From patchwork Fri May 21 20:25:55 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 29486 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 A679B27BC81; Fri, 21 May 2021 21:32:06 +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 3078427BC78 for ; Fri, 21 May 2021 21:32:06 +0100 (BST) Received: from localhost ([::1]:44430 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lkBoT-0002Vo-E3 for patchwork@mira.cbaines.net; Fri, 21 May 2021 16:32:05 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:52506) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lkBkg-0004h5-F6 for guix-patches@gnu.org; Fri, 21 May 2021 16:28:10 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:54501) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1lkBkg-0002zR-7f for guix-patches@gnu.org; Fri, 21 May 2021 16:28:10 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1lkBkg-0000Nc-4a for guix-patches@gnu.org; Fri, 21 May 2021 16:28:10 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#48575] [PATCH 23/50] gnu: r-keggrest: Move to (gnu packages bioconductor). Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 21 May 2021 20:28:10 +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=B48575.16216288501089 (code B ref 48575); Fri, 21 May 2021 20:28:10 +0000 Received: (at 48575) by debbugs.gnu.org; 21 May 2021 20:27:30 +0000 Received: from localhost ([127.0.0.1]:37741 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lkBk1-0000HO-Hm for submit@debbugs.gnu.org; Fri, 21 May 2021 16:27:29 -0400 Received: from mail-wm1-f47.google.com ([209.85.128.47]:40838) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lkBjP-00009g-6q for 48575@debbugs.gnu.org; Fri, 21 May 2021 16:26:51 -0400 Received: by mail-wm1-f47.google.com with SMTP id f6-20020a1c1f060000b0290175ca89f698so8049113wmf.5 for <48575@debbugs.gnu.org>; Fri, 21 May 2021 13:26:51 -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=5ASJt7NLUKS2jhQ62ZHnfqDYbm/o/myoTU5KS14EMC4=; b=Tfjez3V9BgI/ty3Pl5l85xJXIZY9MklFzcmwIdpgqG7i1W7t6OKbpmD7IpCW0G4LtZ otns8RVSlkZ6VSXpsdjFdh16HW18FWQUxg3WBjhG8nUN/kST7wqA0NhlSSgduxcs/kBo DIGLHnQ4ziocAxjFZV5wjgeQJeAMslxJtU29j53yBKvEQfU97AXR19RAeTQtQgZDO+m7 nTjATZrny2P1LFn0Pe8HhN0CTog3KHXUbf7CLwLXYB+iB0Ig2xWoNsImQ+WG5awpd/L1 M+La0PvuP7LcakY7aPHgF7UR16dD915tUQuUkHow8EmSq2NwgD5ISP2dSoexVw4NESUp dmMA== 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=5ASJt7NLUKS2jhQ62ZHnfqDYbm/o/myoTU5KS14EMC4=; b=p8gS2ZTfdGnIxGxahr53Ekejfc68Qdugtak1EfJLe5LIkVxUi97NeT7N8NB50J8HaM 3p8QftPIdUBn87oU597ik8ABGGBtJJfSXt6HCmvwUuk3pT2xW1sreW8PP0G7T6zo9UUy MFxZ/YlIQO4v5VDB0F5Fcyubs1mnw5zQy+l2quwsulQQv7ti4jSkx35NHcJoQIwx8Wbq twecPkX1gnvrKP255iKEWkED8Xr0G5LquLGrh78kdddebGh02laUOLayzJJEkINl/6Vu ynzTAbSmV14CGu0HZLT6FLSsBHTrr9YQH/69xENzHe1piIBXQbalCH5+een+5qdoqqIz /MVQ== X-Gm-Message-State: AOAM533zRyN+cBgxmcUsM2JQbpayEibfoJxEcP3xiX3SyW5QxFhtQmml YH4XfcZ51WAQDTLZRD2cWdwTyKCwGqA= X-Google-Smtp-Source: ABdhPJxt/jST7gQ3vW46fYBKAuP2tOCNWzFewhhYGL/m5cLba6Vl/Qx/lJ96dSJCcUbuPh0/h0NXfQ== X-Received: by 2002:a1c:b702:: with SMTP id h2mr10277720wmf.99.1621628805744; Fri, 21 May 2021 13:26:45 -0700 (PDT) Received: from localhost.localdomain ([193.48.40.110]) by smtp.gmail.com with ESMTPSA id j18sm542711wmq.27.2021.05.21.13.26.45 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Fri, 21 May 2021 13:26:45 -0700 (PDT) From: zimoun Date: Fri, 21 May 2021 22:25:55 +0200 Message-Id: <20210521202622.26591-23-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-keggrest): Move from here... * gnu/packages/bioconductor.scm (r-keggrest): ...to here. --- gnu/packages/bioconductor.scm | 26 ++++++++++++++++++++++++++ gnu/packages/bioinformatics.scm | 26 -------------------------- 2 files changed, 26 insertions(+), 26 deletions(-) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 6d60b5884c..5ee670e858 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2634,6 +2634,32 @@ microarray data, using nearest neighbor averaging.") Shiny-based display methods for Bioconductor objects.") (license license:artistic2.0))) +(define-public r-keggrest + (package + (name "r-keggrest") + (version "1.30.1") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "KEGGREST" version)) + (sha256 + (base32 + "0k9z85xf9la2y98xqmdmjb8mci9fh2fdybkl77x1yl26hyalip0s")))) + (properties `((upstream-name . "KEGGREST"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biostrings" ,r-biostrings) + ("r-httr" ,r-httr) + ("r-png" ,r-png))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://bioconductor.org/packages/KEGGREST") + (synopsis "Client-side REST access to KEGG") + (description + "This package provides a package that provides a client interface to the +@dfn{Kyoto Encyclopedia of Genes and Genomes} (KEGG) REST server.") + (license license:artistic2.0))) + (define-public r-limma (package (name "r-limma") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index b789ecd977..5dacf8a342 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8994,32 +8994,6 @@ 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-keggrest - (package - (name "r-keggrest") - (version "1.30.1") - (source - (origin - (method url-fetch) - (uri (bioconductor-uri "KEGGREST" version)) - (sha256 - (base32 - "0k9z85xf9la2y98xqmdmjb8mci9fh2fdybkl77x1yl26hyalip0s")))) - (properties `((upstream-name . "KEGGREST"))) - (build-system r-build-system) - (propagated-inputs - `(("r-biostrings" ,r-biostrings) - ("r-httr" ,r-httr) - ("r-png" ,r-png))) - (native-inputs - `(("r-knitr" ,r-knitr))) - (home-page "https://bioconductor.org/packages/KEGGREST") - (synopsis "Client-side REST access to KEGG") - (description - "This package provides a package that provides a client interface to the -@dfn{Kyoto Encyclopedia of Genes and Genomes} (KEGG) REST server.") - (license license:artistic2.0))) - (define-public r-gage (package (name "r-gage")