Class: HTS::Bam::Cigar

Inherits:
Object
  • Object
show all
Includes:
Enumerable
Defined in:
lib/hts/bam/cigar.rb

Constant Summary collapse

OP_CHARS = 
"MIDNSHP=XB"

Instance Attribute Summary collapse

Class Method Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(record = nil) ⇒ Cigar

Returns a new instance of Cigar.



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# File 'lib/hts/bam/cigar.rb', line 15

def initialize(record = nil)
  @array = record ? record.__send__(:native_handle).cigar_values : []
end

Instance Attribute Details

#array ⇒ Object

Returns the value of attribute array.



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# File 'lib/hts/bam/cigar.rb', line 9

def array
  @array
end

Class Method Details

.parse(str) ⇒ Object 



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# File 'lib/hts/bam/cigar.rb', line 11

def self.parse(str)
  new.tap { |cigar| cigar.array = Native.cigar_parse(str.to_s) }
end

Instance Method Details

#==(other) ⇒ Object 



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# File 'lib/hts/bam/cigar.rb', line 29

def ==(other) = other.is_a?(Cigar) && @array == other.array

#each ⇒ Object 



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# File 'lib/hts/bam/cigar.rb', line 21

def each
  return to_enum(__method__) unless block_given?

  @array.each { |encoded| yield OP_CHARS[encoded & 15], encoded >> 4 }
end

#eql?(other) ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/hts/bam/cigar.rb', line 30

def eql?(other) = other.is_a?(Cigar) && @array.eql?(other.array)

#qlen ⇒ Object 



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# File 'lib/hts/bam/cigar.rb', line 27

def qlen = Native.cigar_qlen(@array)

#rlen ⇒ Object 



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# File 'lib/hts/bam/cigar.rb', line 28

def rlen = Native.cigar_rlen(@array)

#to_s ⇒ Object 



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# File 'lib/hts/bam/cigar.rb', line 19

def to_s = map { |op, len| "#{len}#{op}" }.join