Function parse_belscript has a Cognitive Complexity of 20 (exceeds 5 allowed). Consider refactoring. Open
def parse_belscript(lines):
"""Lines from the BELScript - can be an iterator or list
yields Nanopubs in nanopubs_bel-1.0.0 format
"""- 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
File belscripts.py has 255 lines of code (exceeds 250 allowed). Consider refactoring. Open
#!/usr/bin/env python3.6
# -*- coding: utf-8 -*-
"""
Process belscripts content into nanopubs_bel-1.0.0 format for use in BEL.bioFunction process_definition has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring. Open
def process_definition(line, nanopubs_metadata):
"""Process DEFINE line in BEL script"""
matches = re.match('DEFINE\s+(\w+)\s+(\w+)\s+AS\s+URL\s+"(.*?)"\s*$', line)
if matches:- Read upRead up
Cognitive Complexity
Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.
A method's cognitive complexity is based on a few simple rules:
- Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
- Code is considered more complex for each "break in the linear flow of the code"
- Code is considered more complex when "flow breaking structures are nested"
Further reading
Function process_unset has a Cognitive Complexity of 10 (exceeds 5 allowed). Consider refactoring. Open
def process_unset(line, annotations):
"""Process UNSET lines in BEL Script"""
matches = re.match('UNSET\s+"?(.*?)"?\s*$', line)
if matches:- 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 process_citation has a Cognitive Complexity of 10 (exceeds 5 allowed). Consider refactoring. Open
def process_citation(citation_str: str) -> dict:
"""Parse BEL Script Citation string into nanopub_bel citation object"""
citation_obj = {}
- 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 yield_nanopub has a Cognitive Complexity of 9 (exceeds 5 allowed). Consider refactoring. Open
def yield_nanopub(assertions, annotations, line_num):
"""Yield nanopub object"""
if not assertions:
return {}- 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 set_single_line has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring. Open
def set_single_line(lines):
flag = False
hold = ""
- 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 preprocess_belscript has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring. Open
def preprocess_belscript(lines):
""" Convert any multi-line SET statements into single line SET statements"""
set_flag = False
for line in lines:- 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 process_set has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def process_set(line, annotations):
"""Convert annotations into nanopub_bel annotations format"""
matches = re.match('SET\s+(\w+)\s*=\s*"?(.*?)"?\s*$', line)
- 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"