Class: SequenceServer::BLAST::HSP

Inherits:
Struct
  • Object
show all
Defined in:
lib/sequenceserver/blast/hsp.rb

Overview

Structure to hold data for each HSP.

Constant Summary collapse

INTEGER_ARGS = 
[1, 3].concat((5..15).to_a).freeze
FLOAT_ARGS = 
[2, 4].freeze

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(*args) ⇒ HSP 



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# File 'lib/sequenceserver/blast/hsp.rb', line 11

def initialize(*args)
  INTEGER_ARGS.each do |i|
    args[i] = args[i].to_i
  end

  FLOAT_ARGS.each do |i|
    args[i] = args[i].to_f
  end

  super
end

Instance Attribute Details

#bit_score ⇒ Object

Returns the value of attribute bit_score



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def bit_score
  @bit_score
end

#evalue ⇒ Object

Returns the value of attribute evalue



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def evalue
  @evalue
end

#gaps ⇒ Object

Returns the value of attribute gaps



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def gaps
  @gaps
end

#hit ⇒ Object

Returns the value of attribute hit



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def hit
  @hit
end

#identity ⇒ Object

Returns the value of attribute identity



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def identity
  @identity
end

#length ⇒ Object

Returns the value of attribute length



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def length
  @length
end

#midline ⇒ Object

Returns the value of attribute midline



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def midline
  @midline
end

#number ⇒ Object

Returns the value of attribute number



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def number
  @number
end

#positives ⇒ Object

Returns the value of attribute positives



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def positives
  @positives
end

#qcovhsp ⇒ Object

Returns the value of attribute qcovhsp



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def qcovhsp
  @qcovhsp
end

#qend ⇒ Object

Returns the value of attribute qend



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def qend
  @qend
end

#qframe ⇒ Object

Returns the value of attribute qframe



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def qframe
  @qframe
end

#qseq ⇒ Object

Returns the value of attribute qseq



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def qseq
  @qseq
end

#qstart ⇒ Object

Returns the value of attribute qstart



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def qstart
  @qstart
end

#score ⇒ Object

Returns the value of attribute score



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def score
  @score
end

#send ⇒ Object

Returns the value of attribute send



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def send
  @send
end

#sframe ⇒ Object

Returns the value of attribute sframe



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def sframe
  @sframe
end

#sseq ⇒ Object

Returns the value of attribute sseq



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def sseq
  @sseq
end

#sstart ⇒ Object

Returns the value of attribute sstart



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# File 'lib/sequenceserver/blast/hsp.rb', line 5

def sstart
  @sstart
end

Instance Method Details

#to_json(*args) ⇒ Object 



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# File 'lib/sequenceserver/blast/hsp.rb', line 23

def to_json(*args)
  i[number bit_score score evalue qstart qend
     sstart send qframe sframe identity positives
     gaps length qcovhsp qseq sseq midline].inject({}) { |h, k|
    h[k] = self[k]
    h
  }.to_json(*args)
end