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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_1.26.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/CATALYST.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 ‘CATALYST/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CATALYST’ version ‘1.26.1’
* 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 30.298  0.994  33.530
plotPbExprs      27.515  0.870  29.889
plotDiffHeatmap  26.483  1.429  29.053
sce2fcs          23.649  1.249  26.031
plotDR           20.668  1.145  22.323
plotExprHeatmap  20.173  0.978  22.369
pbMDS            15.077  1.349  16.548
plotClusterExprs 13.763  1.028  15.037
plotAbundances   13.462  1.010  14.606
mergeClusters    13.644  0.651  15.789
plotFreqHeatmap  12.993  1.165  14.866
plotCodes        12.818  1.261  14.404
SCE-accessors    12.091  0.963  14.412
clrDR            12.408  0.586  13.567
plotMahal        12.649  0.126  13.381
compCytof        11.993  0.351  12.799
filterSCE        11.239  0.568  12.305
cluster          10.521  0.526  12.798
extractClusters  10.272  0.650  11.545
estCutoffs       10.689  0.135  11.335
plotYields       10.336  0.249  11.126
plotScatter       9.755  0.233  10.481
plotSpillmat      9.450  0.155  10.024
adaptSpillmat     8.640  0.240   9.273
computeSpillmat   8.241  0.157   8.678
plotExprs         8.022  0.151   9.422
applyCutoffs      7.718  0.158   8.258
runDR             6.502  0.077   6.942
normCytof         5.473  0.093   6.290
plotEvents        5.160  0.057   5.389
* 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