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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BindingSiteFinder.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BindingSiteFinder_2.3.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/BindingSiteFinder.Rcheck’
* using R version 4.4.1 (2024-06-14)
* 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 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BindingSiteFinder/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BindingSiteFinder’ version ‘2.3.1’
* package encoding: UTF-8
* 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 ‘BindingSiteFinder’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                              user system elapsed
quickFigure                 36.587  1.107  40.738
BSFind                      36.235  0.543  37.114
bindingSiteDefinednessPlot  32.203  0.646  33.143
processingStepsFlowChart    29.705  0.787  35.878
calculateBsFoldChange       24.066  0.476  33.846
plotBsVolcano               13.128  3.446  27.271
plotBsMA                    13.230  3.141  73.264
estimateBsWidthPlot         10.329  1.665  31.102
bindingSiteCoveragePlot     11.194  0.523  11.839
estimateBsWidth             10.555  0.346  14.615
reproducibilityScatterPlot   4.852  3.895  43.919
rangeCoveragePlot            7.033  0.702  10.311
filterBsBackground           5.297  0.189  12.395
calculateBsBackground        5.274  0.119   5.437
plotBsBackgroundFilter       4.688  0.385  14.808
supportRatio                 4.429  0.565   6.520
mergeSummaryPlot             3.982  0.189   6.835
supportRatioPlot             3.507  0.252   8.439
geneOverlapsPlot             3.131  0.360  11.226
reproducibilityCutoffPlot    2.469  0.270   5.637
calculateSignalToFlankScore  1.669  0.091   6.594
targetGeneSpectrumPlot       1.462  0.028   6.006
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* 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: OK