Package: CellScore

Version: 1.4.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CellScore.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CellScore_1.4.0.tar.gz

StartedAt: 2019-10-16 01:16:32 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 01:25:58 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 565.1 seconds

RetCode: 0

Status:  OK

CheckDir: CellScore.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CellScore.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CellScore_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/CellScore.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CellScore/DESCRIPTION’ ... OK
* this is package ‘CellScore’ version ‘1.4.0’
* 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 ‘CellScore’ 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                                 user system elapsed
CellScoreReport                92.505  7.995 100.897
heatmapOnOffMarkers            52.714  5.779  58.492
extractTransitions             45.895  5.689  51.584
RugplotCellScore               44.608  5.446  50.132
ScatterplotCellScoreComponents 44.447  5.554  50.454
PlotCosineSimHeatmap           36.196  3.755  40.000
BoxplotCellScore               29.096  3.011  32.128
CellScore                      28.688  2.967  31.709
PcaStandards                   27.174  2.642  29.818
CosineSimScore                 25.589  2.775  28.373
BarplotOnOff                   16.163  4.080  20.281
OnOff                          14.237  3.094  17.383
* 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

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL CellScore
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘CellScore’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (CellScore)

name	user	system	elapsed
BarplotOnOff	16.163	4.080	20.281
BoxplotCellScore	29.096	3.011	32.128
CellScore	28.688	2.967	31.709
CellScoreReport	92.505	7.995	100.897
CosineSimScore	25.589	2.775	28.373
OnOff	14.237	3.094	17.383
PcaStandards	27.174	2.642	29.818
PlotCosineSimHeatmap	36.196	3.755	40.000
RugplotCellScore	44.608	5.446	50.132
ScatterplotCellScoreComponents	44.447	5.554	50.454
extractTransitions	45.895	5.689	51.584
heatmapOnOffMarkers	52.714	5.779	58.492
rugplotDonorTargetTest	0.001	0.001	0.001
scatterplotDonorTargetTest	0.000	0.001	0.001