Package: CellScore

Version: 1.0.0

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_1.0.0.tar.gz

StartedAt: 2018-10-16 20:20:39 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 20:26:42 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 363.7 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_1.0.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/CellScore.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* 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 ‘1.0.0’
* 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                39.426  3.482  43.120
heatmapOnOffMarkers            36.972  2.897  40.364
RugplotCellScore               34.751  2.691  38.002
extractTransitions             34.047  2.687  37.168
ScatterplotCellScoreComponents 33.743  2.648  36.915
PlotCosineSimHeatmap           28.212  1.811  30.352
PcaStandards                   20.182  1.269  21.677
CosineSimScore                 19.339  1.306  20.827
BoxplotCellScore               15.811  1.473  17.290
CellScore                      15.554  1.316  16.869
OnOff                          11.282  1.693  13.147
BarplotOnOff                    9.425  1.926  11.371
* 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/3.5/Resources/library’
* installing *source* package ‘CellScore’ ...
** 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
* DONE (CellScore)

name	user	system	elapsed
BarplotOnOff	9.425	1.926	11.371
BoxplotCellScore	15.811	1.473	17.290
CellScore	15.554	1.316	16.869
CellScoreReport	39.426	3.482	43.120
CosineSimScore	19.339	1.306	20.827
OnOff	11.282	1.693	13.147
PcaStandards	20.182	1.269	21.677
PlotCosineSimHeatmap	28.212	1.811	30.352
RugplotCellScore	34.751	2.691	38.002
ScatterplotCellScoreComponents	33.743	2.648	36.915
extractTransitions	34.047	2.687	37.168
heatmapOnOffMarkers	36.972	2.897	40.364
rugplotDonorTargetTest	0.005	0.001	0.005
scatterplotDonorTargetTest	0.006	0.001	0.006