From patchwork Mon Mar 15 18:09:01 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 27826 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 7D52627BC54; Mon, 15 Mar 2021 18:49:39 +0000 (GMT) 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_H3, 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 B443527BC52 for ; Mon, 15 Mar 2021 18:49:38 +0000 (GMT) Received: from localhost ([::1]:40746 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1lLsHZ-00033x-Tp for patchwork@mira.cbaines.net; Mon, 15 Mar 2021 14:49:37 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:37780) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lLrfJ-0007Mx-9U for guix-patches@gnu.org; Mon, 15 Mar 2021 14:10:05 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:53654) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1lLrfI-0003Nl-Tb for guix-patches@gnu.org; Mon, 15 Mar 2021 14:10:05 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1lLrfI-0004pE-Oz for guix-patches@gnu.org; Mon, 15 Mar 2021 14:10:04 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#47171] [PATCH 07/10] gnu: r-biocparallel: Move to (gnu packages bioconductor). Resent-From: zimoun Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Mon, 15 Mar 2021 18:10:04 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 47171 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 47171@debbugs.gnu.org Cc: zimoun Received: via spool by 47171-submit@debbugs.gnu.org id=B47171.161583177218441 (code B ref 47171); Mon, 15 Mar 2021 18:10:04 +0000 Received: (at 47171) by debbugs.gnu.org; 15 Mar 2021 18:09:32 +0000 Received: from localhost ([127.0.0.1]:36955 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lLrel-0004nH-UZ for submit@debbugs.gnu.org; Mon, 15 Mar 2021 14:09:32 -0400 Received: from mail-wr1-f45.google.com ([209.85.221.45]:45708) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lLref-0004lY-Ve for 47171@debbugs.gnu.org; Mon, 15 Mar 2021 14:09:26 -0400 Received: by mail-wr1-f45.google.com with SMTP id 61so6156058wrm.12 for <47171@debbugs.gnu.org>; Mon, 15 Mar 2021 11:09:25 -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=9tvzkp2H5GD3lS7uHSfS5tHmwqBWS2qgCunwFKXr+m0=; b=io0VYz1TEByLQcQ4e6ZDiHfZpgZ4gFzfuviknmwrKGlUoD9iMNs6HKG/iscnIbl1jl c4Nhabv2bKcPMa3Whnt5hIQzdq7LTPpnnEDGLP8rOsme9XXWrp6dWogDk3bQolmJjSy0 dvWTWHy9+4fLh2SKXzrd/or8f8Vrr2EhubAnvHJTx9W221cqQ5wqHDr5AodmHe3CPF+9 QSE3owdh9ij1dGXNgA5eOah7AVSWBqvqKPxf/UdMwWq7QTk/YTalQ8tUqGmxsa/8YR9u 4P24+/BDHLjuQsPGLyXaSZSVeliQpOi3j62nxiWeBlPvIzuLT5fXvLt0/pPGI8DLH1By HNpA== 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=9tvzkp2H5GD3lS7uHSfS5tHmwqBWS2qgCunwFKXr+m0=; b=iVw3pcqsTghxgfQYUEtjsQXwdxTtnd/AXri6jAOKlMXtRLNMW5yS+uZTrL1ts1Yhtz ymwENSTUkq8ynaEuJ7FH3qLXeCYSeJ5aDac6Oz7TVYjVwm4JbTpyZemCx47uIC5K10Yb DyNYvDYvSzDgOkeiChuWaevgUC2xQaGFlTzwIV8oQ8IdUeiQwH+M0Y2eiZe5D+sKTBM9 yPyNHfRf7C8/aDYWi3vVfvduM3LALgZQ5PWPDCIei84jwW6sYMEtr+LR1Yyox90OW9G8 o5JIHa50kkXgSOvS/gdV0jfnJHhAXmCW37o6glsULRr4HB+Fy8L/LiXgn7qOAZIGVT3c VCcA== X-Gm-Message-State: AOAM5334GeFYRyHGPWkA9F8dyqG+MAvHQ5lnInk+vyuiTxaEjbL0thaC SsI0c1bdnzOLayGt6r9JrOefChcdRJs= X-Google-Smtp-Source: ABdhPJxia1A5pd3205dI9NMuXuVVd5HboAJhlAKSkuZY/L1OLa56K1ei1YL3EGunh8dha1TYzuSfDQ== X-Received: by 2002:adf:b345:: with SMTP id k5mr949383wrd.14.1615831760440; Mon, 15 Mar 2021 11:09:20 -0700 (PDT) Received: from localhost.localdomain ([193.48.40.110]) by smtp.gmail.com with ESMTPSA id s11sm438851wme.22.2021.03.15.11.09.19 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Mon, 15 Mar 2021 11:09:20 -0700 (PDT) From: zimoun Date: Mon, 15 Mar 2021 19:09:01 +0100 Message-Id: <20210315180904.8346-7-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.30.1 In-Reply-To: <20210315180904.8346-1-zimon.toutoune@gmail.com> References: <20210315180904.8346-1-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-biocparallel): Move from here... * gnu/packages/bioconductor.scm (r-biocparallel): ...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 897e85dfe3..6482d8e4c1 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1659,6 +1659,33 @@ users direct access to a diverse set of data and enable a wide range of powerful online queries from gene annotation to database mining.") (license license:artistic2.0))) +(define-public r-biocparallel + (package + (name "r-biocparallel") + (version "1.24.1") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "BiocParallel" version)) + (sha256 + (base32 + "1iryicvmcagcrj29kp49mqhiq2kn72j4idj380hi9illmdrg9ism")))) + (properties + `((upstream-name . "BiocParallel"))) + (build-system r-build-system) + (propagated-inputs + `(("r-futile-logger" ,r-futile-logger) + ("r-snow" ,r-snow) + ("r-bh" ,r-bh))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://bioconductor.org/packages/BiocParallel") + (synopsis "Bioconductor facilities for parallel evaluation") + (description + "This package provides modified versions and novel implementation of +functions for parallel evaluation, tailored to use with Bioconductor +objects.") + (license (list license:gpl2+ license:gpl3+)))) + (define-public r-category (package (name "r-category") diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 289a96f572..af3fa36b19 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -7691,33 +7691,6 @@ including VCF header and contents in RDF and JSON.") (home-page "https://github.com/vcflib/bio-vcf") (license license:expat))) -(define-public r-biocparallel - (package - (name "r-biocparallel") - (version "1.24.1") - (source (origin - (method url-fetch) - (uri (bioconductor-uri "BiocParallel" version)) - (sha256 - (base32 - "1iryicvmcagcrj29kp49mqhiq2kn72j4idj380hi9illmdrg9ism")))) - (properties - `((upstream-name . "BiocParallel"))) - (build-system r-build-system) - (propagated-inputs - `(("r-futile-logger" ,r-futile-logger) - ("r-snow" ,r-snow) - ("r-bh" ,r-bh))) - (native-inputs - `(("r-knitr" ,r-knitr))) - (home-page "https://bioconductor.org/packages/BiocParallel") - (synopsis "Bioconductor facilities for parallel evaluation") - (description - "This package provides modified versions and novel implementation of -functions for parallel evaluation, tailored to use with Bioconductor -objects.") - (license (list license:gpl2+ license:gpl3+)))) - (define-public r-biostrings (package (name "r-biostrings")