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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:QDNAseq.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings QDNAseq_1.41.3.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/QDNAseq.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-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 Ventura 13.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘QDNAseq/DESCRIPTION’ ... OK
* this is package ‘QDNAseq’ version ‘1.41.3’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘QDNAseq’ 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
callBins      7.561  0.066   7.631
frequencyPlot 7.521  0.051   7.573
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘QDNAseq,copyneutral.R’
  Running ‘QDNAseq,gain-copyneutral-gain.R’
  Running ‘QDNAseq,parallel-reproducibility.R’
  Running ‘QDNAseq.R’
 ERROR
Running the tests in ‘tests/QDNAseq.R’ failed.
Last 13 lines of output:
  +         message(sprintf("    File(s) written: [n=%d] %s",
  +                 length(file), paste(sQuote(file), collapse = ", ")))
  +         stopifnot(all(file_test("-f", file)))
  +         if (do_cleanup) {f
  + 	  file.remove(file)
  +           stopifnot(!any(file_test("-f", file)))
  + 	}
  +       }
  +     }
  +   }
  + }
    - exportBins(<1 samples>, format="tsv", type="copynumber", file="QDNAseq.")
      File(s) written: [n=1] '/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//RtmpMhIiWA/QDNAseq.afc710a8fbaa.copynumber.tsv'
  Error: object 'f' not found
  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
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/QDNAseq.Rcheck/00check.log’
for details.