Running examples in ‘BaseSet-Ex.R’ failed
The error most likely occurred in:

> ### Name: tidy
> ### Title: Convert GSEABase classes to a TidySet
> ### Aliases: tidy tidy.GeneSetCollection tidy.GeneSet
> 
> ### ** Examples
> 
> # Needs GSEABase pacakge from Bioconductor
> if (requireNamespace("GSEABase", quietly = TRUE)) {
+     library("GSEABase")
+     gs <- GeneSet()
+     gs
+     tidy(gs)
+     fl <- system.file("extdata", "Broad.xml", package="GSEABase")
+     gs2 <- getBroadSets(fl) # actually, a list of two gene sets
+     TS <- tidy(gs2)
+     dim(TS)
+     sets(TS)
+ }
Loading required package: BiocGenerics
Loading required package: generics

Attaching package: ‘generics’

The following objects are masked from ‘package:BaseSet’:

    tidy, union

The following objects are masked from ‘package:base’:

    as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
    setequal, union


Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
    mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
    rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
    unsplit, which.max, which.min

Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

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    active

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    findMatches

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    I, expand.grid, unname


Attaching package: ‘AnnotationDbi’

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    select

Loading required package: XML
Loading required package: graph

Attaching package: ‘graph’

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    addNode

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    complement, intersection


Attaching package: ‘GSEABase’

The following object is masked from ‘package:BaseSet’:

    incidence

Error in UseMethod("tidy") : 
  no applicable method for 'tidy' applied to an object of class "GeneSet"
Calls: tidy
Execution halted