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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:scRepertoire.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings scRepertoire_1.6.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/scRepertoire.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 ‘scRepertoire/DESCRIPTION’ ... OK
* this is package ‘scRepertoire’ version ‘1.6.0’
* 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 ‘scRepertoire’ 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
combineBCR            80.427  0.438  81.319
clusterTCR            43.803  0.231  44.131
clonesizeDistribution 32.639  0.384  33.427
alluvialClonotypes    21.649  0.274  21.968
clonalDiversity       20.036  0.348  20.410
combineTCR            16.136  1.521  17.714
abundanceContig       16.642  0.278  17.296
combineExpression     16.452  0.145  16.721
occupiedscRepertoire  16.216  0.155  16.423
clonalOverlay         15.865  0.128  16.064
expression2List       14.667  0.166  15.048
lengthContig          13.728  0.145  13.928
compareClonotypes     13.654  0.163  14.079
getCirclize           13.170  0.141  13.350
addVariable           12.946  0.160  13.155
clonalProportion      12.943  0.163  13.487
highlightClonotypes   12.927  0.171  13.154
quantContig           12.955  0.141  13.151
subsetContig          12.651  0.128  13.406
clonalOverlap         12.380  0.109  12.503
clonalHomeostasis     12.332  0.122  12.477
* 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