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KarrLab/datanator

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datanator/__main__.py

Summary

Maintainability
C
1 day
Test Coverage
D
61%

File __main__.py has 593 lines of code (exceeds 250 allowed). Consider refactoring.
Open

""" Command line utilities

:Author: Yosef Roth <yosefdroth@gmail.com>
:Author: Jonathan Karr <jonrkarr@gmail.com>
:Author: Saahith Pochiraju <saahith116@gmail.com>
Severity: Major
Found in datanator/__main__.py - About 1 day to fix

    Function _default has a Cognitive Complexity of 13 (exceeds 5 allowed). Consider refactoring.
    Open

        def _default(self):
        # parse input
        def parse_participants(side, coefficient, reaction, errors):
            for participant in side.split(' + '):
                participant = participant.strip()
    Severity: Minor
    Found in datanator/__main__.py - About 1 hr 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 _default has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring.
    Open

        def _default(self):
        if self.app.pargs.by_name:
            compounds = pubchempy.get_compounds(self.app.pargs.name_or_id, 'name')
            results = [[compound.synonyms[0], 'pubchem.compound', compound.cid, compound.inchi] for compound in compounds]
        else:
    Severity: Minor
    Found in datanator/__main__.py - About 35 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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