Package: CellScore

Version: 1.3.0

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_1.3.0.tar.gz

StartedAt: 2019-04-09 00:30:31 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 00:39:34 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 542.5 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_1.3.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/CellScore.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* 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 ‘1.3.0’
* 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                85.298  7.651  93.173
heatmapOnOffMarkers            52.365  5.902  58.266
RugplotCellScore               44.860  5.650  51.057
extractTransitions             42.831  5.475  48.306
ScatterplotCellScoreComponents 41.006  5.294  46.359
PlotCosineSimHeatmap           35.304  4.081  39.439
CellScore                      29.445  2.882  32.328
BoxplotCellScore               27.656  2.789  30.446
PcaStandards                   26.747  2.738  29.490
CosineSimScore                 23.823  2.303  26.129
BarplotOnOff                   15.460  3.983  19.464
OnOff                          13.074  2.866  15.941
* 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	15.460	3.983	19.464
BoxplotCellScore	27.656	2.789	30.446
CellScore	29.445	2.882	32.328
CellScoreReport	85.298	7.651	93.173
CosineSimScore	23.823	2.303	26.129
OnOff	13.074	2.866	15.941
PcaStandards	26.747	2.738	29.490
PlotCosineSimHeatmap	35.304	4.081	39.439
RugplotCellScore	44.860	5.650	51.057
ScatterplotCellScoreComponents	41.006	5.294	46.359
extractTransitions	42.831	5.475	48.306
heatmapOnOffMarkers	52.365	5.902	58.266
rugplotDonorTargetTest	0.002	0.001	0.003
scatterplotDonorTargetTest	0.001	0.001	0.002