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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=B43400.160009969132503 (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]:55984 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kHr1X-0008S5-5t for submit@debbugs.gnu.org; Mon, 14 Sep 2020 12:08:11 -0400 Received: from mail-wm1-f42.google.com ([209.85.128.42]:50482) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kHr1Q-0008Pu-R1 for 43400@debbugs.gnu.org; Mon, 14 Sep 2020 12:08:05 -0400 Received: by mail-wm1-f42.google.com with SMTP id e17so590971wme.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=uvM4H5/W/ophYQMaL/xksv8cYQyQ8aJM7OhpC/nOOtc=; b=qK3PpXCTqVnGk77lryoJ22M4j2CsxIdTer+gs1k2fyHXTcd77Z0vFi1ENK5byih+Mj YhaFeqlWWyeGB4YEihk+hCN31bBWKYbkVVrvtST8wsDpke2lqdHT4gB955DwAzDbBhuq oqBjNE9MVYI25raN6rU8QkVH8SDJvvGq/ZKYqa6dMvBVs2GvpcpUJwRQjFjlPdA6r1vd NSzaypY39+Sr/Smv4+v2oR0Y0hRDskkB7Z0EIeHkLFmbXp48FkrzUwVZZ6YPOFvdc1cF gbquuZw4i77LITrmo62CF7Km0a6oVnbF1BuyuJyRbyZca0myjIDa7YlzuxvbJLgZP7Iw NB+w== 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=uvM4H5/W/ophYQMaL/xksv8cYQyQ8aJM7OhpC/nOOtc=; b=Iuqu5PeiPCTD9r9NqNrJrgIwGeGkKwLWgK1gzfcEAI8OzsERpgZPtN0zeYQlISH/cJ zCKKwhtOki30Wm2BEsavjZkLyhoA16QsfS8JWDZGjMLoPu6OXNInrWXBBn/IVJhKYV7E 01+1gP9N7dFjuAxdDefeP1eBM4JSFjKqpcQRFjyc/pSJEoT0Kyoxeo7ErztpvlGlzrd9 lLY6xyL9CLula5T6y358NmCD4wKWn8ZHnGUgcQkNHsOzbottMSdcBvInGWnJiefmRSUE 2ueatfqBFXjxKCL9bXd4cIRzPnFZiB7ECyDYiwBkbXpG0MDNbNjxmgKRTX4W9Ze6Ssrs jIEQ== X-Gm-Message-State: AOAM533r8pG0ELMEPwvSGVDsakzpjjhyfHewbTXlGjZyRJBqKsuyFnkW 7zO4j7ZvuhQOosnwU/6Eo8y2KCBGaK8= X-Google-Smtp-Source: ABdhPJxrAPaAf4FqXitwSiW5b3Gz9odzckgbkwq7h/0BUeQ/GRKqIDvrx3TWmy9Hsw+rMzSPP50SVw== X-Received: by 2002:a1c:62d4:: with SMTP id w203mr114048wmb.146.1600099679015; Mon, 14 Sep 2020 09:07:59 -0700 (PDT) Received: from pfiuh02.univ-paris-diderot.fr ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id s5sm22012851wrm.33.2020.09.14.09.07.58 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Mon, 14 Sep 2020 09:07:58 -0700 (PDT) From: zimoun Date: Mon, 14 Sep 2020 18:07:42 +0200 Message-Id: <20200914160747.8983-7-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=qK3PpXCT; 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: 8cQws+dI2Nqp * gnu/packages/bioinformatics.scm (r-singlecellexperiment): Move from here... * gnu/packages/bioconductor.scm (r-singlecellexperiment): ...to here. --- gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++ gnu/packages/bioinformatics.scm | 29 ----------------------------- 2 files changed, 29 insertions(+), 29 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 52685a4df1..d9f7a9fb67 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -8336,6 +8336,35 @@ routines.") objects from the @code{graph} package.") (license license:epl1.0))) +(define-public r-singlecellexperiment + (package + (name "r-singlecellexperiment") + (version "1.10.1") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "SingleCellExperiment" version)) + (sha256 + (base32 + "092wvk11n7pa234vlwhxm3gdi4k3sbnz1splhxalbdhz3jf02zfp")))) + (properties + `((upstream-name . "SingleCellExperiment"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biocgenerics" ,r-biocgenerics) + ("r-s4vectors" ,r-s4vectors) + ("r-summarizedexperiment" ,r-summarizedexperiment))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://bioconductor.org/packages/SingleCellExperiment") + (synopsis "S4 classes for single cell data") + (description "This package defines an S4 class for storing data from +single-cell experiments. This includes specialized methods to store and +retrieve spike-in information, dimensionality reduction coordinates and size +factors for each cell, along with the usual metadata for genes and +libraries.") + (license license:gpl3))) + (define-public r-scater (package (name "r-scater") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 8dea6df8a1..ef6d6fc2d8 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10791,35 +10791,6 @@ variety of commonly used matrix types, including sparse and HDF5-backed matrices.") (license license:gpl3))) -(define-public r-singlecellexperiment - (package - (name "r-singlecellexperiment") - (version "1.10.1") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "SingleCellExperiment" version)) - (sha256 - (base32 - "092wvk11n7pa234vlwhxm3gdi4k3sbnz1splhxalbdhz3jf02zfp")))) - (properties - `((upstream-name . "SingleCellExperiment"))) - (build-system r-build-system) - (propagated-inputs - `(("r-biocgenerics" ,r-biocgenerics) - ("r-s4vectors" ,r-s4vectors) - ("r-summarizedexperiment" ,r-summarizedexperiment))) - (native-inputs - `(("r-knitr" ,r-knitr))) - (home-page "https://bioconductor.org/packages/SingleCellExperiment") - (synopsis "S4 classes for single cell data") - (description "This package defines an S4 class for storing data from -single-cell experiments. This includes specialized methods to store and -retrieve spike-in information, dimensionality reduction coordinates and size -factors for each cell, along with the usual metadata for genes and -libraries.") - (license license:gpl3))) - (define-public r-dropbead (let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247") (revision "2")) -- 2.28.0