63447 [PATCH] gnu: Add r-dropletutils. reassign 63447 guix-patches submitter 63447 M=C4=83d=C4=83lin Ionel Patra=C8=99cu severity 63447 normal tag 63447 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Thu May 11 12:30:41 2023 Received: (at submit) by debbugs.gnu.org; 11 May 2023 16:30:41 +0000 Received: from localhost ([127.0.0.1]:53247 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1px9Bg-00062p-QH for submit@debbugs.gnu.org; Thu, 11 May 2023 12:30:41 -0400 Received: from lists.gnu.org ([209.51.188.17]:46474) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1px9Bf-00062h-7k for submit@debbugs.gnu.org; Thu, 11 May 2023 12:30:39 -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 1px9Be-0005bD-Ur for guix-patches@gnu.org; Thu, 11 May 2023 12:30:38 -0400 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 1px9Bc-0005KP-6q for guix-patches@gnu.org; Thu, 11 May 2023 12:30:38 -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=1683822630; x=1685637031; bh=Dt+bFKZWglZgpNl 7z0eAYqytFHwdg1dw3hFpoi+9Sfk=; b=h4bop4oHT2zyWW34JFKNOWpQA0yhRlx oDK0NYTySCvZo22hBNgHGRa3U3Z4psEDPYseK7fTvWfqpT8kK+CkXDdwVpSGhHDF SVqTMGSvFy2aiFh4zsEu9XeCqTbmh14XPRIredYMK0f7ZRb88dyk+yw6PzH3szhR IClGx5+yTlHM= Received-SPF: Pass (mailfrom) identity=mailfrom; client-ip=141.80.113.62; helo=sw-it-p-ex4.mdc-berlin.net; envelope-from=madalinionel.patrascu@mdc-berlin.de; receiver= 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 7CBFBA0142 for ; Thu, 11 May 2023 18:30:30 +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 15.1.2507.23; Thu, 11 May 2023 18:30:29 +0200 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: Subject: [PATCH] gnu: Add r-dropletutils. Date: Thu, 11 May 2023 18:30:16 +0200 Message-ID: <20230511163016.19814-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.39.2 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-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-14.0.0.3092-9.0.1002-27620.000 X-TM-AS-Result: No-10--4.174300-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkENtL +zfrHC2wRRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8XjfR3d0weRhItcoSAIccJ0bT 1Y3RDNvRvzRCt0rfaa57nIUt1j4g83SWdjqTh/wrGL//8mlodAz5//buCv56OlwV2iaAfSWcURS Scn+QSXl1PyA7eE+Ph+gtHj7OwNO22utO5qEfOUWU1CkedNSO9nGCAFbBWQX+hsZid/8qdxh7hh hGUgR7xOAPxmxvpNm/tFw1H3ExvIQNd3ckJHT2QmlhBxy5C3TcUY0ri0HwrWnQJ88ZHP8DjvmJf 6uotZp79ZjtYmCyQ6k+HGwSCjLh6vuvB6gAgryg= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.174300-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27620.000 X-TM-SNTS-SMTP: 4C8ED340AFCF5B2E036A95A1089B75C7F55127E56BEC84FE09BA24A1DB58022A2002:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=MadalinIonel.Patrascu@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, 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-dropletutils): New variable. --- gnu/packages/bioconductor.scm | 44 +++++++++++++++++++++++++++++++++++ 1 file changed, 44 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index cb441655eb..b54585e97f 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4897,6 +4897,50 @@ (define-public r-drimseq results.") (license license:gpl3+))) +(define-public r-dropletutils + (package + (name "r-dropletutils") + (version "1.20.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "DropletUtils" version)) + (sha256 + (base32 "09xwfb4ihpsp465vb1zbcwm6ww6qi3spn9d8p4i1gczyc0p9pf1y")))) + (properties `((upstream-name . "DropletUtils"))) + (build-system r-build-system) + (propagated-inputs + (list r-beachmat + r-bh + r-biocgenerics + r-biocparallel + r-delayedarray + r-delayedmatrixstats + r-dqrng + r-edger + r-genomicranges + r-hdf5array + r-iranges + r-matrix + r-r-utils + r-rcpp + r-rhdf5 + r-rhdf5lib + r-s4vectors + r-scuttle + r-singlecellexperiment + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/DropletUtils") + (synopsis "Utilities for handling single-cell droplet data") + (description + "This package provides a number of utility functions for handling +single-cell (RNA-seq) data from droplet technologies such as 10X Genomics. +This includes data loading from count matrices or molecule information files, +identification of cells from empty droplets, removal of barcode-swapped pseudo- +cells, and downsampling of the count matrix.") + (license license:gpl3))) + (define-public r-dss (package (name "r-dss") base-commit: e2eb43f945fd467e9b55a4b3c91cd186cf32e268 -- 2.39.2 From debbugs-submit-bounces@debbugs.gnu.org Fri May 12 03:37:08 2023 Received: (at 63447-done) by debbugs.gnu.org; 12 May 2023 07:37:08 +0000 Received: from localhost ([127.0.0.1]:53946 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pxNKu-0000VF-H3 for submit@debbugs.gnu.org; Fri, 12 May 2023 03:37:08 -0400 Received: from sender3-of-o57.zoho.com ([136.143.184.57]:21762) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pxNKq-0000V1-6s for 63447-done@debbugs.gnu.org; Fri, 12 May 2023 03:37:07 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1683877021; cv=none; d=zohomail.com; s=zohoarc; b=mVZYPxYTQRcwZEUa/ouKIib5YOZdvhSrVkxFnR+Hbir0NbVA1TTQvXnkp/we5In/KOjol7LQ+7dqkYmRceavB9B6W/lTl41Ajl1pksHrWNwB6T66zeP6ZoxMt1oUxhVlknNOKDY8fc+N+khu/OoAQpazspnfwGjomKyUSbKBzig= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1683877021; h=Content-Type:Content-Transfer-Encoding:Cc:Date:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:To; bh=pov0ZO0oRQJv/7tIqus5CjIUAaLZwhgZDBhu6di3MnY=; b=XAzfg8NJB1P5R0Qk31hQHohzp8wPKsXYfLz+fiV04uZFiI9G13GP1I7Ae+3KuW6daMiHl54YAMn7WJ3Jy9cAuRFhjODVM8R2102tgCGiaB/KJWDoiwHuRDJM3H6gJ/Est0rwyYG51jLuwm/EOyjJekxShxlE1FWJTyEIFO4Us74= 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=1683877021; 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=pov0ZO0oRQJv/7tIqus5CjIUAaLZwhgZDBhu6di3MnY=; b=iy8Tw44bCtGG0hQ9plHZP/LegubXs6P1mbNnEkPYxDFatcWszirEiVAv9mbo2sTt jkZIb1IK6nUeVVIOkk6LtbYqECdWMz4ueWM1Z8A5KJKzWNeNCPVzp43y51iRjWUHtmn 7dxYKQ3hyAy8i1wPwa83+KqYvoXZu3yOQu5BJwNM= Received: from localhost (67-111-142-46.pool.kielnet.net [46.142.111.67]) by mx.zohomail.com with SMTPS id 1683877020750998.7938733307948; Fri, 12 May 2023 00:37:00 -0700 (PDT) References: <20230511163016.19814-1-madalinionel.patrascu@mdc-berlin.de> User-agent: mu4e 1.10.2; emacs 28.2 From: Ricardo Wurmus To: =?utf-8?B?TcSDZMSDbGlu?= Ionel =?utf-8?Q?Patra=C8=99cu?= Subject: Re: [bug#63447] [PATCH] gnu: Add r-dropletutils. Date: Fri, 12 May 2023 09:36:47 +0200 In-reply-to: <20230511163016.19814-1-madalinionel.patrascu@mdc-berlin.de> Message-ID: <87o7mqt2zq.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: 63447-done Cc: 63447-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-dropletutils): New variable. Applied, thanks! --=20 Ricardo From unknown Wed Jun 18 23:04:33 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Fri, 09 Jun 2023 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