bio-miga/miga

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lib/miga/cli/action/browse.rb

Summary

Maintainability
A
55 mins
Test Coverage

Class has too many lines. [185/100]
Open

class MiGA::Cli::Action::Browse < MiGA::Cli::Action
  def parse_cli
    cli.parse do |opt|
      cli.defaults = { open: true }
      cli.opt_object(opt, [:project])
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks if the length a class exceeds some maximum value. Comment lines can optionally be ignored. The maximum allowed length is configurable.

Method has too many lines. [21/10]
Open

  def generate_summary_page(path, p)
    b = File.basename(path, '.tsv')
    table = '<table class="table table-hover table-responsive">'
    File.open(path, 'r') do |fh|
      fh.each do |ln|
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks if the length of a method exceeds some maximum value. Comment lines can optionally be ignored. The maximum allowed length is configurable.

Method has too many lines. [21/10]
Open

  def format_results(obj)
    o = ''
    obj.each_result do |key, res|
      links = format_result_links(res)
      stats = format_result_stats(res)
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks if the length of a method exceeds some maximum value. Comment lines can optionally be ignored. The maximum allowed length is configurable.

Assignment Branch Condition size for generate_summary_page is too high. [21.05/15]
Open

  def generate_summary_page(path, p)
    b = File.basename(path, '.tsv')
    table = '<table class="table table-hover table-responsive">'
    File.open(path, 'r') do |fh|
      fh.each do |ln|
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks that the ABC size of methods is not higher than the configured maximum. The ABC size is based on assignments, branches (method calls), and conditions. See http://c2.com/cgi/wiki?AbcMetric

Method has too many lines. [14/10]
Open

  def format_metadata(obj)
    '<table class="table table-sm table-responsive">' +
      obj.metadata.data.map do |k, v|
        case k
        when /^run_/, :plugins, :user
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks if the length of a method exceeds some maximum value. Comment lines can optionally be ignored. The maximum allowed length is configurable.

Method has too many lines. [13/10]
Open

  def generate_project_page(p)
    # Redirect page
    write_file(p, '../index.html') { build_from_template('redirect.html') }

    # Summaries
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks if the length of a method exceeds some maximum value. Comment lines can optionally be ignored. The maximum allowed length is configurable.

Method has too many lines. [11/10]
Open

  def generate_datasets_index(p)
    cli.say 'Creating index pages'
    data = format_dataset_index(p)
    data.each do |k, v|
      write_file(p, "#{k}_datasets.html") do
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks if the length of a method exceeds some maximum value. Comment lines can optionally be ignored. The maximum allowed length is configurable.

Assignment Branch Condition size for perform is too high. [15.03/15]
Open

  def perform
    p = cli.load_project
    create_empty_page(p)
    generate_project_page(p)
    cli.say 'Creating dataset pages'
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks that the ABC size of methods is not higher than the configured maximum. The ABC size is based on assignments, branches (method calls), and conditions. See http://c2.com/cgi/wiki?AbcMetric

Method format_result_stats has a Cognitive Complexity of 9 (exceeds 5 allowed). Consider refactoring.
Open

  def format_result_stats(res)
    res.stats.map do |k, v|
      v = [v, ''] unless v.is_a? Array
      v[0] = ('%.3g' % v[0]) if v[0].is_a? Float
      "<b>#{format_name(k)}:</b> #{v[0]}#{v[1]}<br/>"
Severity: Minor
Found in lib/miga/cli/action/browse.rb - About 55 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

Align the operands of an expression in an assignment spanning multiple lines.
Open

            r.map { |i| "<th scope=col>#{format_name(i)}</th>" }.join(' ') +
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks the indentation of the right hand side operand in binary operations that span more than one line.

Example:

# bad
if a +
b
  something
end

# good
if a +
   b
  something
end

Favor a normal unless-statement over a modifier clause in a multiline statement.
Open

    res.stats.map do |k, v|
      v = [v, ''] unless v.is_a? Array
      v[0] = ('%.3g' % v[0]) if v[0].is_a? Float
      "<b>#{format_name(k)}:</b> #{v[0]}#{v[1]}<br/>"
    end.join('') + '<br/>' unless res.stats.empty?
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

Checks for uses of if/unless modifiers with multiple-lines bodies.

Example:

# bad
{
  result: 'this should not happen'
} unless cond

# good
{ result: 'ok' } if cond

Prefer single-quoted strings when you don't need string interpolation or special symbols.
Open

            r.map { |i| "<td>#{i}</td>" }.join(' ') + "</tr>"
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

Checks if uses of quotes match the configured preference.

Example: EnforcedStyle: single_quotes (default)

# bad
"No special symbols"
"No string interpolation"
"Just text"

# good
'No special symbols'
'No string interpolation'
'Just text'
"Wait! What's #{this}!"

Example: EnforcedStyle: double_quotes

# bad
'Just some text'
'No special chars or interpolation'

# good
"Just some text"
"No special chars or interpolation"
"Every string in #{project} uses double_quotes"

Prefer $INPUT_LINE_NUMBER or $NR from the stdlib 'English' module (don't forget to require it) over $..
Open

        if $. == 1
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

Align the operands of an expression in an assignment spanning multiple lines.
Open

            '</tr></thead><tbody>'
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks the indentation of the right hand side operand in binary operations that span more than one line.

Example:

# bad
if a +
b
  something
end

# good
if a +
   b
  something
end

Align the operands of an expression in an assignment spanning multiple lines.
Open

            r.map { |i| "<td>#{i}</td>" }.join(' ') + "</tr>"
Severity: Minor
Found in lib/miga/cli/action/browse.rb by rubocop

This cop checks the indentation of the right hand side operand in binary operations that span more than one line.

Example:

# bad
if a +
b
  something
end

# good
if a +
   b
  something
end

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