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To run the FLYA calculation, one could start CYANA and execute the 'CALC.cya' macro from the CYANA prompt, however on a computer with multiple processors it is better to speed up the calculation by running the 'CALC.cya' macro in parallel:
cyana -n 10 CALC.cya
On one CPU the command simplify to 'cyana CALC.cya'
This starts 10 independent calculations on 10 processors by using the MPI scheduler (if installed on your system, otherwise shared memory will be used).
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