Package: CellScore

Version: 1.4.0

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:CellScore.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings CellScore_1.4.0.tar.gz

StartedAt: 2019-10-16 00:22:18 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 00:27:24 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 305.6 seconds

RetCode: 0

Status:  OK

CheckDir: CellScore.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:CellScore.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings CellScore_1.4.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/CellScore.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (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 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                42.405  1.116  43.616
heatmapOnOffMarkers            29.398  0.552  30.026
extractTransitions             27.389  0.428  27.848
ScatterplotCellScoreComponents 26.821  0.435  27.463
RugplotCellScore               25.767  0.240  26.065
PlotCosineSimHeatmap           20.919  0.160  21.087
CosineSimScore                 19.113  0.348  19.478
CellScore                      18.115  0.238  18.797
BoxplotCellScore               17.317  0.312  17.777
PcaStandards                   15.416  0.156  15.581
BarplotOnOff                   11.410  0.814  13.643
OnOff                           9.245  0.244   9.500
* 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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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL CellScore
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/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	11.410	0.814	13.643
BoxplotCellScore	17.317	0.312	17.777
CellScore	18.115	0.238	18.797
CellScoreReport	42.405	1.116	43.616
CosineSimScore	19.113	0.348	19.478
OnOff	9.245	0.244	9.500
PcaStandards	15.416	0.156	15.581
PlotCosineSimHeatmap	20.919	0.160	21.087
RugplotCellScore	25.767	0.240	26.065
ScatterplotCellScoreComponents	26.821	0.435	27.463
extractTransitions	27.389	0.428	27.848
heatmapOnOffMarkers	29.398	0.552	30.026
rugplotDonorTargetTest	0.000	0.000	0.001
scatterplotDonorTargetTest	0.000	0.000	0.001