From: Martin Hansen <mail@...>
Date: 2010-08-30T16:58:02+09:00
Subject: Speed issues iterating over chars

Hello all,


This snip of code needs more speed. Ideas? What is the state of Ruby and
Inline C?


Cheers,

Martin



class Hash
  BASE_SOLEXA = 64

  # Soft masks sequence residues where the corresponding quality score
  # is below a given cutoff.
  def mask!(cutoff)
    if self.has_key? :SEQ and self.has_key? :SCORES
      seq    = self[:SEQ]
      scores = self[:SCORES]
      i      = 0

      scores.each_char do |score|
        seq[i] = seq[i].downcase if score.ord - BASE_SOLEXA <= cutoff
        i += 1
      end

      self[:SEQ] = seq
    end

    self
  end
end
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