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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings chipenrich_2.30.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/chipenrich.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘chipenrich/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘chipenrich’ version ‘2.30.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘chipenrich’ 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 ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... 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 ... OK
* checking Rd files ... NOTE
checkRd: (-1) broadenrich.Rd:134: Escaped LaTeX specials: \&
checkRd: (-1) chipenrich.Rd:148: Escaped LaTeX specials: \&
checkRd: (-1) hybridenrich.Rd:111: Escaped LaTeX specials: \&
checkRd: (-1) polyenrich.Rd:148: Escaped LaTeX specials: \&
checkRd: (-1) proxReg.Rd:117: Escaped LaTeX specials: \&
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
broadenrich 10.123  0.423  10.969
polyenrich   8.734  0.322   9.717
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  Error in ``.rowNamesDF<-`(x, value = value)`: invalid 'row.names' length
  Backtrace:
      ▆
   1. ├─base::suppressWarnings(...) at test_5_chipenrich.R:84:9
   2. │ └─base::withCallingHandlers(...)
   3. └─chipenrich::chipenrich(...)
   4.   └─chipenrich:::post_process_enrichments(enrich)
   5.     └─base::`rownames<-`(`*tmp*`, value = c(1:nrow(enrich)))
   6.       ├─base::`row.names<-`(`*tmp*`, value = value)
   7.       └─base::`row.names<-.data.frame`(`*tmp*`, value = value)
   8.         └─base::`.rowNamesDF<-`(x, value = value)
  
  [ FAIL 1 | WARN 0 | SKIP 3 | PASS 169 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/chipenrich.Rcheck/00check.log’
for details.