Package: pathRender

Version: 1.20.0

Command: E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch pathRender_1.20.0.tar.gz

StartedAt: 2011-10-20 16:16:29 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 16:17:21 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 52.1 seconds

RetCode: 1

Status:  ERROR

CheckDir: pathRender.Rcheck

Warnings: NA

* using log directory 'E:/biocbld/bbs-2.8-bioc/meat/pathRender.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'pathRender/DESCRIPTION' ... OK
* this is package 'pathRender' version '1.20.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'pathRender' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 for unstated 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 ... NOTE
prepare_Rd: rendercMAP.Rd:28: Dropping empty section \seealso
* 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 examples ... ERROR
Running examples in 'pathRender-Ex.R' failed
The error most likely occurred in:

> assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: graphcMAP
> ### Title: obtain a graph object corresponding to a cMAP pathway
> ### Aliases: graphcMAP
> ### Keywords: models
> 
> ### ** Examples
> 
> G1 = graphcMAP("p53pathway")
> G1
A pwayGraph graph with directed edges
Number of Nodes = 22 
Number of Edges = 27 
> nodes(G1)
 [1] "100878" "101472" "101132" "100931" "101129" "101183" "101131" "101064"
 [9] "101474" "100131" "101065" "101134" "101475" "101135" "100127" "101136"
[17] "101176" "101130" "101473" "100398" "100515" "101133"
> if (require(Rgraphviz)) plot(G1)

(Rterm.exe:5824): Pango-WARNING **: couldn't load font "Times New Not-Rotated 14", falling back to "Sans Not-Rotated 14", expect ugly output.
Error in plot.xy(xy.coords(x, y), type = type, ...) : 
  invalid color name 'graph'
Calls: plot ... .local -> lines -> lines -> lines.default -> plot.xy
Execution halted

* installing *source* package 'pathRender' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (pathRender)

name	user	system	elapsed
colorNodes	0.09	0.00	0.28
coloredGraph-class	0.16	0.00	0.30