GNU bug report logs - #61097
[PATCH] gnu: Add r-castor.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Subject: bug#61097: closed ([PATCH] gnu: Add r-castor.)
Date: Fri, 27 Jan 2023 19:12:02 +0000

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Your bug report

#61097: [PATCH] gnu: Add r-castor.

which was filed against the guix-patches package, has been closed.

The explanation is attached below, along with your original report.
If you require more details, please reply to 61097 <at> debbugs.gnu.org.

-- 
61097: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=61097
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 61097-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add r-castor.
Date: Fri, 27 Jan 2023 20:10:56 +0100

Applied with commit 5ebbedea5803fcee3d99eb15bacca838bf4c124d, thank you!

-- 
Ricardo

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From: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Subject: [PATCH] gnu: Add r-castor.
Date: Fri, 27 Jan 2023 16:05:17 +0100

* 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 <aniket112.patil <at> gmail.com>
 ;;; Copyright © 2021 Marcel Schilling <marcel.schilling <at> uni-luebeck.de>
 ;;; Copyright © 2021 Guillaume Le Vaillant <glv <at> posteo.net>
-;;; Copyright © 2022 Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
+;;; Copyright © 2022,2023 Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
 ;;; Copyright © 2022 Greg Hogan <code <at> greghogan.com>
 ;;;
 ;;; 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")
-- 
2.34.1

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