Sign upLogin

KarrLab/obj_tables

View on GitHub
Star
obj_tables/sci/uncertainty.py

Summary

Maintainability
B
4 hrs
Test Coverage
A
100%

Function __init__ has 9 arguments (exceeds 4 allowed). Consider refactoring.
Open

    def __init__(self, none=True, default=None, default_cleaned_value=None,
Severity: Major
Found in obj_tables/sci/uncertainty.py - About 1 hr to fix

    Function value_equal has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.
    Open

        def value_equal(self, val1, val2, tol=0.):
        """ Determine if attribute values are equal

        Args:
            val1 (:obj:`uncertainties.core.Variable`): first value
    Severity: Minor
    Found in obj_tables/sci/uncertainty.py - About 45 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 clean has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring.
    Open

        def clean(self, value):
        """ Convert attribute value into the appropriate type

        Args:
            value (:obj:`object`): value of attribute to clean
    Severity: Minor
    Found in obj_tables/sci/uncertainty.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

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

        def get_xlsx_validation(self, sheet_models=None, doc_metadata_model=None):
        """ Get XLSX validation

        Args:
            sheet_models (:obj:`list` of :obj:`Model`, optional): models encoded as separate sheets
    Severity: Minor
    Found in obj_tables/sci/uncertainty.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

    Similar blocks of code found in 4 locations. Consider refactoring.
    Open

            if default_cleaned_value is not None and not isinstance(default_cleaned_value, uncertainties.core.Variable):
            raise ValueError('`default_cleaned_value` must be an instance of `uncertainties.core.Variable`')
    Severity: Major
    Found in obj_tables/sci/uncertainty.py and 3 other locations - About 45 mins to fix
    obj_tables/bio/seq.py on lines 46..47
    obj_tables/bio/seq.py on lines 197..198
    obj_tables/sci/uncertainty.py on lines 41..42

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 35.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 4 locations. Consider refactoring.
    Open

            if default is not None and not isinstance(default, uncertainties.core.Variable):
            raise ValueError('`default` must be an instance of `uncertainties.core.Variable`')
    Severity: Major
    Found in obj_tables/sci/uncertainty.py and 3 other locations - About 45 mins to fix
    obj_tables/bio/seq.py on lines 46..47
    obj_tables/bio/seq.py on lines 197..198
    obj_tables/sci/uncertainty.py on lines 43..44

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 35.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    There are no issues that match your filters.

    Category
    Status