GNU bug report logs - #56158
[PATCH] gnu: Add r-assessorf.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
Subject: bug#56158: closed ([PATCH] gnu: Add r-assessorf.)
Date: Mon, 31 Oct 2022 20:43:03 +0000

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

Your bug report

#56158: [PATCH] gnu: Add r-assessorf.

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 56158 <at> debbugs.gnu.org.

-- 
56158: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=56158
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 56158-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add r-assessorf.
Date: Mon, 31 Oct 2022 21:41:41 +0100

Applied, thanks!

-- 
Ricardo

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From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Subject: [PATCH] gnu: Add r-assessorf.
Date: Thu, 23 Jun 2022 11:42:57 +0200

* gnu/packages/bioconductor.scm (r-assessorf): New variable.
---
 gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++
 1 file changed, 29 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1e87b190c2..3f7743b0cb 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2029,6 +2029,35 @@ (define-public r-aneufinder
 sequencing data.")
     (license license:artistic2.0)))
 
+(define-public r-assessorf
+  (package
+    (name "r-assessorf")
+    (version "1.14.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "AssessORF" version))
+              (sha256
+               (base32
+                "1l87bpny9k3jbzbzmb9h2ijvblrj471gqv26fyzbvb3vr6y406z7"))))
+    (properties `((upstream-name . "AssessORF")))
+    (build-system r-build-system)
+    (propagated-inputs
+     (list r-biostrings
+           r-decipher
+           r-genomicranges
+           r-iranges))
+    (native-inputs (list r-knitr))
+    (home-page "https://bioconductor.org/packages/AssessORF")
+    (synopsis "Assess gene predictions using proteomics and evolutionary conservation")
+    (description
+     "In order to assess the quality of a set of predicted genes for a genome,
+evidence must first be mapped to that genome.  Next, each gene must be categorized
+based on how strong the evidence is for or against that gene.  The @code{AssessORF}
+package provides the functions and class structures necessary for accomplishing
+those tasks, using proteomics hits and evolutionarily conserved start codons as
+the forms of evidence.")
+    (license license:gpl3)))
+
 (define-public r-biocversion
   (package
     (name "r-biocversion")

base-commit: e74fa406e1043547242a8b67ab9907fea7aae6b9
-- 
2.36.1

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