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tmuetze / Bioconductor_RCy3_the_new_RCytoscape

Update RCytoscape to work for Cytoscape 3.0 and higher using CyREST
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99.6 existing.CytoscapeWindow failed to connect #12

Closed m-grimes closed 9 years ago

m-grimes commented 9 years ago

This still doesn't work with the new version installed.

k1.w <- existing.CytoscapeWindow("Case 1 Pathway", copy=T) Error in function (type, msg, asError = TRUE) : Failed to connect to localhost port 9000: Connection refused getWindowList(cy) [1] "Case 1 CCCN" "Case 1 Pathway" "Case 3 Pathway" "Case 2 Pathway" "Case 5 Pathway" sessionInfo() R version 3.2.0 (2015-04-16) Platform: x86_64-apple-darwin13.4.0 (64-bit) Running under: OS X 10.10.3 (Yosemite)

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 stats4 grid stats graphics grDevices utils datasets [9] methods base

other attached packages: [1] RCy3_0.99.6 ...

tmuetze commented 9 years ago

This error ("Failed to connect to localhost port 9000: Connection refused") looks like an old version, as the new version should connect to port 1234. Is it possible that RCy3 is interfering with RCytoscape as RCytoscape uses port 9000?