Showing 44 of 94 total issues
Function get_seq_and_start_codon has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def get_seq_and_start_codon(self, table=1, cds=True):
""" Get the 5' to 3' amino acid sequence and the start codon
Args:
table (:obj:`int`, optional): NCBI identifier for translation table- Read upRead up
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_value has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def get_value(self):
""" SpeciesType property values are stored as strings, this function returns the value as the correct type. """
if self.value == '':
return None- Read upRead up
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 _parse_EviNExperiment has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def _parse_EviNExperiment(self, metadataObjs):
if hasattr(self, 'evidence'):
for evidence in self.evidence:
metadataObjs = evidence._append_metadata_entries(key=Evidence, metadataObjs=metadataObjs)
if evidence.experiment is not None:- Read upRead up
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 gen_id has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def gen_id(species_type, compartment):
""" Generate a Species' primary identifier
Args:
species_type (:obj:`object`): a `SpeciesType`, or its id- Read upRead up
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"