From patchwork Fri May 21 20:25:48 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 29463 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id AEFBD27BC81; Fri, 21 May 2021 21:29:07 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_ADSP_CUSTOM_MED, DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H4, RCVD_IN_MSPIKE_WL,SPF_HELO_PASS,T_DKIM_INVALID,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 4179927BC78 for ; Fri, 21 May 2021 21:29:07 +0100 (BST) Received: from localhost ([::1]:37684 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lkBla-00066x-Dw for patchwork@mira.cbaines.net; Fri, 21 May 2021 16:29:06 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:52450) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lkBkd-0004XD-OM for guix-patches@gnu.org; Fri, 21 May 2021 16:28:07 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:54494) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1lkBkd-0002xO-Fb for guix-patches@gnu.org; Fri, 21 May 2021 16:28:07 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1lkBkd-0000Mm-C2 for guix-patches@gnu.org; Fri, 21 May 2021 16:28:07 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#48575] [PATCH 16/50] gnu: r-aroma-light: Move to (gnu packages bioconductor). Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 21 May 2021 20:28:07 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 48575 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 48575@debbugs.gnu.org Cc: zimoun Received: via spool by 48575-submit@debbugs.gnu.org id=B48575.16216288471035 (code B ref 48575); Fri, 21 May 2021 20:28:07 +0000 Received: (at 48575) by debbugs.gnu.org; 21 May 2021 20:27:27 +0000 Received: from localhost ([127.0.0.1]:37727 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lkBjy-0000GX-M7 for submit@debbugs.gnu.org; Fri, 21 May 2021 16:27:27 -0400 Received: from mail-wm1-f42.google.com ([209.85.128.42]:55099) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lkBjM-00008r-51 for 48575@debbugs.gnu.org; Fri, 21 May 2021 16:26:48 -0400 Received: by mail-wm1-f42.google.com with SMTP id o127so11748550wmo.4 for <48575@debbugs.gnu.org>; Fri, 21 May 2021 13:26:48 -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=/u8rovKZ0Gjsn0qr/2vksvjgQll2ckz8xJFStYmLxKc=; b=pRtXINn11bIaie7cPWB353ENvNLTYqBCeB/RzlZdjU/fKvZ3YaEto5x9ZPGBVN6JQb PIvTFQ5o5PQRGFreE+1jBH/zRD9rUSEVqhm3hVhuHU1oSSp1tkceFrpzLlAAmtjXW+fG D1Jj3kzJvUVTqn4hXkwoV/4RUDnXYvSTm2DV/6C8aNA36hjvwDxZ6GpDeszx0r/9YFc1 GVc3xynzifhmX7/XtnU/oie9qvnxHhX1QFc9/ZSdxg6ZZCLQkqMn8lu+5XyRxu5fhBY3 oryYSILjRjAK6pcW3wklK7SDzSw/monT9vYo4kF612Wpj5ULxXeYDLj/YG8FYsxSQMjy tSgg== 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=/u8rovKZ0Gjsn0qr/2vksvjgQll2ckz8xJFStYmLxKc=; b=d6OqZfHNF717jIzP8lqXi9McfDj78QIP2xoBRWcG6JAobpcAVpXyIsj0tXjhUK5ZYf 5HUJfaj1d0cmYrXNv0VUXf3dOHzOJbzYxK+HdWC5wJMR+foncRHGgILmtRN6+VZvmAcG mLK7XmiXBiWjNcjwWO7RQFVxe6Pfd2/PYC5HVuDBDFo5/sqNgPqz4BKuEpjcqWJYhnnE qy5z8MU4VV5vocdUoA8X+vUCFBVIGAcDLtPhJAv7sHd/zNoKc1Hf++A1D2YuRZx85uMn TEve79NtdR/9wmPbTguM/pZ6B9mUNYVPMNoegCjeytB9DrgZL5M2cDsjtB0XoRgjmTwW STUQ== X-Gm-Message-State: AOAM531LTfkBqonaU0pSrq034v94H7EbHZo09CkfRNCCs8NnaVLznnKw JGusi4QAcRR5sLmZZe7oqIy2rBPwjoc= X-Google-Smtp-Source: ABdhPJxO5l8hpp/Dv/Kst7/Lw+AM55eatpLNKgovUBSItaYyPnW8uhApElEH7LkSnGq51LzphHagLA== X-Received: by 2002:a7b:cb04:: with SMTP id u4mr10342199wmj.146.1621628802685; Fri, 21 May 2021 13:26:42 -0700 (PDT) Received: from localhost.localdomain ([193.48.40.110]) by smtp.gmail.com with ESMTPSA id j18sm542711wmq.27.2021.05.21.13.26.42 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Fri, 21 May 2021 13:26:42 -0700 (PDT) From: zimoun Date: Fri, 21 May 2021 22:25:48 +0200 Message-Id: <20210521202622.26591-16-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.30.1 In-Reply-To: <20210521202622.26591-1-zimon.toutoune@gmail.com> References: <20210521202622.26591-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioinformatics.scm (r-aroma-light): Move from here... * gnu/packages/bioconductor.scm (r-aroma-light): ...to here. --- gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++ gnu/packages/bioinformatics.scm | 27 --------------------------- 2 files changed, 27 insertions(+), 27 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 5e0b722e2f..e58cd66fef 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1782,6 +1782,33 @@ annotation data packages using SQLite data storage.") databases. Packages produced are intended to be used with AnnotationDbi.") (license license:artistic2.0))) +(define-public r-aroma-light + (package + (name "r-aroma-light") + (version "3.20.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "aroma.light" version)) + (sha256 + (base32 + "0pi37rlfqh24p9wd7l1xb3f7c7938xdscgcc5agp8c9qhajq25a0")))) + (properties `((upstream-name . "aroma.light"))) + (build-system r-build-system) + (propagated-inputs + `(("r-matrixstats" ,r-matrixstats) + ("r-r-methodss3" ,r-r-methodss3) + ("r-r-oo" ,r-r-oo) + ("r-r-utils" ,r-r-utils))) + (home-page "https://github.com/HenrikBengtsson/aroma.light") + (synopsis "Methods for normalization and visualization of microarray data") + (description + "This package provides methods for microarray analysis that take basic +data types such as matrices and lists of vectors. These methods can be used +standalone, be utilized in other packages, or be wrapped up in higher-level +classes.") + (license license:gpl2+))) + (define-public r-biobase (package (name "r-biobase") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 5b6426e17d..c8444eea9f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9022,33 +9022,6 @@ their variance is independent of the mean, and they are usually more sensitive and specific in detecting differential transcription.") (license license:artistic2.0))) -(define-public r-aroma-light - (package - (name "r-aroma-light") - (version "3.20.0") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "aroma.light" version)) - (sha256 - (base32 - "0pi37rlfqh24p9wd7l1xb3f7c7938xdscgcc5agp8c9qhajq25a0")))) - (properties `((upstream-name . "aroma.light"))) - (build-system r-build-system) - (propagated-inputs - `(("r-matrixstats" ,r-matrixstats) - ("r-r-methodss3" ,r-r-methodss3) - ("r-r-oo" ,r-r-oo) - ("r-r-utils" ,r-r-utils))) - (home-page "https://github.com/HenrikBengtsson/aroma.light") - (synopsis "Methods for normalization and visualization of microarray data") - (description - "This package provides methods for microarray analysis that take basic -data types such as matrices and lists of vectors. These methods can be used -standalone, be utilized in other packages, or be wrapped up in higher-level -classes.") - (license license:gpl2+))) - (define-public r-deseq (package (name "r-deseq")