Convert input files from code A to code B

One way to do this is from the command line:

$ pyro convert CGYRO "my_gs2_file.in" -o "input.cgyro"

Pyrokinetics will automatically detect the type of the input file. Note that when converting between codes only the data stored in LocalGeometry, LocalSpecies and Numerics is transferred over. Any other CGYRO input parameters are taking from a template file in pyrokinetics.template_dir

This is effectively the same as doing the following in a python script

from pyrokinetics import Pyro

# Point to GS2 input file
gs2_template = "my_gs2_file.in"

# Load in GS2 file
pyro = Pyro(gk_file=gs2_template)

# Switch to CGYRO
pyro.gk_code = "CGYRO"

# Write CGYRO input file
pyro.write_gk_file(file_name="input.cgyro")

If you have your own template CGYRO input file with specific flags turned on you can do the following

$ pyro convert CGYRO "my_gs2_file.in" -o "input.cgyro" --template "my_cgyro_template_file.in"

Or in a python console for the last line simply do

# Write CGYRO input file using a CGYRO template file
pyro.write_gk_file(file_name="input.cgyro", template_file="my_cgyro_template_file.in")