Package: CellScore

Version: 1.6.0

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_1.6.0.tar.gz

StartedAt: 2020-04-15 01:02:44 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 01:09:10 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 386.2 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_1.6.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/CellScore.Rcheck’
* using R version 3.6.3 (2020-02-29)
* 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 ‘1.6.0’
* 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 ‘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                50.141  3.721  54.420
heatmapOnOffMarkers            38.313  2.695  41.563
ScatterplotCellScoreComponents 36.860  2.698  40.407
RugplotCellScore               35.421  2.539  38.364
extractTransitions             33.755  2.658  36.753
PlotCosineSimHeatmap           28.984  1.733  31.027
PcaStandards                   21.469  1.243  22.973
CellScore                      19.299  1.394  20.790
CosineSimScore                 18.928  1.147  20.210
BoxplotCellScore               18.054  1.482  19.610
OnOff                          11.357  1.439  12.891
BarplotOnOff                   10.095  1.728  11.865
* 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	10.095	1.728	11.865
BoxplotCellScore	18.054	1.482	19.610
CellScore	19.299	1.394	20.790
CellScoreReport	50.141	3.721	54.420
CosineSimScore	18.928	1.147	20.210
OnOff	11.357	1.439	12.891
PcaStandards	21.469	1.243	22.973
PlotCosineSimHeatmap	28.984	1.733	31.027
RugplotCellScore	35.421	2.539	38.364
ScatterplotCellScoreComponents	36.860	2.698	40.407
extractTransitions	33.755	2.658	36.753
heatmapOnOffMarkers	38.313	2.695	41.563
rugplotDonorTargetTest	0	0	0
scatterplotDonorTargetTest	0.001	0.001	0.001