From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp2 ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms11 with LMTPS id OAgzI7OWX1+FKQAA0tVLHw (envelope-from ) for ; Mon, 14 Sep 2020 16:13:39 +0000 Received: from aspmx1.migadu.com ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp2 with LMTPS id oL+CHbOWX1/WGgAAB5/wlQ (envelope-from ) for ; Mon, 14 Sep 2020 16:13:39 +0000 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by aspmx1.migadu.com (Postfix) with ESMTPS id 2424094060E for ; Mon, 14 Sep 2020 16:13:39 +0000 (UTC) Received: from localhost ([::1]:57900 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1kHr6o-0000vq-27 for larch@yhetil.org; Mon, 14 Sep 2020 12:13:38 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:55192) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1kHr2O-0004Sx-QQ for guix-patches@gnu.org; Mon, 14 Sep 2020 12:09:04 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:44453) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1kHr2O-0002ec-EK for guix-patches@gnu.org; Mon, 14 Sep 2020 12:09:04 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1kHr2O-0008UW-9x for guix-patches@gnu.org; Mon, 14 Sep 2020 12:09:04 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#43400] [PATCH 06/12] gnu: r-scater: Move to (gnu packages bioconductor). Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Mon, 14 Sep 2020 16:09:04 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 43400 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 43400@debbugs.gnu.org Cc: zimoun Received: via spool by 43400-submit@debbugs.gnu.org id=B43400.160009969132496 (code B ref 43400); Mon, 14 Sep 2020 16:09:04 +0000 Received: (at 43400) by debbugs.gnu.org; 14 Sep 2020 16:08:11 +0000 Received: from localhost ([127.0.0.1]:55982 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kHr1W-0008Rx-PJ for submit@debbugs.gnu.org; Mon, 14 Sep 2020 12:08:11 -0400 Received: from mail-wm1-f49.google.com ([209.85.128.49]:50486) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kHr1Q-0008Ps-2O for 43400@debbugs.gnu.org; Mon, 14 Sep 2020 12:08:04 -0400 Received: by mail-wm1-f49.google.com with SMTP id e17so590922wme.0 for <43400@debbugs.gnu.org>; Mon, 14 Sep 2020 09:08:04 -0700 (PDT) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20161025; h=from:to:cc:subject:date:message-id:in-reply-to:references :mime-version:content-transfer-encoding; bh=vw0BxB24GTNnXlmSVSp1zzGQZ2VIFQPPulQb+0BwQpI=; b=cdDRhjFUL6FX5UoiPMCOCX6S9ObMv5pw++fIe63KmW4toRM9wB2XgsSe1wrxKvamwz pPLplPCVVFgUgitp6lNT3vCVGY12Tj56zqpfJSg7gsv809V2jTWzlROLdTJQlXeBLUdx d44ZNIM5AhUT4y9iVSWFojq3c/e67/ZfcfyDPcqdvyjcohvnFaRPuVSPCYyEQNNS0Vjx yLK+m6iFdrrGZkDcgNZwYbQKQ5viAN7PWW6+2+jJJBiF8+yvqN92heh1C40RNQfM6NNf QQBo9pmBdNnoGSQ4sEizeMLeo+Z5xqdpY4ca5FWZb04KxGkSV2WDJaQfef9jZS+aKeOC rT2Q== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20161025; h=x-gm-message-state:from:to:cc:subject:date:message-id:in-reply-to :references:mime-version:content-transfer-encoding; bh=vw0BxB24GTNnXlmSVSp1zzGQZ2VIFQPPulQb+0BwQpI=; b=V+wFL5F3VbfeqKcOFSZjSLNaVJuAjrLrb1HbISGXk9D4PjBMA4W5zzKHq9gtOVegC3 NtHVVOzCINinOGdsR51ePY1SkQ14kTSMA8URVDgQOkB+r8MXkq2KTG14dsWJlK6HJbVJ BTc7p4Bf06SpeNmUsY8+XXrwgNw+vYpefYf6pUmEhcAkgDcj1xVwp/uxNH51x+oRfQ6T +DxGqJu7VN3EuEU3ck1NsxpziFPXc1DGOszQf5hTCljb6VasDrR9f19sK4Ht0kEbOmSy nDQTWJ7297o6iH20+M1YyK+a4TYrNriscnWsAKxirxEGfha7dplJP6OCh5/slSvY9BSK 6IKQ== X-Gm-Message-State: AOAM530qk9g0rB0vv+mQkHBC9/ucG0numOxI4+AY24IF2SDvUj4lWiPE tPjLyXlN+KA7gl8jYbod3bmg2I8usX0= X-Google-Smtp-Source: ABdhPJxitjYaBifEXekpJlDEYer8LIrNxTXk1zC1qp4xL/B/n2sr8mQnxfT0cdPPs8O8a86WVT3nyA== X-Received: by 2002:a1c:39c4:: with SMTP id g187mr121291wma.126.1600099678214; Mon, 14 Sep 2020 09:07:58 -0700 (PDT) Received: from pfiuh02.univ-paris-diderot.fr ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id s5sm22012851wrm.33.2020.09.14.09.07.56 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Mon, 14 Sep 2020 09:07:57 -0700 (PDT) From: zimoun Date: Mon, 14 Sep 2020 18:07:41 +0200 Message-Id: <20200914160747.8983-6-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.28.0 In-Reply-To: <20200914160747.8983-1-zimon.toutoune@gmail.com> References: <20200914160747.8983-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-Spam-Score: -1.0 (-) X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+larch=yhetil.org@gnu.org Sender: "Guix-patches" X-Scanner: scn0 Authentication-Results: aspmx1.migadu.com; dkim=fail (rsa verify failed) header.d=gmail.com header.s=20161025 header.b=cdDRhjFU; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Spam-Score: 4.09 X-TUID: He3A//2KQ0Wa * gnu/packages/bioinformatics.scm (r-scater): Move from here... * gnu/packages/bioconductor.scm (r-scater): ...to here. --- gnu/packages/bioconductor.scm | 37 +++++++++++++++++++++++++++++++++ gnu/packages/bioinformatics.scm | 37 --------------------------------- 2 files changed, 37 insertions(+), 37 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 77de0e2275..52685a4df1 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -8336,6 +8336,43 @@ routines.") objects from the @code{graph} package.") (license license:epl1.0))) +(define-public r-scater + (package + (name "r-scater") + (version "1.16.2") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "scater" version)) + (sha256 + (base32 + "1pa5wvgjb30rw1vsjwbnn07ss3sc5n8ck5d7khdby4r2s9177s33")))) + (build-system r-build-system) + (propagated-inputs + `(("r-beachmat" ,r-beachmat) + ("r-biocgenerics" ,r-biocgenerics) + ("r-biocneighbors" ,r-biocneighbors) + ("r-biocparallel" ,r-biocparallel) + ("r-biocsingular" ,r-biocsingular) + ("r-delayedarray" ,r-delayedarray) + ("r-delayedmatrixstats" ,r-delayedmatrixstats) + ("r-ggbeeswarm" ,r-ggbeeswarm) + ("r-ggplot2" ,r-ggplot2) + ("r-matrix" ,r-matrix) + ("r-rcpp" ,r-rcpp) + ("r-rlang" ,r-rlang) + ("r-s4vectors" ,r-s4vectors) + ("r-singlecellexperiment" ,r-singlecellexperiment) + ("r-summarizedexperiment" ,r-summarizedexperiment) + ("r-viridis" ,r-viridis))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/davismcc/scater") + (synopsis "Single-cell analysis toolkit for gene expression data in R") + (description "This package provides a collection of tools for doing +various analyses of single-cell RNA-seq gene expression data, with a focus on +quality control.") + (license license:gpl2+))) + (define-public r-scran (package (name "r-scran") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index dcafbb2d21..8dea6df8a1 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10820,43 +10820,6 @@ factors for each cell, along with the usual metadata for genes and libraries.") (license license:gpl3))) -(define-public r-scater - (package - (name "r-scater") - (version "1.16.2") - (source (origin - (method url-fetch) - (uri (bioconductor-uri "scater" version)) - (sha256 - (base32 - "1pa5wvgjb30rw1vsjwbnn07ss3sc5n8ck5d7khdby4r2s9177s33")))) - (build-system r-build-system) - (propagated-inputs - `(("r-beachmat" ,r-beachmat) - ("r-biocgenerics" ,r-biocgenerics) - ("r-biocneighbors" ,r-biocneighbors) - ("r-biocparallel" ,r-biocparallel) - ("r-biocsingular" ,r-biocsingular) - ("r-delayedarray" ,r-delayedarray) - ("r-delayedmatrixstats" ,r-delayedmatrixstats) - ("r-ggbeeswarm" ,r-ggbeeswarm) - ("r-ggplot2" ,r-ggplot2) - ("r-matrix" ,r-matrix) - ("r-rcpp" ,r-rcpp) - ("r-rlang" ,r-rlang) - ("r-s4vectors" ,r-s4vectors) - ("r-singlecellexperiment" ,r-singlecellexperiment) - ("r-summarizedexperiment" ,r-summarizedexperiment) - ("r-viridis" ,r-viridis))) - (native-inputs - `(("r-knitr" ,r-knitr))) - (home-page "https://github.com/davismcc/scater") - (synopsis "Single-cell analysis toolkit for gene expression data in R") - (description "This package provides a collection of tools for doing -various analyses of single-cell RNA-seq gene expression data, with a focus on -quality control.") - (license license:gpl2+))) - (define-public r-dropbead (let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247") (revision "2")) -- 2.28.0