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The plotting speed of the graphics device is extremely slow when I use a VNC connection. The rest of the connection works perfectly fine so I cannot blame the network, it is specifically R devices that take years to plot plus they do not refresh. If I move a window above my R device it erases the content, I need to resize the R device window so it gets redrawn. If I directly connect with ssh, all is good.

Is there a way to prevent this or am I missing some fundamentals of the mode I am working with?

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Problem solved. Very simple one but not related to the fundamentals of using R through VNC, the problem was a combination of an old vncserver version and a funny network triangulation. Case closed.

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