GNU bug report logs - #71341
[PATCH] gnu: Add r-topdom.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: "Afkhami, Navid" <Navid.Afkhami <at> mdc-berlin.de>
Subject: bug#71341: closed ([PATCH] gnu: Add r-topdom.)
Date: Fri, 28 Jun 2024 10:00:02 +0000

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Your bug report

#71341: [PATCH] gnu: Add r-topdom.

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 71341 <at> debbugs.gnu.org.

-- 
71341: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=71341
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 71341-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add r-topdom.
Date: Fri, 28 Jun 2024 11:44:01 +0200

I've applied it with minor formatting and spelling changes.  Thanks!

-- 
Ricardo

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From: "Afkhami, Navid" <Navid.Afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: "Afkhami, Navid" <Navid.Afkhami <at> mdc-berlin.de>
Subject: [PATCH] gnu: Add r-topdom.
Date: Mon, 3 Jun 2024 14:47:35 +0000

* gnu/packages/cran.scm (r-topdom): New variable.

Change-Id: I63d265470499affc8f0de94f88739c6631281a0d
---
 gnu/packages/cran.scm | 24 ++++++++++++++++++++++++
 1 file changed, 24 insertions(+)

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 16a864be93..b0ccee37bb 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -31108,6 +31108,30 @@ (define-public r-tolerance
 Visualizations are also available for most of these settings.")
     (license license:gpl2+)))
 
+(define-public r-topdom
+  (package
+    (name "r-topdom")
+    (version "0.10.1")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "TopDom" version))
+       (sha256
+        (base32 "1rryfnwvdlpdrjgs6sciy91cxfp4jykll0swclasydjvj4n642i6"))))
+    (properties `((upstream-name . "TopDom")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-ggplot2 r-matrixstats r-reshape2 r-tibble))
+    (home-page "https://github.com/HenrikBengtsson/TopDom")
+    (synopsis "Efficient method for Identifying genomic topological domains")
+    (description
+     "This method identifies topological domains in genomes from Hi-C sequence data.
+The authors published an implementation of their method as an R script.  This package
+originates from those original @code{TopDom} R scripts and provides help pages adopted
+from the original @code{TopDom} PDF documentation.  It also provides a small number of
+bug fixes to the original code.")
+    ;; Either version of the GPL
+    (license (list license:gpl2 license:gpl3))))
+
 ;; Keep this in sync with the liblantern package.
 (define-public r-torch
   (package

base-commit: 1615084a9a4115d48b75b3db048761e7534efc87
prerequisite-patch-id: 191a8394dbe6f865a9dc55bfc1b62e9dffc2180d
prerequisite-patch-id: 3ddb7b281335b1bb4ced1e60a1f243a12a5cba2b
-- 
2.34.1

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