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cozygene / glint

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QXcbConnection: Could not connect to display #1

Closed jiaxing912 closed 6 years ago

jiaxing912 commented 7 years ago

when I run: python glint.py --datafile datafile.glint --plot --plotpcs --numpcs 2 --out pcs_plot

I got an error: INFO Starting GLINT... INFO Validating arguments... INFO Loading glint file datafile.glint... INFO Running PCA... INFO Plotting first 2 PCs... QXcbConnection: Could not connect to display Aborted (core dumped)

so I couldn't get the .png figure.

what should I do?

E-R commented 7 years ago

I deeply apologize for this late reply. I was accidentally marked as "not watching" for notifications on this project.

I'm guessing that you're running GLINT on a remove server? It looks like you haven't used X11 forwarding, which is what allows GLINT (or any other software on the server) to display graphics, such as the PCA plot you were trying to generate in this example.

Here's a good source explaining how to allow X11 forwarding, depending on your operating system: https://www.hoffman2.idre.ucla.edu/access/x11_forwarding/

I have added a note about enabling X11 forwarding when using the --plot flag.