[BioC] problem getting setNodeColorRule from RCytoscape to work

[Burak Kutlu]

Hello, 
Trying to replicate the example provided in the help page for setNodeColorRule, unfortunately it does not work for me.
Any suggestions?
thanks
-burak

# example from the help page for setNodeColorRule

> cw <- new.CytoscapeWindow ('setNodeColorRule.test', graph=makeSimpleGraph())
  control.points <- c (-3.0, 0.0, 3.0)   # typical range of log-fold-change ratio values
    # paint negative values shades of green, positive values shades of
    # red, out-of-range low values are dark green; out-of-range high
    # values are dark red
  node.colors <- c ("#00AA00", "#00FF00", "#FFFFFF", "#FF0000", "#AA0000")
  setNodeColorRule (cw, node.attribute.name='lfc', control.points, node.colors, mode='interpolate')
  redraw (cw)
  data.values <- c ("kinase", "transcription factor", "glycoprotein")
  node.colors <- c ("#0000AA", "#FFFF00", "#0000AA") 
  setNodeColorRule (cw, node.attribute.name='type', data.values,   node.colors, mode='lookup', default.color='#AA0000')
>   control.points <- c (-3.0, 0.0, 3.0)   # typical range of log-fold-change ratio values
>     # paint negative values shades of green, positive values shades of
>     # red, out-of-range low values are dark green; out-of-range high
>     # values are dark red
>   node.colors <- c ("#00AA00", "#00FF00", "#FFFFFF", "#FF0000", "#AA0000")
>   setNodeColorRule (cw, node.attribute.name='lfc', control.points, node.colors, mode='interpolate')
Error in convertToR(xmlParse(node, asText = TRUE)) : 
  faultCode: 1001 faultString: Attribute lfc could not be found.
>   redraw (cw)
>   data.values <- c ("kinase", "transcription factor", "glycoprotein")
>   node.colors <- c ("#0000AA", "#FFFF00", "#0000AA") 
>   setNodeColorRule (cw, node.attribute.name='type', data.values,   node.colors, mode='lookup', default.color='#AA0000')
Error in convertToR(xmlParse(node, asText = TRUE)) : 
  faultCode: 1001 faultString: Attribute type could not be found.
> 


## session info

> sessionInfo()
R version 2.14.2 (2012-02-29)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] RCytoscape_1.5.2    XMLRPC_0.2-4        graph_1.32.0       
[4] BiocInstaller_1.2.1

loaded via a namespace (and not attached):
[1] RCurl_1.91-1 tools_2.14.2 XML_3.9-4   
>