run_mech.py
35e89619726amaster

run_mech.py
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			# -- coding: utf-8 --
			# @Author: Theo Lemaire
			# @Email: theo.lemaire@epfl.ch
			# @Date: 2016-11-21 10:46:56
			# @Last Modified by: Theo Lemaire
			# @Last Modified time: 2019-09-17 17:05:24

			''' Run simulations of the NICE mechanical model. '''

			from PySONIC.core import BilayerSonophore, Batch
			from PySONIC.utils import logger
			from PySONIC.parsers import MechSimParser


			def main():
			# Parse command line arguments
			parser = MechSimParser()
			args = parser.parse()
			logger.setLevel(args['loglevel'])

			# Run MECH batch
			logger.info("Starting mechanical simulation batch")
			queue = BilayerSonophore.simQueue(
			*parser.parseSimInputs(args), outputdir=args['outputdir'], overwrite=args['overwrite'])
			output = []
			for a in args['radius']:
			for d in args['embedding']:
			for Cm0 in args['Cm0']:
			for Qm0 in args['Qm0']:
			bls = BilayerSonophore(a, Cm0, Qm0, embedding_depth=d)
			batch = Batch(bls.simAndSave if args['save'] else bls.simulate, queue)
			output += batch(mpi=args['mpi'], loglevel=args['loglevel'])

			# Plot resulting profiles
			if args['plot'] is not None:
			parser.parsePlot(args, output)


			if __name__ == '__main__':
			main()