Question: RCytoscape: unable to find an inherited method for function ‘nodeData<-’
1
gravatar for vmanem
4.2 years ago by
vmanem10
Canada
vmanem10 wrote:

Dear Cytoscape users,

I am using Cytoscape (V 2.8.1) with CytoscapeRPC plugin to view large scalenetworks. I am getting the following error.

g <- new ("graphAM", adjMat = adjmat, edgemode="undirected")
cw <- new.CytoscapeWindow ('vignette', graph=g, overwriteWindow=TRUE)

nodes have no label attribute -- adding default labels
Error in (function (classes, fdef, mtable) :
unable to find an inherited method for function ‘nodeData<-’ for
signature ‘"graphAM", "matrix", "character"’

Can someone advise me in fixing this error. Thanks... !

 

rcytoscape • 757 views
ADD COMMENTlink modified 4.2 years ago by pshannon90 • written 4.2 years ago by vmanem10
Answer: RCytoscape: unable to find an inherited method for function ‘nodeData<-’
1
gravatar for pshannon
4.2 years ago by
pshannon90
United States
pshannon90 wrote:

The best course -- which we have discussed off-line, and which I believe seems promising to you -- is to switch to the new RCy3 package, currently submitted to Bioc, available on github, and for which we are actively soliciting testers.

If you will send me some more information I will try to reproduce the error you see.  Please send the results of

traceback()   # when the error ocurrs

sessionInfo() 

 - Paul

ADD COMMENTlink written 4.2 years ago by pshannon90

Paul, where is the proper forum to discuss potential bugs and possibly contribution for RCy3? The github repo?

ADD REPLYlink written 4.2 years ago by Diego Diez730
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