* using log directory 'd:/Rcompile/CRANpkg/local/4.4/massiveGST.Rcheck'
* using R version 4.4.3 (2025-02-28 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'massiveGST/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'massiveGST' version '1.2.3'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'massiveGST' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [1s] OK
* checking whether the package can be loaded with stated dependencies ... [1s] OK
* checking whether the package can be unloaded cleanly ... [1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s] OK
* checking whether the namespace can be unloaded cleanly ... [1s] OK
* checking loading without being on the library search path ... [1s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [5s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [4s] ERROR
Running examples in 'massiveGST-Ex.R' failed
The error most likely occurred in:

> ### Name: massiveORT
> ### Title: A wrapper to fisher.test to get over representation analysis of
> ###   gene sets.
> ### Aliases: massiveORT
> 
> ### ** Examples
> 
> library(massiveGST)
> 
> # get the gene profile
> fname <- system.file("extdata", package="massiveGST")
> fname <- file.path(fname, "pre_ranked_list.txt")
> geneProfile <- get_geneProfile(fname)
> geneList <- names(head(geneProfile, 1000))
> 
> # get the gene-sets
> geneSets <- get_geneSets_from_msigdbr(category = "C5", subcategory = "CC", what = "gene_symbol")
msigdbr: R package version 10.0.0
The 'msigdbdf' package must be installed to access the full dataset.
> geneSets <- geneSets[1:250]
> 
> # run the function
> ans <- massiveORT(geneList, geneSets)
greater
Error in data.frame(row.names = names(gene_sets), collection, universe_size = length(universe),  : 
  row names contain missing values
Calls: massiveORT -> data.frame
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [12s] ERROR
Error(s) in re-building vignettes:
--- re-building 'vignette.Rmd' using rmarkdown
ERROR: cannot open D:\temp\2025_03_13_01_50_00_8052\RtmpMf5h7X/WriteXLS/1.csv
. No such file or directory

Quitting from lines 199-237 [unnamed-chunk-18] (vignette.Rmd)
Error: processing vignette 'vignette.Rmd' failed with diagnostics:
replacement has 1 row, data has 0
--- failed re-building 'vignette.Rmd'

SUMMARY: processing the following file failed:
  'vignette.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [21s] OK
* checking HTML version of manual ... [2s] OK
* DONE
Status: 2 ERRORs