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Showing 107 of 141 total issues

Function plot has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

def plot(data):
    # plotting options
    pyplot.rc('font', size=6)
    fig = pyplot.figure()
    fig.suptitle(f'Details of ODE solution of [compt_1]: spec_type_0 ==> spec_type_1 @ k * spec_type_0 / Avogadro / volume_compt_1')
Severity: Minor
Found in multialg_analysis/code/analyze_ode_steps.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function dataframes_are_close has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

    def dataframes_are_close(df1, df2, rtol=None, atol=None):
     """ Indicate whether two Pandas DataFrames that contain floats are almost equal

     Args:
         df1 (:obj:`pandas.DataFrame`): one DataFrame
Severity: Minor
Found in wc_sim/run_results.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function heatmap has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

def heatmap(data, row_labels, col_labels, ax=None, size=None,
            cbar_kw={}, cbarlabel="", xlabel=None, ylabel=None, title=None, **kwargs):  # pragma: no cover
    """
    Create a heatmap from a numpy array and two lists of labels.
Severity: Minor
Found in wc_sim/testing/analyze_tolerances.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function prepare_tolerances has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

    def prepare_tolerances(self):
        """ Prepare tolerance dictionary

        Use values from `verification_test_reader.settings` if available, otherwise from
        `numpy.allclose()`s defaults.
Severity: Minor
Found in wc_sim/testing/verify.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function convert_checkpoints has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

    def convert_checkpoints(self):
        """ Convert the data in saved checkpoints into pandas dataframes for loading into hdf

        Returns:
            :obj:`tuple` of pandas objects: dataframes of the components of a simulation checkpoint history
Severity: Minor
Found in wc_sim/run_results.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function get_data has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

def get_data():
    datafile = os.path.join(os.path.dirname(__file__), '..', 'data', '2019-11-22_run_ode_solver_w_internal.tsv')
    with open(datafile, 'r') as fh:
        while(True):
            line = fh.readline()   # discard header lines
Severity: Minor
Found in multialg_analysis/code/analyze_ode_steps.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function slope_of_predictions has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
Open

    def slope_of_predictions(self):
        """ Determine the expected derivatives of species from the expected populations

        Returns:
            :obj:`pandas.DataFrame`: expected derivatives inferred from the expected populations
Severity: Minor
Found in wc_sim/testing/verify.py - About 25 mins to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

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