def summary(self, solution=None, threshold=1E-8, fva=None, floatfmt='.3g'):
"""Print a summary of the input and output fluxes of the model. This
method requires the model to have been previously solved.
Parameters
----------
solution: cobra.core.Solution
A previously solved model solution to use for generating the
summary. If none provided (default), the summary method will
resolve the model. Note that the solution object must match the
model, i.e., changes to the model such as changed bounds,
added or removed reactions are not taken into account by this
method.
threshold : float
tolerance for determining if a flux is zero (not printed)
fva : int or None
Whether or not to calculate and report flux variability in the
output summary
floatfmt : string
format method for floats, passed to tabulate. Default is '.3g'.
"""
from cobra.flux_analysis.summary import model_summary
return model_summary(self, solution=solution, threshold=threshold,
fva=fva, floatfmt=floatfmt)
def summary(self, solution=None, threshold=1E-06, fva=None, names=False,
floatfmt='.3g'):
"""
Print a summary of the input and output fluxes of the model.
Parameters
----------
solution: cobra.Solution, optional
A previously solved model solution to use for generating the
summary. If none provided (default), the summary method will
resolve the model. Note that the solution object must match the
model, i.e., changes to the model such as changed bounds,
added or removed reactions are not taken into account by this
method.
threshold : float, optional
Threshold below which fluxes are not reported.
fva : pandas.DataFrame, float or None, optional
Whether or not to include flux variability analysis in the output.
If given, fva should either be a previous FVA solution matching
the model or a float between 0 and 1 representing the
fraction of the optimum objective to be searched.
names : bool, optional
Emit reaction and metabolite names rather than identifiers (default
False).
floatfmt : string, optional
Format string for floats (default '.3g').
"""
from cobra.flux_analysis.summary import model_summary
return model_summary(self, solution=solution, threshold=threshold,
fva=fva, names=names, floatfmt=floatfmt)
def summary(self, threshold=1E-8, fva=None, floatfmt='.3g', **kwargs):
"""Print a summary of the input and output fluxes of the model. This
method requires the model to have been previously solved.
Parameters
----------
threshold : float
tolerance for determining if a flux is zero (not printed)
fva : int or None
Whether or not to calculate and report flux variability in the
output summary
floatfmt : string
format method for floats, passed to tabulate. Default is '.3g'.
"""
from cobra.flux_analysis.summary import model_summary
return model_summary(self, threshold=threshold, fva=fva,
floatfmt=floatfmt, **kwargs)