GNU bug report logs - #66515
[PATCH] gnu: Add r-mafh5-gnomad-v3-1-2-grch38.

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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#66515: closed ([PATCH] gnu: Add r-mafh5-gnomad-v3-1-2-grch38.)
Date: Fri, 13 Oct 2023 12:51:02 +0000

[Message part 1 (text/plain, inline)]

Your bug report

#66515: [PATCH] gnu: Add r-mafh5-gnomad-v3-1-2-grch38.

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 66515 <at> debbugs.gnu.org.

-- 
66515: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=66515
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 66515-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add r-mafh5-gnomad-v3-1-2-grch38.
Date: Fri, 13 Oct 2023 14:49:42 +0200

Applied after moving to annotation section.

Thank you!

-- 
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-mafh5-gnomad-v3-1-2-grch38.
Date: Fri, 13 Oct 2023 12:12:09 +0000

* gnu/packages/bioconductor.scm (r-mafh5-gnomad-v3-1-2-grch38): New variable.
---
 gnu/packages/bioconductor.scm | 30 ++++++++++++++++++++++++++++++
 1 file changed, 30 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index f6946b72c8..c3e65dda56 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1711,6 +1711,36 @@ (define-public r-italicsdata
     ;; Expanded from GPL
     (license (list license:gpl2+ license:gpl3+))))
 
+(define-public r-mafh5-gnomad-v3-1-2-grch38
+  (package
+    (name "r-mafh5-gnomad-v3-1-2-grch38")
+    (version "3.15.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "MafH5.gnomAD.v3.1.2.GRCh38" version
+                              'annotation))
+       (sha256
+        (base32 "18hzw7f41ii16qpm3ch516b773900l1m1id5z6a763m01fg0mhiq"))))
+    (properties `((upstream-name . "MafH5.gnomAD.v3.1.2.GRCh38")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-bsgenome
+                             r-genomeinfodb
+                             r-genomicranges
+                             r-genomicscores
+                             r-hdf5array
+                             r-iranges
+                             r-rhdf5
+                             r-s4vectors))
+    (home-page "https://bioconductor.org/packages/MafH5.gnomAD.v3.1.2.GRCh38")
+    (synopsis
+     "Minor allele frequency data from gnomAD version 3.1.2 for GRCh38")
+    (description
+     "This package is designed to store minor allele frequency data.
+It retrieves this data from the Genome Aggregation Database
+(@code{gnomAD} version 3.1.2) for the human genome version GRCh38.")
+    (license license:artistic2.0)))
+
 (define-public r-macrophage
   (package
     (name "r-macrophage")

base-commit: 844dd7dac76fa491a052df1d117a5d817cc8087c
-- 
2.34.1

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