Class: Scaffolder::Region::Unresolved

Inherits:

Scaffolder::Region

• Object
• Scaffolder::Region
• Scaffolder::Region::Unresolved

Defined in:

lib/scaffolder/region/unresolved.rb

Overview

This class is used to insert unreolved sequence regions in to the genome build. The unresolved region is filled with N characters. The example below with insert the characters ‘NNNNN’ into the genome build.

- unresolved:
    length: 5

Instance Method Summary

• #length ⇒ Integer

  The length of the unresolved region.

• #sequence_hook ⇒ String

  Calculate unresolved region sequence.

Methods inherited from Scaffolder::Region

[], attribute, #entry_type, generate, #raw_sequence, #reverse, #sequence, #start, #stop

Instance Method Details

#length ⇒ Integer

The length of the unresolved region

Parameters:

• (Integer)

Returns:

• (Integer)

# File 'lib/scaffolder/region/unresolved.rb', line 13

attribute :length

#sequence_hook ⇒ String

Calculate unresolved region sequence

Returns:

• (String) —

  a string of Ns equal to length attribute

Raises:

• (CoordinateError) —

  if the length attribute is nil

# File 'lib/scaffolder/region/unresolved.rb', line 18

def sequence_hook
  raise CoordinateError if length.nil?
  'N' * length
end