def create_test_model(model_name="salmonella"):
"""Returns a cobra model for testing
model_name: str
One of 'ecoli', 'textbook', or 'salmonella', or the
path to a pickled cobra.Model
"""
if model_name == "ecoli":
return read_sbml_model(ecoli_sbml)
elif model_name == "textbook":
return read_sbml_model(textbook_sbml)
elif model_name == "mini":
return read_sbml_model(mini_sbml)
if model_name == "salmonella":
model_name = salmonella_pickle
with open(model_name, "rb") as infile:
return _load(infile)
def create_test_model(model_name="salmonella"):
"""Returns a cobra model for testing
model_name: str
One of 'ecoli', 'textbook', or 'salmonella', or the
path to a pickled cobra.Model
"""
if model_name == "ecoli":
return read_sbml_model(ecoli_sbml)
elif model_name == "textbook":
return read_sbml_model(textbook_sbml)
elif model_name == "mini":
return read_sbml_model(mini_sbml)
if model_name == "salmonella":
model_name = salmonella_pickle
with open(model_name, "rb") as infile:
return _load(infile)
def create_test_model(model_name="salmonella"):
"""Returns a cobra model for testing
model_name: str
One of 'ecoli', 'textbook', or 'salmonella', or the
path to a pickled cobra.Model
"""
if model_name == "ecoli":
ecoli_sbml = join(data_dir, "iJO1366.xml")
return read_sbml_model(ecoli_sbml)
elif model_name == "textbook":
textbook_sbml = join(data_dir, "textbook.xml.gz")
return read_sbml_model(textbook_sbml)
elif model_name == "mini":
mini_sbml = join(data_dir, "mini_fbc2.xml")
return read_sbml_model(mini_sbml)
elif model_name == "salmonella":
salmonella_pickle = join(data_dir, "salmonella.pickle")
model_name = salmonella_pickle
with open(model_name, "rb") as infile:
return _load(infile)
def load(f, **kwargs):
return _load(f)
def solved_model(data_directory):
model = create_test_model("textbook")
with open(join(data_directory, "textbook_solution.pickle"),
"rb") as infile:
solution = _load(infile)
return solution, model
def load(f, **kwargs): return _load(f)
def solved_model(data_directory):
model = create_test_model("textbook")
with open(join(data_directory, "textbook_solution.pickle"),
"rb") as infile:
model.solution = _load(infile)
return model
def load(f, **kwargs): return _load(f) def loads(s, **kwargs): return _loads(s)