Class: MS::Sim_Spectra

Inherits:
Object
  • Object
show all
Defined in:
lib/ms/sim_spectra.rb

Instance Attribute Summary collapse

Class Method Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(opts, one_d = false, db) ⇒ Sim_Spectra

Returns a new instance of Sim_Spectra.



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# File 'lib/ms/sim_spectra.rb', line 9

def initialize(opts,one_d = false,db)
  @opts = opts
  @max_mz
  sampling_rate = opts[:sampling_rate]
  run_time = opts[:run_time]
  drop_percentage = opts[:dropout_percentage]
  #RTS
  var = 0.1/(sampling_rate*2)
  @@r_times = []
  num_of_spec = sampling_rate*run_time
  spec_time = 1/sampling_rate
  num_of_spec.to_i.times do |k|
    @@r_times<<spec_time+RThelper.RandomFloat(-var,var)
    spec_time = spec_time + (1/sampling_rate)
  end
  @@r_times = MS::Noise.spec_drops(drop_percentage)

  MS::Rtgenerator.generateRT(one_d,db)

  #Features
  @features_o = MS::Sim_Feature.new(opts,one_d,db)
  @max_mz = @features_o.max_mz

end

Instance Attribute Details

#max_mz ⇒ Object

Returns the value of attribute max_mz.



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# File 'lib/ms/sim_spectra.rb', line 51

def max_mz
  @max_mz
end

Class Method Details

.r_times ⇒ Object 



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# File 'lib/ms/sim_spectra.rb', line 47

def self.r_times
  @@r_times
end

Instance Method Details

#noiseify(db) ⇒ Object 



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# File 'lib/ms/sim_spectra.rb', line 34

def noiseify(db)
  @noise = MS::Noise.noiseify(@opts,@max_mz)
  cent_id = @features_o.cent_id + 1
  @noise.each do |key,val|
    mzs = val[0]
    ints = val[1]
    mzs.each_with_index do |mz,index|
      db.execute "INSERT INTO spectra VALUES(#{cent_id},NULL,#{key},#{mz},#{ints[index]},NULL)"
      cent_id += 1
    end
  end
end