BioC 3.1: CHECK report for biocGraph on zin2

Package: biocGraph

Version: 1.30.0

Command: /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings biocGraph_1.30.0.tar.gz

StartedAt: 2015-10-08 22:48:30 -0700 (Thu, 08 Oct 2015)

EndedAt: 2015-10-08 22:49:38 -0700 (Thu, 08 Oct 2015)

EllapsedTime: 67.9 seconds

RetCode: 0

Status:  OK

CheckDir: biocGraph.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings biocGraph_1.30.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.1-bioc/meat/biocGraph.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biocGraph/DESCRIPTION’ ... OK
* this is package ‘biocGraph’ version ‘1.30.0’
* 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 ... [7s/7s] 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 : .local: no visible global
  function definition for ‘AgNode’
imageMap,Ragraph-connection-list-character : .local: no visible global
  function definition for ‘getNodeXY’
imageMap,Ragraph-connection-list-character : .local: no visible global
  function definition for ‘getNodeHeight’
imageMap,Ragraph-connection-list-character : .local: no visible global
  function definition for ‘getNodeLW’
imageMap,Ragraph-connection-list-character : .local: no visible global
  function definition for ‘getNodeRW’
imageMap,graph-connection-list-character : .local: no visible global
  function definition for ‘nodes’
imageMap,graph-connection-list-character : .local: no visible global
  function definition for ‘graphRenderInfo’
* 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 ... [3s/3s] 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
  ‘/home/biocbuild/bbs-3.1-bioc/meat/biocGraph.Rcheck/00check.log’
for details.

* installing *source* package ‘biocGraph’ ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
* DONE (biocGraph)

name	user	system	elapsed
imageMap	0.009	0.000	0.009