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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:singleCellTK.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings singleCellTK_2.12.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/singleCellTK.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-apple-darwin20 (64-bit)
* 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 ‘singleCellTK/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘singleCellTK’ version ‘2.12.2’
* 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 ‘singleCellTK’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.8Mb
  sub-directories of 1Mb or more:
    extdata   1.5Mb
    shiny     2.9Mb
* 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 R 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 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                             user system elapsed
plotScDblFinderResults     46.483  1.125  51.647
plotDoubletFinderResults   43.702  0.297  45.226
runDoubletFinder           37.724  0.224  39.920
runScDblFinder             32.528  0.521  34.439
importExampleData          25.910  2.615  30.939
plotBatchCorrCompare       13.939  0.317  15.236
plotScdsHybridResults      13.025  0.302  14.086
plotBcdsResults            11.715  0.307  12.748
plotTSCANClusterDEG        11.762  0.166  12.941
plotDecontXResults         11.230  0.153  11.796
plotFindMarkerHeatmap      10.550  0.063  11.527
plotEmptyDropsScatter      10.353  0.049  10.981
runDecontX                 10.286  0.088  10.873
plotDEGViolin              10.052  0.283  11.563
plotEmptyDropsResults      10.263  0.046  10.508
runEmptyDrops               9.713  0.042  10.122
runSeuratSCTransform        8.919  0.131   9.309
plotCxdsResults             8.849  0.103   9.156
convertSCEToSeurat          8.364  0.326   9.011
plotDEGRegression           8.389  0.195   9.599
detectCellOutlier           7.986  0.250   8.962
runUMAP                     8.007  0.076   8.373
getFindMarkerTopTable       7.834  0.112   8.373
plotUMAP                    7.749  0.093   8.485
runFindMarker               7.595  0.075   8.022
plotDEGHeatmap              6.363  0.138   6.614
importGeneSetsFromMSigDB    5.747  0.205   6.168
plotTSCANClusterPseudo      5.294  0.047   5.763
plotTSCANPseudotimeHeatmap  5.140  0.048   5.599
plotTSCANDimReduceFeatures  5.083  0.043   5.580
plotTSCANResults            5.062  0.044   5.557
plotTSCANPseudotimeGenes    4.989  0.040   5.460
plotRunPerCellQCResults     4.931  0.039   5.272
getEnrichRResult            0.684  0.056  20.790
runEnrichR                  0.626  0.038  17.305
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘spelling.R’
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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-3.18-bioc/meat/singleCellTK.Rcheck/00check.log’
for details.