Module: Ms::Mascot::Dat::Peptides::Utils

Included in:
Ms::Mascot::Dat::Peptides
Defined in:
lib/ms/mascot/dat/peptides.rb

Class Method Summary collapse

Class Method Details

.parse_peptide_hit(str, terms) ⇒ Object

Parses a PeptideHit from the query-hit string.



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# File 'lib/ms/mascot/dat/peptides.rb', line 129

def parse_peptide_hit(str, terms)
  return nil if str == nil || str == "-1"
  
  peptide_data, protein_maps = str.split(";", 2)
  protein_maps = protein_maps.split(",")
  terms = terms.split(":")
  
  # parse peptide data
  peptide_data = peptide_data.split(",")
  
  PeptideHitFloatIndicies.each do |index|
    peptide_data[index] = peptide_data[index].to_f
  end
  
  PeptideHitIntIndicies.each do |index|
    peptide_data[index] = peptide_data[index].to_i
  end

  # parse protein_map data
  protein_maps = protein_maps.zip(terms).collect do |map_data, terms|
    data = map_data.split(":") + terms.split(',')
    
    # removes quotes from protein id
    data[0] = data[0][1...-1]
    
    ProteinMapIntIndicies.each {|index| data[index] = data[index].to_i }
    ProteinMap.new(*data)
  end
  
  peptide_data << protein_maps
  PeptideHit.new(*peptide_data)
end