From debbugs-submit-bounces@debbugs.gnu.org Fri Sep 11 14:09:13 2020 Received: (at 43345) by debbugs.gnu.org; 11 Sep 2020 18:09:13 +0000 Received: from localhost ([127.0.0.1]:45403 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kGnTx-0005LT-A4 for submit@debbugs.gnu.org; Fri, 11 Sep 2020 14:09:13 -0400 Received: from mail-wr1-f49.google.com ([209.85.221.49]:45983) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kGnTr-0005JX-9a for 43345@debbugs.gnu.org; Fri, 11 Sep 2020 14:09:04 -0400 Received: by mail-wr1-f49.google.com with SMTP id x14so12306329wrl.12 for <43345@debbugs.gnu.org>; Fri, 11 Sep 2020 11:09:03 -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=g7rhCsHt2XZ43/To/b3xi/8qxEzaJ7g6F4B1Ev2D1CI=; b=f631N6kwu5fvCKqnxZfk9xSKvg/bCQgGABUzuIhuqn4frQW6xMuDphT4iYZl+/BTcJ 6Tg8Sp2YlI3VQjFt8RNXyhMQrVcl0sIouAqn54NTpgjAraBF2vBFtfXlfC7j4mM/F9Fh SAePkDCLp83jdG+2QhElabIukuy+ERSsWTy6x24qc0wbmCzaA89VsXJuq656oCes+I5g /p8Q3bCkZsr6eWcrb4tIsFph29CRUc7tmjx8isBt/JEe8BxOPck/lwtmGcwEhMZr4cXJ cdW0KbF4JdvpmPLxXAG9VAgQUhats5aabwaQPvbU84VfOWP3ikv3+dy8gI+2hq/eCCu/ wk8w== 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=g7rhCsHt2XZ43/To/b3xi/8qxEzaJ7g6F4B1Ev2D1CI=; b=JX7mT7WczA/k1uRKNud3uPkzS7E7xHIWprnXocCCHdWSNSZlXpeJZ5JmUgnkyusH9I AvULVfQb3fLq8JogMCJ/pLuurwRY+llqT7RWJevG2gxkyuSBhNxF8gvARHdonqYULkvS Emt2dNDsGEiCBpay9aCi/r+lQ7rA0TFdbVaEL+9Y09jN+B31emrpEGwtRGQ14tyPULgP CluWkmOEpdJbq1DSa0nHv0uYjqsYAr9SR+aG+gIULj0mgS9AVMqnOpvJjn1eboqQ99lH CRaMsDM81CSmvNZ1ZFdMZc68P3WOzRUaET3ZRTlvvZVNbl6srFrbLKbBz03QzjTXq0gC nxRg== X-Gm-Message-State: AOAM530B5wfqS+7fFfUN7Qt1R8Si+/gRToQxed7K0Gi1OdRjvNMursFK QRwB0CVcdtnbwlbke4bmeaGFybay5hQ= X-Google-Smtp-Source: ABdhPJxT/zl/srfO4N6BrkgNLDPm25vw2KReypZgKRwIfbzuqlyR7flkHmWXYuuPCu1SiJHQ09QUEA== X-Received: by 2002:a5d:4088:: with SMTP id o8mr3180702wrp.112.1599847737490; Fri, 11 Sep 2020 11:08:57 -0700 (PDT) Received: from pfiuh02.univ-paris-diderot.fr ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id y1sm5914005wmd.22.2020.09.11.11.08.56 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Fri, 11 Sep 2020 11:08:56 -0700 (PDT) From: zimoun To: 43345@debbugs.gnu.org Subject: [PATCH 05/12] gnu: r-qtl: Move to (gnu packages cran). Date: Fri, 11 Sep 2020 20:08:42 +0200 Message-Id: <20200911180849.12582-5-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.28.0 In-Reply-To: <20200911180849.12582-1-zimon.toutoune@gmail.com> References: <20200911180849.12582-1-zimon.toutoune@gmail.com> MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 43345 Cc: zimoun X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) * gnu/packages/bioinformatics.scm (r-qtl): Move from here ... * gnu/packages/cran.scm (r-qtl): ... to here. --- gnu/packages/bioinformatics.scm | 25 ------------------------- gnu/packages/cran.scm | 26 ++++++++++++++++++++++++++ 2 files changed, 26 insertions(+), 25 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index cab3df222c..ae728f09dc 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8510,31 +8510,6 @@ Stephens (1990).") throughput genetic sequencing data sets using regression methods.") (license license:artistic2.0))) -(define-public r-qtl - (package - (name "r-qtl") - (version "1.46-2") - (source - (origin - (method url-fetch) - (uri (string-append "mirror://cran/src/contrib/qtl_" - version ".tar.gz")) - (sha256 - (base32 - "0rbwcnvyy96gq1dsgpxx03pv423qya26h6ws5y0blj3blfdmj83a")))) - (build-system r-build-system) - (home-page "https://rqtl.org/") - (synopsis "R package for analyzing QTL experiments in genetics") - (description "R/qtl is an extension library for the R statistics -system. It is used to analyze experimental crosses for identifying -genes contributing to variation in quantitative traits (so-called -quantitative trait loci, QTLs). - -Using a hidden Markov model, R/qtl estimates genetic maps, to -identify genotyping errors, and to perform single-QTL and two-QTL, -two-dimensional genome scans.") - (license license:gpl3))) - (define-public r-qtl2 (package (name "r-qtl2") diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 717bd36d4d..868f660e41 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -1,6 +1,7 @@ ;;; GNU Guix --- Functional package management for GNU ;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020 Ricardo Wurmus ;;; Copyright © 2015 Andreas Enge +;;; Copyright © 2015, 2016 Pjotr Prins ;;; Copyright © 2016, 2017 Ben Woodcroft ;;; Copyright © 2016, 2017, 2018, 2020 Roel Janssen ;;; Copyright © 2017, 2018, 2019, 2020 Tobias Geerinckx-Rice @@ -23701,3 +23702,28 @@ It can handle large graphs very well and provides functions for generating random and regular graphs, graph visualization, centrality methods and much more.") (license license:gpl2+))) + +(define-public r-qtl + (package + (name "r-qtl") + (version "1.46-2") + (source + (origin + (method url-fetch) + (uri (string-append "mirror://cran/src/contrib/qtl_" + version ".tar.gz")) + (sha256 + (base32 + "0rbwcnvyy96gq1dsgpxx03pv423qya26h6ws5y0blj3blfdmj83a")))) + (build-system r-build-system) + (home-page "https://rqtl.org/") + (synopsis "R package for analyzing QTL experiments in genetics") + (description "R/qtl is an extension library for the R statistics +system. It is used to analyze experimental crosses for identifying +genes contributing to variation in quantitative traits (so-called +quantitative trait loci, QTLs). + +Using a hidden Markov model, R/qtl estimates genetic maps, to +identify genotyping errors, and to perform single-QTL and two-QTL, +two-dimensional genome scans.") + (license license:gpl3))) -- 2.28.0