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### Running command:
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###   /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:sesame.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings sesame_1.25.1.tar.gz
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* using log directory ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/sesame.Rcheck’
* using R Under development (unstable) (2024-11-14 r87333)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘sesame/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sesame’ version ‘1.25.1’
* 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 ‘sesame’ 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 loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... 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
testEnrichmentGene            24.509  0.413  24.935
imputeBetasByGenomicNeighbors 24.169  0.686  24.862
inferSex                      16.548  0.206  16.759
sesameQC_plotHeatSNPs         13.174  0.028  13.207
sesameQC_calcStats            13.116  0.015  13.137
imputeBetas                   12.111  0.477  12.592
ELBAR                         12.269  0.287  12.559
KYCG_plotMeta                 12.246  0.174  12.424
inferSpecies                  11.264  0.850  12.118
KYCG_plotEnrichAll            11.241  0.270  11.513
KYCG_annoProbes                9.697  0.238   9.937
diffRefSet                     9.440  0.100   9.546
sesameQC_plotBar               8.936  0.097   9.034
getRefSet                      8.057  0.071   8.130
KYCG_plotMetaEnrichment        7.749  0.081   7.833
compareReference               7.394  0.198   7.594
matchDesign                    7.488  0.056   7.554
compareMouseStrainReference    7.339  0.145   7.485
KYCG_buildGeneDBs              7.110  0.273   7.385
inferStrain                    6.502  0.572   7.077
sesameQC_plotBetaByDesign      6.842  0.000   6.846
visualizeGene                  6.162  0.101   6.266
testEnrichmentSEA              6.137  0.072   6.209
DML                            5.468  0.210   5.681
dyeBiasNL                      5.406  0.092   5.501
sdf_read_table                 4.921  0.101   5.023
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK