def modelReader(modelfile, mtype, readertype='extended'):
'''!
Function to switch between different model specification readers
to read a given model specification into a dictionary of objects.
@param modelfile String: Relative path to the model specification
file.
@param mtype String: Type of model specification file. Allowable
types are 'ASM' (AdvanceSyn Model Specification). Default = 'ASM'.
@param readertype String: Additional options based on mtype. If
mtype is ASM, then allowable types are 'basic' and 'extended'.
@return: A tuple of (Object containing the processed model,
Dictionary of objects where key is the object name and value is
the object numbering)
'''
if mtype == 'ASM':
if readertype == 'extended':
(spec, modelobj) = ASModeller.process_asm_model(modelfile)
if readertype == 'basic':
spec = ASModeller.modelspec_reader(modelfile, 'basic')
modelobj = None
if mtype == 'MO':
with open(modelfile, 'rb') as f:
loaded_data = pickle.load(f)
spec = loaded_data[0]
modelobj = loaded_data[1]
return (spec, modelobj)
def readASModelSpecification(modelfile):
'''!
Function to read the AdvanceSyn model specification file and
print out its details after processing into model objects.
Usage:
python astools.py readASM --modelfile=models/asm/glycolysis.modelspec
@param modelfile String: Relative path to the model specification
file.
'''
(spec, modelobj) = ASModeller.process_asm_model(modelfile)
print('-------- Model Identifiers --------')
for key in spec['Identifiers']:
print('%s: %s' % (str(key), str(spec['Identifiers'][key])))
print('')
print('-------- Model Objects --------')
for key in modelobj:
obj = modelobj[key]
print('Name: %s' % str(obj.name))
print('Description: %s' % str(obj.description))
print('Initial: %s' % str(obj.value['initial']))
print('Influx:')
pprint(obj.influx)
print('Outflux:')
pprint(obj.outflux)
print('')