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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:PWMEnrich.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings PWMEnrich_4.41.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/PWMEnrich.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* 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 12.7.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PWMEnrich/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PWMEnrich’ version ‘4.41.0’
* 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 ‘PWMEnrich’ 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) plot-MotifEnrichmentReport-missing-method.Rd:31-47: Lost braces
    31 | if(requireNamespace("PWMEnrich.Dmelanogaster.background")){
       |                                                           ^
* 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 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
motifScores                                           9.764  0.197  11.205
motifEnrichment                                       8.340  0.060   9.393
sequenceReport-MotifEnrichmentResults-method          6.206  0.118   7.068
motifDiffEnrichment                                   5.866  0.038   6.325
groupReport-MotifEnrichmentResults-method             5.141  0.203   6.155
plotTopMotifsSequence-MotifEnrichmentResults-method   4.908  0.056   5.605
plotTopMotifsGroup-MotifEnrichmentResults-method      4.808  0.044   5.533
motifRankingForSequence-MotifEnrichmentResults-method 4.591  0.035   5.201
motifRankingForGroup-MotifEnrichmentResults-method    4.430  0.032   5.012
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test-all.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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/PWMEnrich.Rcheck/00check.log’
for details.