def set(self, pattern, rate_constant, parameters=None):
"""Set rate constants. Pattern can be a glob pattern,
and the rate constant will be applied to all processes,
where the pattern matches. The rate constant can be either
a number or a rate expression.
"""
if parameters is None:
parameters = settings.parameters
if type(rate_constant) is str:
rate_constant = evaluate_rate_expression(rate_constant, parameters)
try:
rate_constant = float(rate_constant)
except:
raise UserWarning("Could not convert rate constant to float")
for i, proc in enumerate(sorted(settings.rate_constants.keys())):
if pattern is None or fnmatch(proc, pattern):
base.set_rate_const(i + 1, rate_constant)
def set(self, pattern, rate_constant, parameters=None):
"""Set rate constants. Pattern can be a glob pattern,
and the rate constant will be applied to all processes,
where the pattern matches. The rate constant can be either
a number or a rate expression.
"""
if parameters is None:
parameters = settings.parameters
if type(rate_constant) is str:
rate_constant = evaluate_rate_expression(rate_constant,
parameters)
try:
rate_constant = float(rate_constant)
except:
raise UserWarning("Could not convert rate constant to float")
for i, proc in enumerate(sorted(settings.rate_constants.keys())):
if pattern is None or fnmatch(proc, pattern):
base.set_rate_const(i + 1, rate_constant)
def set_rate_constants(parameters=None, print_rates=True):
"""Tries to evaluate the supplied expression for a rate constant
to a simple real number and sets it for the corresponding process.
For the evaluation it draws on predefined natural constants, user defined
parameters and mathematical functions.
"""
if parameters is None:
parameters = settings.parameters
if print_rates:
print('-------------------')
for proc in sorted(settings.rate_constants):
rate_expr = settings.rate_constants[proc][0]
rate_const = evaluate_rate_expression(rate_expr, parameters)
try:
base.set_rate_const(eval('proclist.%s' % proc.lower()), rate_const)
if print_rates:
n = int(4 * log(rate_const))
print('%30s: %.3e s^{-1}: %s' % (proc, rate_const, '#' * n))
except Exception, e:
raise UserWarning(
"Could not set %s for process %s!\nException: %s" \
% (rate_expr, proc, e))
def set_rate_constants(parameters=None, print_rates=True):
"""Tries to evaluate the supplied expression for a rate constant
to a simple real number and sets it for the corresponding process.
For the evaluation it draws on predefined natural constants, user defined
parameters and mathematical functions.
"""
if parameters is None:
parameters = settings.parameters
if print_rates:
print('-------------------')
for proc in sorted(settings.rate_constants):
rate_expr = settings.rate_constants[proc][0]
rate_const = evaluate_rate_expression(rate_expr, parameters)
try:
base.set_rate_const(eval('proclist.%s' % proc.lower()), rate_const)
if print_rates:
n = int(4 * log(rate_const))
print('%30s: %.3e s^{-1}: %s' % (proc, rate_const, '#' * n))
except Exception, e:
raise UserWarning(
"Could not set %s for process %s!\nException: %s" \
% (rate_expr, proc, e))
