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Attention: Research Computing Documentation has Moved

Please use the new documentation url for all Research Computing documentation needs.

As a result of this move, we have deprecated use of this wiki for documentation. We are providing read-only access to the content to facilitate migration of bookmarks and to serve as an historical record. All content updates should be made at the new documentation site. The original wiki will not receive further updates.

Thank you,

The Research Computing Team

FAQ for Galaxy

Personal Galaxy

What does channel 3: open failed: connect failed: Connection refused mean?

This error shows up when attempting an ssh port forwarding from the galaxy server to the localhost. This error occurs due to port conflict on the server side. The port number mentioned during the execution of might already be taken up ie., a service might already be running at this port. Check the list of ports opened by doing a netstat -lpn |grep <port-number>. If the result is not empty, run the script again with a higher port number and then ssh port forward with this new port number. On Unix/Linux systems, normal users can open ports starting from 1025 to 65535.

I've set up a Personal Galaxy, now what?

When I hit Execute from Galaxy, does that mean the job is running on the cluster?

Where are the log files (stdout/stderr) for the job executed from Personal Galaxy?