[R] RCytoscape setPosition error

[Martin Morgan]

On 02/13/2011 11:28 AM, Fahim M wrote:
> Hi
> Can some one please point out where i am wrong.
> 
> I am trying to position set of nodes column-wise in cytoscape using
> RCytoscape
> A----D
> B----E
> C----F

Hi Fahim -- please ask questions about Bioconductor packages on the
Bioconductor mailing list

http://bioconductor.org/help/mailing-list/

and include packageMaintainer('RCytoscape') in the post.

Martin

> 
> -------------------
> 
> g <- new ('graphNEL', edgemode='undirected')
> cw <- CytoscapeWindow ('smallExample', graph=RCytoscape::makeSimpleGraph())
> layout (cw, 'jgraph-spring')
> redraw(cw)
> 
> nodesFr = c('A', 'B', 'C')
> nodesTo =c('D', 'E', 'F')
> nodesAll = union(nodesFr, nodesTo)
> 
> nElemFr = length(nodesFr)
> nElemTo = length(nodesTo)
> 
> g <- graph::addNode(nodesAll, g)
> 
> setPosition(cw, nodesFr , c(400, 400, 400), c(100, 200, 300))
> setPosition(cw, nodesTo , c(600, 600, 600), c(100, 200, 300))
> Error in convertToR(xmlParse(node, asText = TRUE)) :
>   faultCode: 0 faultString: Failed to invoke method setNodesPositions in
> class tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: null
> 
> setPosition(cw, nodesTo , c(600, 600, 600), c(100, 200, 300))
> Error in convertToR(xmlParse(node, asText = TRUE)) :
>   faultCode: 1001 faultString: Node with id: D could not be found.
> 
> Thanks
> --Fahim
> 
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> 
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