Package: BioNetStat

Version: 1.2.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:BioNetStat.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings BioNetStat_1.2.2.tar.gz

StartedAt: 2019-04-15 22:37:57 -0400 (Mon, 15 Apr 2019)

EndedAt: 2019-04-15 22:41:41 -0400 (Mon, 15 Apr 2019)

EllapsedTime: 224.0 seconds

RetCode: 0

Status:  OK

CheckDir: BioNetStat.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:BioNetStat.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings BioNetStat_1.2.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/BioNetStat.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BioNetStat/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BioNetStat’ version ‘1.2.2’
* 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 ‘BioNetStat’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.1Mb
  sub-directories of 1Mb or more:
    extdata   1.9Mb
    shiny     1.6Mb
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
centralityPathPlot 9.865  1.968  14.559
pathPlot           7.640  1.579   9.290
* 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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.8-bioc/meat/BioNetStat.Rcheck/00check.log’
for details.

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL BioNetStat
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘BioNetStat’ ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘BNS_tutorial_by_command_line.Rmd’ using ‘UTF-8’ 
   ‘vignette.Rmd’ using ‘UTF-8’ 
** testing if installed package can be loaded
* DONE (BioNetStat)

name	user	system	elapsed
KLdegree	0.020	0.002	0.023
KLspectrum	0.037	0.001	0.040
adjacencyMatrix	0.002	0.000	0.002
centralityPathPlot	9.865	1.968	14.559
diffNetAnalysis	2.063	0.343	2.047
doLabels	0.194	0.021	0.221
labels	0.002	0.003	0.007
nDegreeDensities	0.053	0.009	0.062
nSpectralDensities	0.031	0.005	0.035
networkFeature	0.117	0.019	0.136
networkTest	0.505	0.144	0.659
nodeScores	0.073	0.010	0.084
nodeTest	0.229	0.047	0.279
pathPlot	7.640	1.579	9.290
readGmtFile	0.141	0.002	0.144
readVarFile	0.172	0.003	0.177
runBioNetStat	0	0	0
varFile	0.007	0.001	0.010