def test_plog(self):
gas1 = ct.Solution('pdep-test.cti')
species = ct.Species.listFromFile('pdep-test.cti')
r = ct.PlogReaction()
r.reactants = {'R1A': 1, 'R1B': 1}
r.products = {'P1': 1, 'H': 1}
r.rates = [
(0.01 * ct.one_atm, ct.Arrhenius(1.2124e13, -0.5779,
10872.7 * 4184)),
(1.0 * ct.one_atm, ct.Arrhenius(4.9108e28, -4.8507,
24772.8 * 4184)),
(10.0 * ct.one_atm, ct.Arrhenius(1.2866e44, -9.0246,
39796.5 * 4184)),
(100.0 * ct.one_atm,
ct.Arrhenius(5.9632e53, -11.529, 52599.6 * 4184))
]
gas2 = ct.Solution(thermo='IdealGas',
kinetics='GasKinetics',
species=species,
reactions=[r])
gas2.X = gas1.X = 'R1A:0.3, R1B:0.6, P1:0.1'
for P in [0.001, 0.01, 0.2, 1.0, 1.1, 9.0, 10.0, 99.0, 103.0]:
gas1.TP = gas2.TP = 900, P * ct.one_atm
self.assertNear(gas2.forward_rate_constants[0],
gas1.forward_rate_constants[0])
self.assertNear(gas2.net_rates_of_progress[0],
gas1.net_rates_of_progress[0])
def set_mechanism(self, mech_dict, species_dict={}, bnds=[]):
def get_Arrhenius_parameters(entry):
A = entry['pre_exponential_factor']
b = entry['temperature_exponent']
Ea = entry['activation_energy']
return A, b, Ea
if len(species_dict) == 0:
species = self.gas.species()
else:
species = []
for n in range(len(species_dict)):
s_dict = species_dict[n]
s = ct.Species(name=s_dict['name'],
composition=s_dict['composition'],
charge=s_dict['charge'],
size=s_dict['size'])
thermo = s_dict['type'](s_dict['T_low'], s_dict['T_high'],
s_dict['P_ref'], s_dict['coeffs'])
s.thermo = thermo
species.append(s)
# Set kinetics data
rxns = []
for rxnIdx in range(len(mech_dict)):
if 'ElementaryReaction' == mech_dict[rxnIdx]['rxnType']:
rxn = ct.ElementaryReaction(mech_dict[rxnIdx]['reactants'],
mech_dict[rxnIdx]['products'])
rxn.allow_negative_pre_exponential_factor = True
A, b, Ea = get_Arrhenius_parameters(
mech_dict[rxnIdx]['rxnCoeffs'][0])
rxn.rate = ct.Arrhenius(A, b, Ea)
elif 'ThreeBodyReaction' == mech_dict[rxnIdx]['rxnType']:
rxn = ct.ThreeBodyReaction(mech_dict[rxnIdx]['reactants'],
mech_dict[rxnIdx]['products'])
A, b, Ea = get_Arrhenius_parameters(
mech_dict[rxnIdx]['rxnCoeffs'][0])
rxn.rate = ct.Arrhenius(A, b, Ea)
rxn.efficiencies = mech_dict[rxnIdx]['rxnCoeffs'][0][
'efficiencies']
elif 'PlogReaction' == mech_dict[rxnIdx]['rxnType']:
rxn = ct.PlogReaction(mech_dict[rxnIdx]['reactants'],
mech_dict[rxnIdx]['products'])
rates = []
for plog in mech_dict[rxnIdx]['rxnCoeffs']:
pressure = plog['Pressure']
A, b, Ea = get_Arrhenius_parameters(plog)
rates.append((pressure, ct.Arrhenius(A, b, Ea)))
rxn.rates = rates
elif 'FalloffReaction' == mech_dict[rxnIdx]['rxnType']:
rxn = ct.FalloffReaction(mech_dict[rxnIdx]['reactants'],
mech_dict[rxnIdx]['products'])
# high pressure limit
A, b, Ea = get_Arrhenius_parameters(
mech_dict[rxnIdx]['rxnCoeffs']['high_rate'])
rxn.high_rate = ct.Arrhenius(A, b, Ea)
# low pressure limit
A, b, Ea = get_Arrhenius_parameters(
mech_dict[rxnIdx]['rxnCoeffs']['low_rate'])
rxn.low_rate = ct.Arrhenius(A, b, Ea)
# falloff parameters
if mech_dict[rxnIdx]['rxnCoeffs']['falloff_type'] == 'Troe':
falloff_param = mech_dict[rxnIdx]['rxnCoeffs'][
'falloff_parameters']
if falloff_param[-1] == 0.0:
falloff_param = falloff_param[0:-1]
rxn.falloff = ct.TroeFalloff(falloff_param)
else:
rxn.falloff = ct.SriFalloff(
mech_dict[rxnIdx]['rxnCoeffs']['falloff_parameters'])
rxn.efficiencies = mech_dict[rxnIdx]['rxnCoeffs'][
'efficiencies']
elif 'ChebyshevReaction' == mech_dict[rxnIdx]['rxnType']:
rxn = ct.ChebyshevReaction(mech_dict[rxnIdx]['reactants'],
mech_dict[rxnIdx]['products'])
rxn.set_parameters(Tmin=mech_dict['Tmin'],
Tmax=mech_dict['Tmax'],
Pmin=mech_dict['Pmin'],
Pmax=mech_dict['Pmax'],
coeffs=mech_dict['coeffs'])
rxn.duplicate = mech_dict[rxnIdx]['duplicate']
rxn.reversible = mech_dict[rxnIdx]['reversible']
rxn.allow_negative_orders = True
rxn.allow_nonreactant_orders = True
rxns.append(rxn)
self.gas = ct.Solution(thermo='IdealGas',
kinetics='GasKinetics',
species=species,
reactions=rxns)
self.set_rate_expression_coeffs(bnds) # set copy of coeffs
self.set_thermo_expression_coeffs() # set copy of thermo coeffs
def toCantera(self, speciesList=None, useChemkinIdentifier = False):
"""
Converts the RMG Reaction object to a Cantera Reaction object
with the appropriate reaction class.
If useChemkinIdentifier is set to False, the species label is used
instead. Be sure that species' labels are unique when setting it False.
"""
from rmgpy.kinetics import Arrhenius, ArrheniusEP, MultiArrhenius, PDepArrhenius, MultiPDepArrhenius, Chebyshev, ThirdBody, Lindemann, Troe
import cantera as ct
if speciesList is None:
speciesList = []
# Create the dictionaries containing species strings and their stoichiometries
# for initializing the cantera reaction object
ctReactants = {}
for reactant in self.reactants:
if useChemkinIdentifier:
reactantName = reactant.toChemkin()
else:
reactantName = reactant.label
if reactantName in ctReactants:
ctReactants[reactantName] += 1
else:
ctReactants[reactantName] = 1
ctProducts = {}
for product in self.products:
if useChemkinIdentifier:
productName = product.toChemkin()
else:
productName = product.label
if productName in ctProducts:
ctProducts[productName] += 1
else:
ctProducts[productName] = 1
if self.kinetics:
if isinstance(self.kinetics, Arrhenius):
# Create an Elementary Reaction
ctReaction = ct.ElementaryReaction(reactants=ctReactants, products=ctProducts)
elif isinstance(self.kinetics, MultiArrhenius):
# Return a list of elementary reactions which are duplicates
ctReaction = [ct.ElementaryReaction(reactants=ctReactants, products=ctProducts) for arr in self.kinetics.arrhenius]
elif isinstance(self.kinetics, PDepArrhenius):
ctReaction = ct.PlogReaction(reactants=ctReactants, products=ctProducts)
elif isinstance(self.kinetics, MultiPDepArrhenius):
ctReaction = [ct.PlogReaction(reactants=ctReactants, products=ctProducts) for arr in self.kinetics.arrhenius]
elif isinstance(self.kinetics, Chebyshev):
ctReaction = ct.ChebyshevReaction(reactants=ctReactants, products=ctProducts)
elif isinstance(self.kinetics, ThirdBody):
ctReaction = ct.ThreeBodyReaction(reactants=ctReactants, products=ctProducts)
elif isinstance(self.kinetics, Lindemann) or isinstance(self.kinetics, Troe):
ctReaction = ct.FalloffReaction(reactants=ctReactants, products=ctProducts)
else:
raise NotImplementedError('Not able to set cantera kinetics for {0}'.format(self.kinetics))
# Set reversibility, duplicate, and ID attributes
if isinstance(ctReaction,list):
for rxn in ctReaction:
rxn.reversible = self.reversible
# Set the duplicate flag to true since this reaction comes from multiarrhenius or multipdeparrhenius
rxn.duplicate = True
# Set the ID flag to the original rmg index
rxn.ID = str(self.index)
else:
ctReaction.reversible = self.reversible
ctReaction.duplicate = self.duplicate
ctReaction.ID = str(self.index)
self.kinetics.setCanteraKinetics(ctReaction, speciesList)
return ctReaction
else:
raise Exception('Cantera reaction cannot be created because there was no kinetics.')