Package: RCyjs

Version: 2.2.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RCyjs.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RCyjs_2.2.2.tar.gz

StartedAt: 2018-10-16 23:34:02 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 23:34:50 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 47.7 seconds

RetCode: 0

Status:  OK

CheckDir: RCyjs.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RCyjs.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RCyjs_2.2.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/RCyjs.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 ‘RCyjs/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RCyjs’ version ‘2.2.2’
* 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 ‘RCyjs’ 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 include directives in Makefiles ... 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
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’
 OK
* 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

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL RCyjs
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘RCyjs’ ...
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘layout’ in package ‘RCyjs’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RCyjs)

R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # disabled: the bioc build system no longer supports browser use.
> # BiocGenerics:::testPackage("RCyjs")
> 
> proc.time()
   user  system elapsed 
  0.222   0.049   0.243 

name	user	system	elapsed
RCyjs-class	0.002	0.000	0.002
addGraph	0.001	0.000	0.001
addGraphFromFile	0.002	0.001	0.002
clearSelection	0.002	0.000	0.002
createTestGaph	0.01	0.00	0.01
deleteGraph	0.001	0.000	0.002
deleteSelectedNodes	0.002	0.000	0.003
eda	0.003	0.000	0.003
edaNames	0.002	0.000	0.003
fit	0.001	0.000	0.001
fitSelection	0.002	0.000	0.002
getEdgeCount	0.002	0.001	0.002
getJSON	0.003	0.000	0.002
getLayoutStrategies	0.002	0.001	0.002
getNodeCount	0.001	0.000	0.002
getNodes	0.002	0.000	0.002
getPosition	0.002	0.000	0.002
getSelectedNodes	0.001	0.000	0.001
getSupportedEdgeDecoratorShapes	0.001	0.001	0.001
getSupportedNodeShapes	0.001	0.000	0.001
getZoom	0.002	0.000	0.001
hAlign	0.002	0.001	0.003
hideAllEdges	0.002	0.000	0.003
hideEdges	0.002	0.000	0.003
hideSelectedNodes	0.002	0.000	0.002
invertNodeSelection	0.002	0.000	0.003
layout	0.002	0.000	0.003
layoutSelectionInGrid	0.003	0.000	0.004
layoutSelectionInGridInferAnchorm	0.002	0.000	0.002
loadStyleFile	0.002	0.000	0.003
noa	0.001	0.001	0.002
noaNames	0.001	0.000	0.002
redraw	0.002	0.000	0.003
restoreLayout	0.002	0.000	0.003
saveJPG	0.003	0.001	0.003
saveLayout	0.003	0.000	0.003
savePNG	0.004	0.001	0.004
selectFirstNeighborsOfSelectedNodes	0.003	0.000	0.003
selectNodes	0.002	0.001	0.001
setBackgroundColor	0.001	0.000	0.001
setDefaultEdgeColor	0.001	0.000	0.001
setDefaultEdgeLineColor	0.002	0.001	0.002
setDefaultEdgeLineStyle	0.001	0.000	0.002
setDefaultEdgeSourceArrowColor	0.003	0.000	0.003
setDefaultEdgeSourceArrowShape	0.001	0.000	0.002
setDefaultEdgeTargetArrowColor	0.002	0.000	0.002
setDefaultEdgeTargetArrowShape	0.002	0.001	0.001
setDefaultEdgeWidth	0.002	0.000	0.001
setDefaultNodeBorderColor	0.001	0.000	0.002
setDefaultNodeBorderWidth	0.001	0.001	0.002
setDefaultNodeColor	0.002	0.000	0.002
setDefaultNodeFontColor	0.002	0.000	0.001
setDefaultNodeFontSize	0.002	0.000	0.003
setDefaultNodeHeight	0.002	0.000	0.002
setDefaultNodeShape	0.002	0.000	0.002
setDefaultNodeSize	0.001	0.000	0.001
setDefaultNodeWidth	0.002	0.000	0.002
setDefaultStyle	0.002	0.000	0.002
setEdgeStyle	0.003	0.000	0.003
setGraph	0.002	0.000	0.002
setNodeAttributes	0.002	0.000	0.001
setNodeBorderColor	0.002	0.000	0.002
setNodeBorderWidth	0.001	0.001	0.002
setNodeColor	0.002	0.000	0.002
setNodeColorRule	0.001	0.000	0.002
setNodeFontColor	0.002	0.000	0.003
setNodeFontSize	0.002	0.000	0.003
setNodeHeight	0.002	0.000	0.002
setNodeLabelRule	0.002	0.000	0.002
setNodeShape	0.002	0.001	0.003
setNodeSize	0.003	0.000	0.002
setNodeSizeRule	0.003	0.000	0.003
setNodeWidth	0.002	0.000	0.003
setPosition	0.003	0.000	0.003
setZoom	0.002	0.000	0.002
sfn	0.002	0.000	0.002
showAll	0.002	0.000	0.003
showEdges	0.003	0.000	0.003
simpleDemoGraph	0.07	0.00	0.07
vAlign	0.003	0.000	0.002