Method: Bio::RestrictionEnzyme::SingleStrand::CutLocationsInEnzymeNotation#initialize

Defined in:
lib/bio/util/restriction_enzyme/single_strand/cut_locations_in_enzyme_notation.rb

#initialize(*a) ⇒ CutLocationsInEnzymeNotation

Constructor for CutLocationsInEnzymeNotation

Arguments

  • a: Locations of cuts represented as a string with cuts or an array of values

Examples:

  • n^ng^arraxt^n

  • 2

  • -1, 5

  • -1, 5
Returns

nothing



58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
 
# File 'lib/bio/util/restriction_enzyme/single_strand/cut_locations_in_enzyme_notation.rb', line 58

def initialize(*a)
  a.flatten! # in case an array was passed as an argument

  if a.size == 1 and a[0].kind_of? String and a[0] =~ re_cut_symbol
    # Initialize with a cut symbol pattern such as 'n^ng^arraxt^n'
    s = a[0]
    a = []
    i = -( s.tr(cut_symbol, '') =~ %r{[^n]} )  # First character that's not 'n'
    s.each_byte { |c| (a << i; next) if c.chr == cut_symbol; i += 1 }
    a.collect! { |n| n <= 0 ? n-1 : n } # 0 is not a valid enzyme index, decrement from 0 and all negative
  else
    a.collect! { |n| n.to_i } # Cut locations are always integers
  end

  validate_cut_locations( a )
  super(a)
  self.sort!
  @min = self.first
  @max = self.last
  self.freeze
end