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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_1.18.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/CATALYST.Rcheck’
* using R version 4.1.3 (2022-03-10)
* 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 ‘1.18.1’
* 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
plotDiffHeatmap  23.917  1.088  25.032
plotMultiHeatmap 23.274  1.047  24.344
sce2fcs          21.394  0.974  22.408
plotPbExprs      20.756  0.553  21.336
plotDR           18.628  0.562  19.235
plotExprHeatmap  16.992  1.042  18.050
plotClusterExprs 11.503  1.152  12.671
compCytof        12.006  0.332  12.346
plotCodes        11.300  0.697  12.010
filterSCE        10.738  1.111  11.869
plotAbundances   10.462  1.023  11.497
plotMahal        11.164  0.125  11.299
SCE-accessors    10.299  0.972  11.287
plotFreqHeatmap  10.371  0.824  11.206
clrDR            10.326  0.820  11.162
mergeClusters     9.941  0.943  10.901
pbMDS            10.398  0.440  10.849
estCutoffs        9.396  0.159   9.571
cluster           8.859  0.612   9.478
plotScatter       9.179  0.157   9.343
plotSpillmat      9.109  0.124   9.243
extractClusters   7.716  0.870   8.597
computeSpillmat   8.393  0.120   8.519
plotYields        8.423  0.090   8.520
adaptSpillmat     8.341  0.164   8.513
applyCutoffs      7.783  0.137   7.925
plotExprs         6.641  0.083   6.730
runDR             6.512  0.071   6.586
normCytof         5.228  0.041   5.273
* 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