Class: Wrnap::Package::Fold

Inherits:
Base
  • Object
show all
Defined in:
lib/wrnap/package/fold.rb

Instance Attribute Summary collapse

Attributes inherited from Base

#data, #flags, #response, #runtime

Instance Method Summary collapse

Methods inherited from Base

bootstrap, #debugger, #initialize, #inspect

Methods included from Global::Yaml

#deserialize, #serialize

Methods included from Global::Chainer

included

Methods included from Global::Runner

included

Constructor Details

This class inherits a constructor from Wrnap::Package::Base

Instance Attribute Details

#ensemble_energy ⇒ Object (readonly)

Returns the value of attribute ensemble_energy.



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# File 'lib/wrnap/package/fold.rb', line 8

def ensemble_energy
  @ensemble_energy
end

#mfe ⇒ Object (readonly)

Returns the value of attribute mfe.



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# File 'lib/wrnap/package/fold.rb', line 8

def mfe
  @mfe
end

#mfe_rna ⇒ Object (readonly)

Returns the value of attribute mfe_rna.



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# File 'lib/wrnap/package/fold.rb', line 8

def mfe_rna
  @mfe_rna
end

#structure ⇒ Object (readonly)

Returns the value of attribute structure.



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# File 'lib/wrnap/package/fold.rb', line 8

def structure
  @structure
end

Instance Method Details

#post_process ⇒ Object 



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# File 'lib/wrnap/package/fold.rb', line 10

def post_process
  structure = Wrnap::Global::Parser.rnafold_mfe_structure(response)

  unless data.len == structure.length
    raise "Sequence: '#{data.seq}'\nStructure: '#{structure}'"
  else
    @mfe_rna, @structure, @mfe = RNA.from_string(data.seq, structure), structure, Wrnap::Global::Parser.rnafold_mfe(response)
  end
  
  if flags[:p] == 0
    @ensemble_energy = Wrnap::Global::Parser.rnafold_ensemble_energy(response)
  end
end