BioC 3.4: CHECK report for biocGraph on morelia

Package: biocGraph

Version: 1.36.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings biocGraph_1.36.0.tar.gz

StartedAt: 2017-04-14 23:11:40 -0700 (Fri, 14 Apr 2017)

EndedAt: 2017-04-14 23:12:58 -0700 (Fri, 14 Apr 2017)

EllapsedTime: 77.8 seconds

RetCode: 0

Status:  OK

CheckDir: biocGraph.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings biocGraph_1.36.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/biocGraph.Rcheck’
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biocGraph/DESCRIPTION’ ... OK
* this is package ‘biocGraph’ version ‘1.36.0’
* 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 ‘biocGraph’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘Rgraphviz’ ‘graph’ ‘geneplotter’
A package should be listed in only one of these fields.
* 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 ... NOTE
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘par’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘AgNode’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeXY’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeHeight’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeLW’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeRW’
imageMap,graph-connection-list-character: no visible global function
  definition for ‘nodes’
imageMap,graph-connection-list-character: no visible global function
  definition for ‘graphRenderInfo’
Undefined global functions or variables:
  AgNode getNodeHeight getNodeLW getNodeRW getNodeXY graphRenderInfo
  nodes par
Consider adding
  importFrom("graphics", "par")
to your NAMESPACE file.
* 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
* 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: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.4-bioc/meat/biocGraph.Rcheck/00check.log’
for details.

* installing *source* package ‘biocGraph’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (biocGraph)

name	user	system	elapsed
imageMap	0.025	0.002	0.028