wurmlab/sequenceserver

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lib/sequenceserver/blast/error.rb

Summary

Maintainability
A
35 mins
Test Coverage
F
31%

Method has too many lines. [18/15]
Open

      def raise!
        return true if exitstatus.zero? && !File.zero?(stdout)

        case exitstatus
        when 1..2
Severity: Minor
Found in lib/sequenceserver/blast/error.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.

You can set literals you want to fold with CountAsOne. Available are: 'array', 'hash', and 'heredoc'. Each literal will be counted as one line regardless of its actual size.

NOTE: The ExcludedMethods configuration is deprecated and only kept for backwards compatibility. Please use IgnoredMethods instead.

Example: CountAsOne: ['array', 'heredoc']

def m
  array = [       # +1
    1,
    2
  ]

  hash = {        # +3
    key: 'value'
  }

  <<~HEREDOC      # +1
    Heredoc
    content.
  HEREDOC
end               # 5 points

Cyclomatic complexity for raise! is too high. [8/7]
Open

      def raise!
        return true if exitstatus.zero? && !File.zero?(stdout)

        case exitstatus
        when 1..2
Severity: Minor
Found in lib/sequenceserver/blast/error.rb by rubocop

This cop checks that the cyclomatic complexity of methods is not higher than the configured maximum. The cyclomatic complexity is the number of linearly independent paths through a method. The algorithm counts decision points and adds one.

An if statement (or unless or ?:) increases the complexity by one. An else branch does not, since it doesn't add a decision point. The && operator (or keyword and) can be converted to a nested if statement, and ||/or is shorthand for a sequence of ifs, so they also add one. Loops can be said to have an exit condition, so they add one. Blocks that are calls to builtin iteration methods (e.g. `ary.map{...}) also add one, others are ignored.

def each_child_node(*types)               # count begins: 1
  unless block_given?                     # unless: +1
    return to_enum(__method__, *types)

  children.each do |child|                # each{}: +1
    next unless child.is_a?(Node)         # unless: +1

    yield child if types.empty? ||        # if: +1, ||: +1
                   types.include?(child.type)
  end

  self
end                                       # total: 6

Method raise! has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring.
Open

      def raise!
        return true if exitstatus.zero? && !File.zero?(stdout)

        case exitstatus
        when 1..2
Severity: Minor
Found in lib/sequenceserver/blast/error.rb - About 35 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

Assignment Branch Condition size for raise! is too high. [<4, 22, 7> 23.43/17]
Open

      def raise!
        return true if exitstatus.zero? && !File.zero?(stdout)

        case exitstatus
        when 1..2
Severity: Minor
Found in lib/sequenceserver/blast/error.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 and https://en.wikipedia.org/wiki/ABC_Software_Metric.

Interpreting ABC size:

  • <= 17 satisfactory
  • 18..30 unsatisfactory
  • > 30 dangerous

You can have repeated "attributes" calls count as a single "branch". For this purpose, attributes are any method with no argument; no attempt is meant to distinguish actual attr_reader from other methods.

Example: CountRepeatedAttributes: false (default is true)

# `model` and `current_user`, refenced 3 times each,
 # are each counted as only 1 branch each if
 # `CountRepeatedAttributes` is set to 'false'

 def search
   @posts = model.active.visible_by(current_user)
             .search(params[:q])
   @posts = model.some_process(@posts, current_user)
   @posts = model.another_process(@posts, current_user)

   render 'pages/search/page'
 end

This cop also takes into account IgnoredMethods (defaults to [])

Missing top-level documentation comment for class SequenceServer::BLAST::Error.
Open

    class Error
Severity: Minor
Found in lib/sequenceserver/blast/error.rb by rubocop

This cop checks for missing top-level documentation of classes and modules. Classes with no body are exempt from the check and so are namespace modules - modules that have nothing in their bodies except classes, other modules, constant definitions or constant visibility declarations.

The documentation requirement is annulled if the class or module has a "#:nodoc:" comment next to it. Likewise, "#:nodoc: all" does the same for all its children.

Example:

# bad
class Person
  # ...
end

module Math
end

# good
# Description/Explanation of Person class
class Person
  # ...
end

# allowed
  # Class without body
  class Person
  end

  # Namespace - A namespace can be a class or a module
  # Containing a class
  module Namespace
    # Description/Explanation of Person class
    class Person
      # ...
    end
  end

  # Containing constant visibility declaration
  module Namespace
    class Private
    end

    private_constant :Private
  end

  # Containing constant definition
  module Namespace
    Public = Class.new
  end

  # Macro calls
  module Namespace
    extend Foo
  end

Example: AllowedConstants: ['ClassMethods']

# good
 module A
   module ClassMethods
     # ...
   end
  end

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