def getMatlab(self, current=False):
""" Matlab string of the original model loaded into roadrunner.
See also: :func:`getCurrentMatlab`
:returns: Matlab string
:rtype: str
"""
sbml = self.__getSBML(current)
if sbml2matlab is not None:
return sbml2matlab(sbml)
else:
warnings.warn("'sbml2matlab' could not be imported, no support for Matlab code generation",
RuntimeWarning, stacklevel=2)
return ""
def getMatlab(self, current=False):
""" Matlab string of the original model loaded into roadrunner.
See also: :func:`getCurrentMatlab`
:returns: Matlab string
:rtype: str
"""
sbml = self.__getSBML(current)
if sbml2matlab is not None:
return sbml2matlab(sbml)
else:
warnings.warn("'sbml2matlab' could not be imported, no support for Matlab code generation",
RuntimeWarning, stacklevel=2)
return ""
def getMatlab(self):
"""
Returns Matlab string for current model
"""
return sbml2matlab(self.getCurrentSBML())
def exportToMatlab (r, filename):
if not isinstance (r, roadrunner.RoadRunner):
raise Exception ('First argument must be a roadrunner variable')
matlab_str = sbml2matlab(r.getCurrentSBML())
saveToFile (filename, matlab_str)
try:
import sbml2matlab
except Exception as e:
print("Failed to import sbml2matlab:")
print(e)
try:
import matlab.engine
except Exception as e:
print("Failed to import matlab:")
print(e)
time_map[sim] = {}
for file_name in sbml_files:
print("Benchmarking sbml2matlab: " + file_name)
sbml_file = open(file_name)
sbml = sbml_file.read()
matlab_code = sbml2matlab.sbml2matlab(sbml)
sbml_file.close()
first_paren = 0
while matlab_code[first_paren] != "(":
first_paren += 1
model_name_begin = first_paren
while matlab_code[model_name_begin] != " ":
model_name_begin -= 1
model_name_begin += 1
model_name = matlab_code[model_name_begin:first_paren]
matlab_code = "function [time] = temp()\n\t options = odeset('RelTol'," + str(reltol) + ",'AbsTol'," + str(abstol) + "); tic;\n" + \
"\t{}(linspace({},{},{}), @ode15s, options); time = toc;\n".format(
model_name, time_start, time_end, steps) + matlab_code
fid = open("temp.m", "w+")
fid.write(matlab_code)
fid.close()