Thank you Paul! Can you please show me how to enable/install CytoscapeRPC? I am new to bioconductor, I simply installed graphite package with:


source("http://bioconductor.org/biocLite.R")
biocLite("graphite")

Thanks,

John





________________________________
 From: Paul Shannon <pshannon@fhcrc.org>

Cc: Paul Shannon <pshannon@fhcrc.org>; Bioconductor Mailing List <bioconductor@r-project.org> 
Sent: Monday, January 21, 2013 3:02 PM
Subject: Re: [BioC] cytoscapePlot() from graphite package

Hi John,

This usually means that Cytoscape is not running, or that the CytoscapeRPC plugin is not enabled, or not enabled on the correct port. 

Let us know if you still have trouble after these things are set up.

- Paul



On Jan 21, 2013, at 2:58 PM, array chip wrote:

> Hi, I was trying to use cytoscapePlot() from the graphite package, but got the error message below:
> 
>> library(graphite)
>> cytoscapePlot(convertIdentifiers(reactome$`Unwinding of DNA`, "symbol"))
> Loading required package: RCytoscape
> Loading required package: XMLRPC
> Error in function (type, msg, asError = TRUE)  : couldn't connect to host
> In addition: Warning messages:
> 1: package ‘RCytoscape’ was built under R version 2.15.2
> 2: package ‘XMLRPC’ was built under R version 2.15.2
> 
> 
> What's the problem here?
> 
> thanks!
> 
> John
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