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Resent-From: Navid Afkhami Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 27 Jan 2023 15:06:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 61097 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 61097@debbugs.gnu.org X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.167483195823229 (code B ref -1); Fri, 27 Jan 2023 15:06:02 +0000 Received: (at submit) by debbugs.gnu.org; 27 Jan 2023 15:05:58 +0000 Received: from localhost ([127.0.0.1]:38242 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pLQIf-00062b-T2 for submit@debbugs.gnu.org; Fri, 27 Jan 2023 10:05:58 -0500 Received: from lists.gnu.org ([209.51.188.17]:56896) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pLQIc-00062R-LT for submit@debbugs.gnu.org; Fri, 27 Jan 2023 10:05:56 -0500 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pLQIc-0003sp-9G for guix-patches@gnu.org; Fri, 27 Jan 2023 10:05:54 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pLQIY-0004rI-9o for guix-patches@gnu.org; Fri, 27 Jan 2023 10:05:54 -0500 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-transfer-encoding:content-type:content-type:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1674831929; x=1676646330; bh=yR4ZjddZ/0spLiH yAVuZw9/9ZAMFiQVJtbeBPhDJ/Rw=; b=IZ0Xvm0L3jJIftvKKNSEagz5U0S0Tz2 rdkAENFOAGiiRzuT7lRV97dOujv8QnDPeP/H9hKUUnhqWYiFN4OsCCtE0ASVzwo/ +qSMVNyzrloBdE6AYi2UM8NZC0CAIlSOYfqMg8FgSgDGYjAEeNm1ynoLbOn9+lQ1 nEfe8pFiIDV8= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 69DB8A0524 for ; Fri, 27 Jan 2023 16:05:29 +0100 (CET) Received: from localhost.localdomain (10.84.128.74) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.17; Fri, 27 Jan 2023 16:05:28 +0100 From: Navid Afkhami Date: Fri, 27 Jan 2023 16:05:17 +0100 Message-ID: <20230127150517.33849-1-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 X-Originating-IP: [10.84.128.74] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27412.000 X-TM-AS-Result: No-10-0.480600-5.000000 X-TMASE-MatchedRID: GQw6Xh/XS6X/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOU8ftiyKjZrRjx 55n/478OoK9M8rNZd7SpAHLwSiW7QpT6aKfZ6tn9a87CDXaKRVJITEcvqjcF4EJZ5MDd4/kU5wM PMqdPNSx+CxzcGwLNWDdXvUUlUc7GjCdeLVo6OBizdz0FxOSzHLEPn6mTzpGcjpvD0UdCUNwpzW EpqR83WRDGJu1g7pgtElOOOz3JPpijxYyRBa/qJUl4W8WVUOR/9xS3mVzWUuAojN1lLei7RSjos msRelswCnx7T6kteE9PcmRc+loXpVC0oCDPBfysvBGlMg3nj9DBVY4Zi/dzLNCRVyzhs88BeTWn SrIpo03LMoz9JPXm11koJqWxWZxCNZA9irUk5qtj27eUrb9iufzsdE1PQouS X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10-0.480600-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27412.000 X-TM-SNTS-SMTP: E0A7ED4C554AA958E84504A1F593FF99567F8D9F7438AF5C2C0E97F074B2E11B2002:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=a2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action 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-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-castor): New variable. --- gnu/packages/cran.scm | 28 +++++++++++++++++++++++++++- 1 file changed, 27 insertions(+), 1 deletion(-) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index dce349890a..51c9230156 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -35,7 +35,7 @@ ;;; Copyright © 2020 Aniket Patil ;;; Copyright © 2021 Marcel Schilling ;;; Copyright © 2021 Guillaume Le Vaillant -;;; Copyright © 2022 Navid Afkhami +;;; Copyright © 2022,2023 Navid Afkhami ;;; Copyright © 2022 Greg Hogan ;;; ;;; This file is part of GNU Guix. @@ -256,6 +256,32 @@ (define-public r-cachem automatically pruning objects to maintain the constraints.") (license license:expat))) +(define-public r-castor + (package + (name "r-castor") + (version "1.7.6") + (source (origin + (method url-fetch) + (uri (cran-uri "castor" version)) + (sha256 + (base32 + "1qbndwmzzpkzgiah0hgid9z5f9iv2j53d515bjcci1591gx1fk36")))) + (properties `((upstream-name . "castor"))) + (build-system r-build-system) + (propagated-inputs (list r-matrix r-naturalsort r-rcpp r-rspectra)) + (home-page "https://cran.r-project.org/package=castor") + (synopsis "Efficient phylogenetics on large trees") + (description + "This tool analyses on massive phylogenies comprising up to millions of tips. +Functions include pruning, rerooting, calculation of most-recent +common ancestors, calculating distances from the tree root and calculating +pairwise distances. In addition, This tool takes care of Calculation of +phylogenetic signal and mean trait depth (trait conservatism), ancestral state +reconstruction and hidden character prediction of discrete characters, simulating +and fitting models of trait evolution, fitting and simulating diversification +models, dating trees, comparing trees, and reading/writing trees in Newick format.") + (license license:gpl2+))) + (define-public r-collections (package (name "r-collections")