Class: Bio::Blast::Bl2seq::Report::Iteration

Inherits:
Default::Report::Iteration show all
Defined in:
lib/bio/appl/bl2seq/report.rb

Overview

Bio::Blast::Bl2seq::Report::Iteration stores information about a iteration. Normally, it may contain some Bio::Blast::Bl2seq::Report::Hit objects.

Note that its main existance reason is to keep complatibility between Bio::Blast::Default::Report::* classes.

Instance Attribute Summary

Attributes inherited from Default::Report::Iteration

#database, #db_len, #db_num, #eff_space, #entropy, #expect, #gapped_entropy, #gapped_kappa, #gapped_lambda, #kappa, #lambda, #message, #num, #pattern_in_database, #posted_date

Instance Method Summary collapse

Methods inherited from Default::Report::Iteration

#converged?, #each, #hits_for_pattern, #hits_found_again, #hits_newly_found, #pattern, #pattern_positions

Constructor Details

#initialize(data) ⇒ Iteration

Creates a new Iteration object. It is designed to be called only internally from the Bio::Blast::Default::Report class. Users shall not use the method directly.


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# File 'lib/bio/appl/bl2seq/report.rb', line 92

def initialize(data)
  @f0stat = []
  @f0dbstat = Bio::Blast::Default::Report::AlwaysNil.instance
  @hits = []
  @num = 1
  while r = data[0] and /^\>/ =~ r
    @hits << Hit.new(data)
  end
end

Instance Method Details

#hitsObject

Returns the hits of the iteration. It returns an array of Bio::Blast::Bl2seq::Report::Hit objects.


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# File 'lib/bio/appl/bl2seq/report.rb', line 104

def hits; @hits; end