Module: Bio::RestrictionEnzyme::CutSymbol

Included in:

Bio::RestrictionEnzyme

Defined in:

lib/bio/util/restriction_enzyme/cut_symbol.rb

Overview

#require 'bio/util/restriction_enzyme/cut_symbol'
require 'cut_symbol'
include Bio::RestrictionEnzyme::CutSymbol

cut_symbol                            # => "^"
set_cut_symbol('|')                   # => "|"
cut_symbol                            # => "|"
escaped_cut_symbol                    # => "\\|"
re_cut_symbol                         # => /\|/
set_cut_symbol('^')                   # => "^"
"abc^de" =~ re_cut_symbol             # => 3
"abc^de" =~ re_cut_symbol_adjacent    # => nil
"abc^^de" =~ re_cut_symbol_adjacent   # => 3
"a^bc^^de" =~ re_cut_symbol_adjacent  # => 4
"a^bc^de" =~ re_cut_symbol_adjacent   # => nil

Defined Under Namespace

Classes: CutSymbol__

Instance Method Summary (collapse)

• - (Object) cut_symbol

  Get the token that's used as the cut symbol in a restriction enzyme sequece.

• - (Object) escaped_cut_symbol

  Get the token that's used as the cut symbol in a restriction enzyme sequece with a back-slash preceding it.

• - (Object) re_cut_symbol

  A Regexp of the cut_symbol.

• - (Object) re_cut_symbol_adjacent

  Used to check if multiple cut symbols are next to each other.

• - (Object) set_cut_symbol(glyph)

  Set the token to be used as the cut symbol in a restriction enzyme sequece.

52

# File 'lib/bio/util/restriction_enzyme/cut_symbol.rb', line 52

def cut_symbol; CutSymbol__.cut_symbol; end

61

# File 'lib/bio/util/restriction_enzyme/cut_symbol.rb', line 61

def escaped_cut_symbol; CutSymbol__.escaped_cut_symbol; end

79
80
81

# File 'lib/bio/util/restriction_enzyme/cut_symbol.rb', line 79

def re_cut_symbol
  %r"#{escaped_cut_symbol}"
end

69
70
71

# File 'lib/bio/util/restriction_enzyme/cut_symbol.rb', line 69

def re_cut_symbol_adjacent
  %r"#{escaped_cut_symbol}{2}"
end

42
43
44

# File 'lib/bio/util/restriction_enzyme/cut_symbol.rb', line 42

def set_cut_symbol(glyph)
  CutSymbol__.cut_symbol = glyph
end