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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:CATALYST.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings CATALYST_1.20.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/CATALYST.Rcheck’
* using R version 4.2.1 (2022-06-23)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CATALYST/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CATALYST’ version ‘1.20.1’
* 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 ‘CATALYST’ 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 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 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
plotMultiHeatmap 27.864  0.801  28.719
plotDiffHeatmap  24.531  0.848  25.416
plotPbExprs      23.461  0.546  24.054
sce2fcs          21.716  0.842  22.619
plotDR           20.490  0.721  21.275
plotExprHeatmap  19.287  0.668  19.992
plotClusterExprs 13.988  0.546  14.554
pbMDS            13.256  0.505  13.785
plotCodes        12.921  0.739  13.681
plotFreqHeatmap  12.794  0.749  13.885
clrDR            12.566  0.719  13.335
SCE-accessors    11.551  1.200  12.769
plotAbundances   12.095  0.524  12.657
mergeClusters    11.583  0.643  12.250
filterSCE        10.894  0.576  11.487
plotMahal        11.295  0.106  11.424
cluster          10.864  0.426  11.307
compCytof        10.159  0.143  10.315
estCutoffs        9.612  0.090   9.720
extractClusters   8.561  0.672   9.249
plotYields        9.111  0.110   9.235
plotExprs         8.864  0.113   8.998
computeSpillmat   8.540  0.139   8.696
plotScatter       8.488  0.079   8.585
plotSpillmat      8.409  0.089   8.511
adaptSpillmat     8.142  0.207   8.508
applyCutoffs      7.465  0.167   7.943
runDR             6.527  0.067   6.599
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  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: OK