Module: SimpleBioC::LocationAdjuster

Included in:
Passage, Sentence
Defined in:
lib/simple_bioc/location_adjuster.rb

Class Method Summary collapse

Instance Method Summary collapse

Class Method Details

.choose_offset_candidate(offset, positions) ⇒ Object 



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# File 'lib/simple_bioc/location_adjuster.rb', line 28

def choose_offset_candidate(offset, positions)
  min_diff = 99999
  offset = offset.to_i
  ret = offset
  positions.each do |p|
    diff = (offset - p).abs
    if diff < min_diff
      ret = p 
      min_diff = diff
    end
  end
  return ret
end

.find_all_locations(obj, text) ⇒ Object 



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# File 'lib/simple_bioc/location_adjuster.rb', line 17

def find_all_locations(obj, text)
  positions = []
  return positions if obj.nil? || obj.text.nil?
  pos = obj.text.index(text)
  until pos.nil? 
    positions << (pos + obj.offset)
    pos = obj.text.index(text, pos + 1)
  end
  return positions
end

Instance Method Details

#adjust_annotation_offsets ⇒ Object 



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# File 'lib/simple_bioc/location_adjuster.rb', line 3

def adjust_annotation_offsets
  obj = self
  return if obj.nil?
  obj.annotations.each do |a|
    positions = find_all_locations(obj, a.text)
    a.locations.each do |l|
      l.original_offset = l.offset
      l.offset = choose_offset_candidate(l.offset, positions)
    end
  end
end