Can I view a Desmond trajectory while a simulation is still running?

Yes. To do so, you can import the jobname-out.cms file into Maestro from the temporary directory on the host used for the simulation, then click the T button for the imported entry in the Project Table to open the trajectory viewer. If you want to update the trajectory at a later time in the simulation, import the file again. There may be a local copy of this file also, but the trajectory is not present until the job finishes.

Keywords: Desmond, trajectory

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