From e65783e032f6a97e846493f3119985b6a10dd7b5 Mon Sep 17 00:00:00 2001
From: Ricardo Wurmus <rekado@elephly.net>
Date: Sat, 13 Jun 2020 00:51:07 +0200
Subject: [PATCH] gnu: r-motifbreakr: Update to 2.2.0.

* gnu/packages/bioconductor.scm (r-motifbreakr): Update to 2.2.0.
[propagated-inputs]: Add r-summarizedexperiment.
[native-inputs]: Add r-knitr.
---
 gnu/packages/bioconductor.scm | 31 +++++++++++++++++--------------
 1 file changed, 17 insertions(+), 14 deletions(-)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index c638749a04..b36465ca75 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4236,32 +4236,35 @@ frequency matrices from nine public sources, for multiple organisms.")
 (define-public r-motifbreakr
   (package
    (name "r-motifbreakr")
-   (version "2.0.0")
+   (version "2.2.0")
    (source (origin
             (method url-fetch)
             (uri (bioconductor-uri "motifbreakR" version))
             (sha256
-             (base32 "190z8gj393qdpq5wz7gph96k0l8c1j9wd0p0llscysvk5kr1hf9n"))))
+             (base32 "09czgmyjcycsvyvadpjddwwvqvxzd0ba3zhczh4mqc09gwa6vhlm"))))
    (properties `((upstream-name . "motifbreakR")))
    (build-system r-build-system)
    (propagated-inputs
-    `(("r-grimport" ,r-grimport)
-      ("r-stringr" ,r-stringr)
-      ("r-biocgenerics" ,r-biocgenerics)
-      ("r-s4vectors" ,r-s4vectors)
-      ("r-iranges" ,r-iranges)
-      ("r-genomeinfodb" ,r-genomeinfodb)
-      ("r-genomicranges" ,r-genomicranges)
+    `(("r-biocgenerics" ,r-biocgenerics)
+      ("r-biocparallel" ,r-biocparallel)
       ("r-biostrings" ,r-biostrings)
       ("r-bsgenome" ,r-bsgenome)
-      ("r-rtracklayer" ,r-rtracklayer)
-      ("r-variantannotation" ,r-variantannotation)
-      ("r-biocparallel" ,r-biocparallel)
-      ("r-motifstack" ,r-motifstack)
+      ("r-genomeinfodb" ,r-genomeinfodb)
+      ("r-genomicranges" ,r-genomicranges)
+      ("r-grimport" ,r-grimport)
       ("r-gviz" ,r-gviz)
+      ("r-iranges" ,r-iranges)
       ("r-matrixstats" ,r-matrixstats)
+      ("r-motifdb" ,r-motifdb)
+      ("r-motifstack" ,r-motifstack)
+      ("r-rtracklayer" ,r-rtracklayer)
+      ("r-s4vectors" ,r-s4vectors)
+      ("r-stringr" ,r-stringr)
+      ("r-summarizedexperiment" ,r-summarizedexperiment)
       ("r-tfmpvalue" ,r-tfmpvalue)
-      ("r-motifdb" ,r-motifdb)))
+      ("r-variantannotation" ,r-variantannotation)))
+   (native-inputs
+     `(("r-knitr" ,r-knitr)))
    (home-page "https://www.bioconductor.org/packages/motifbreakR/")
    (synopsis "Predicting disruptiveness of single nucleotide polymorphisms")
    (description "This package allows biologists to judge in the first place