odd RCy error

[Grimes Mark]

Paul

This error comes up often now, and self-corrects after the network is destroyed in Cytoscape, simply by running the command again.

>  sfpwin <- new.CytoscapeWindow(wintitle, sfg)

nodes have no label attribute -- adding default labels

Error: faultCode:  0  faultString:  Failed to invoke method createNetwork in class tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: minimum bounding rectangle of movable nodes and edge anchors not free to rotate within MutableGraphLayout boundaries

# Destroy netwrok in Cytoscape, then run again:

>  sfpwin <- new.CytoscapeWindow(wintitle, sfg)

nodes have no label attribute -- adding default labels

# now works

> sessionInfo()

R version 3.0.0 (2013-04-03)

Platform: x86_64-apple-darwin10.8.0 (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] parallel  grid      splines   stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:

 [1] rgl_0.93.932         plyr_1.8             GOstats_2.26.0       Category_2.26.0      GO.db_2.9.0          org.Hs.eg.db_2.9.0  

 [7] RSQLite_0.11.3       DBI_0.2-5            AnnotationDbi_1.22.2 Biobase_2.20.0       BiocGenerics_0.6.0   RCytoscape_1.10.0   

[13] XMLRPC_0.3-0         graph_1.38.0         gplots_2.11.0        KernSmooth_2.23-10   caTools_1.14         gdata_2.12.0        

[19] gtools_2.7.1         tsne_0.1-2           vegan_2.0-7          permute_0.7-0        RUnit_0.4.26         bio3d_1.1-5         

[25] adegenet_1.3-7       ape_3.0-8            igraph_0.6.5-1       ade4_1.5-2           MASS_7.3-26          cluster_1.14.4      

[31] Hmisc_3.10-1         survival_2.37-4      stringr_0.6.2        fdrtool_1.2.10       qgraph_1.2.1        

loaded via a namespace (and not attached):

 [1] annotate_1.38.0       AnnotationForge_1.2.0 bitops_1.0-5          ellipse_0.3-8         genefilter_1.42.0    

 [6] GSEABase_1.22.0       IRanges_1.18.0        jpeg_0.1-2            lattice_0.20-15       lavaan_0.5-12        

[11] nlme_3.1-109          png_0.1-4             psych_1.3.2           RBGL_1.36.0           RCurl_1.95-4.1       

[16] sem_3.1-3             stats4_3.0.0          tools_3.0.0           XML_3.95-0.2          xtable_1.7-1         

> 

Any ideas why?

THanks,

Mark

[Paul Shannon]

Hi Mark,

Sorry for my slow reply.

I have seen this odd error a few times, also. It left me completely mystified. It went away as cryptically as it appeared.

Do you see this when you restart Cytoscape?

- Paul

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