CRAN Package Check Results for Package BaseSet

Last updated on 2025-02-23 15:49:37 CET.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.0.0	8.71	238.63	247.34	OK
r-devel-linux-x86_64-debian-gcc	1.0.0	6.46	155.36	161.82	OK
r-devel-linux-x86_64-fedora-clang	1.0.0			394.30	OK
r-devel-linux-x86_64-fedora-gcc	1.0.0			439.62	OK
r-devel-macos-arm64	0.9.0			60.00	ERROR
r-devel-macos-x86_64	1.0.0			245.00	OK
r-devel-windows-x86_64	1.0.0	12.00	259.00	271.00	OK
r-patched-linux-x86_64	1.0.0	11.80	225.90	237.70	OK
r-release-linux-x86_64	1.0.0	8.23	230.49	238.72	OK
r-release-macos-arm64	0.9.0			57.00	NOTE
r-release-macos-x86_64	1.0.0			234.00	OK
r-release-windows-x86_64	1.0.0	10.00	235.00	245.00	OK
r-oldrel-macos-arm64	0.9.0			62.00	NOTE
r-oldrel-macos-x86_64	1.0.0			132.00	NOTE
r-oldrel-windows-x86_64	1.0.0	13.00	299.00	312.00	OK

Check Details

Version: 0.9.0
Check: examples
Result: ERROR 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’ The following object is masked from ‘package:BaseSet’: active The following object is masked from ‘package:utils’: findMatches The following objects are masked from ‘package:base’: I, expand.grid, unname Attaching package: ‘AnnotationDbi’ The following object is masked from ‘package:BaseSet’: select Loading required package: XML Loading required package: graph Attaching package: ‘graph’ The following object is masked from ‘package:XML’: addNode The following objects are masked from ‘package:BaseSet’: 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 Flavor: r-devel-macos-arm64

Version: 0.9.0
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘reactome.db’ Flavors: r-release-macos-arm64, r-oldrel-macos-arm64

Version: 1.0.0
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘reactome.db’ Flavor: r-oldrel-macos-x86_64