Running Cases

Quick-start example

$ cgyro -g reg08
$ cd reg08
$ cgyro -e .
$ cgyro_plot -plot ball -field 1

Command-line usage

The input files and configuration for numerous linear and nonlinear cases can be auto-generated using the -g flag. Often, it is easiest to find a template case that is close to what you would like to run, and then modify it accordingly. A list of all regression and template cases in generated by typing:

$ cgyro -g

A very simple nonlinear case is nl00. You can generate the template with:

$ cgyro -g nl00

It is strongly suggested that you first run your case in test mode using the -t flag:

$ cgyro -t nl00

On the large systems at NERSC, ORNL and elsewhere, you will need to establish an interactive queue to execute the command above. The result should be diagnostics printed to the screen plus a few output files. Pay attention to the file out.cgyro.mpi. This shows the acceptable number of MPI tasks.

Batch submission

On established platforms, the burden of writing batch script files and setting core counts is managed by the gacode_qsub script. To generate a batch.src file, you could type:

$ gacode_qsub -e nl01 -n 512 -nomp 2 -queue regular -repo atom -w 0:09:00

Additional flags are also accepted. Adding the -s flag to the above will submit the job.