Method write has 99 lines of code (exceeds 25 allowed). Consider refactoring. Open
def write(mzml_filenames, config={})
base = config[:combine] || mzml_filenames.first.chomp(File.extname(mzml_filenames.first))
config[:imzml_filename] = base + ".imzML"
config[:ibd_filename] = base + ".ibd"Method write has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring. Open
def write(mzml_filenames, config={})
base = config[:combine] || mzml_filenames.first.chomp(File.extname(mzml_filenames.first))
config[:imzml_filename] = base + ".imzML"
config[:ibd_filename] = base + ".ibd"- 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 writer.rb has 304 lines of code (exceeds 250 allowed). Consider refactoring. Open
require 'nokogiri'
require 'securerandom'
require 'cv'
require 'mspire/mzml'
require 'mspire/mzml/spectrum'Method x_y_positions has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring. Open
def x_y_positions(config)
(scan_pattern, scan_type, scan_direction, scan_sequence, shots_per_pos) = config.values_at(:scan_pattern, :scan_type, :linescan_direction, :linescan_sequence, :shots_per_position).map(&:to_s)
shots_per_pos = shots_per_pos.to_i
#puts "EXAMIN ARGS: "
#p [ scan_pattern, scan_type, scan_direction, scan_sequence, shots_per_pos, shots_per_pos]- 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
Method image_hash_to_cvs has 39 lines of code (exceeds 25 allowed). Consider refactoring. Open
def image_hash_to_cvs(hash)
cvs = []
cvs << case hash[:data_structure].to_sym
when :processed ; 'IMS:1000031'
when :continuous ; 'IMS:1000030'Method create_file_description has a Cognitive Complexity of 12 (exceeds 5 allowed). Consider refactoring. Open
def create_file_description(source_files, config)
Mspire::Mzml::FileDescription.new do |fd|
fd.file_content = Mspire::Mzml::FileContent.new.describe_many!( [
'MS:1000579', # MS1 Spectrum- 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
Method write_binary has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring. Open
def write_binary(filename, spectra_iterator, config)
config = DEFAULTS.merge(config)
raise ":data_structure must be :continuous or :processed" unless [:processed, :continuous].include?(config[:data_structure])
(mz_dtype, mz_prec, int_dtype, int_prec) = config.values_at(:mz_data_type, :mz_precision, :intensity_data_type, :intensity_precision)
mz_prec_in_bytes = mz_prec / 8- 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
Method write_data_array has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def write_data_array(fh, values, dtype=:float, precision=32)
pack_code =
case dtype
when :float
precision == 64 ? 'E*' : 'e*'- 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
Method experiment_hash_to_cvs has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring. Open
def experiment_hash_to_cvs(hash)
cvs = {
:matrix_solution_concentration => "MS:1000835",
:matrix_solution => "MS:1000834",
:solvent => 'IMS:1001211',- 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"