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vanheeringen-lab/gimmemotifs

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gimmemotifs/motif/cluster.py

Summary

Maintainability
C
7 hrs
Test Coverage
A
90%

Function cluster_motifs has a Cognitive Complexity of 47 (exceeds 15 allowed). Consider refactoring.
Open

def cluster_motifs(
    motifs,
    match="total",
    metric="wic",
    combine="mean",
Severity: Minor
Found in gimmemotifs/motif/cluster.py - About 5 hrs 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 cluster_motifs_with_report has a Cognitive Complexity of 24 (exceeds 15 allowed). Consider refactoring.
Open

def cluster_motifs_with_report(infile, outfile, outdir, threshold, title=None):
    # Cluster significant motifs

    if title is None:
        title = infile
Severity: Minor
Found in gimmemotifs/motif/cluster.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

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