# File lib/bio/io/flatfile/index.rb, line 572
572:       def initialize(prefix, hash)
573:         @hash = hash
574:         @prefix = prefix
575:       end

     # File lib/bio/io/flatfile/index.rb, line 577
577:       def [](n)
578:         r = super(n)
579:         if r then
580:           r
581:         else
582:           data = @hash["#{@prefix}#{n}"]
583:           if data then
584:             self[n] = data
585:           end
586:           super(n)
587:         end
588:       end

     # File lib/bio/io/flatfile/index.rb, line 590
590:       def []=(n, data)
591:         if data.is_a?(FileID) then
592:           super(n, data)
593:         elsif data then
594:           super(n, FileID.new_from_string(data))
595:         else
596:           # data is nil
597:           super(n, nil)
598:         end
599:         self[n]
600:       end

     # File lib/bio/io/flatfile/index.rb, line 602
602:       def add(*arg)
603:         arg.each do |filename|
604:           self << FileID.new(filename)
605:         end
606:       end

     # File lib/bio/io/flatfile/index.rb, line 608
608:       def cache_all
609:         a = @hash.keys.collect do |k|
610:           if k =~ /\A#{Regexp.escape(@prefix)}(\d+)/ then
611:             $1.to_i
612:           else
613:             nil
614:           end
615:         end
616:         a.compact!
617:         a.each do |i|
618:           self[i]
619:         end
620:         a
621:       end

     # File lib/bio/io/flatfile/index.rb, line 657
657:       def check_all
658:         self.cache_all
659:         r = true
660:         self.each do |x|
661:           r = x.check
662:           break unless r
663:         end
664:         r
665:       end

     # File lib/bio/io/flatfile/index.rb, line 668
668:       def close_all
669:         self.each do |x|
670:           x.close
671:         end
672:         nil
673:       end

     # File lib/bio/io/flatfile/index.rb, line 623
623:       def each
624:         (0...self.size).each do |i|
625:           x = self[i]
626:           yield(x) if x
627:         end
628:         self
629:       end

     # File lib/bio/io/flatfile/index.rb, line 631
631:       def each_with_index
632:         (0...self.size).each do |i|
633:           x = self[i]
634:           yield(x, i) if x
635:         end
636:         self
637:       end

     # File lib/bio/io/flatfile/index.rb, line 648
648:       def filenames
649:         self.cache_all
650:         a = []
651:         self.each do |x|
652:           a << x.filename
653:         end
654:         a
655:       end

     # File lib/bio/io/flatfile/index.rb, line 639
639:       def keys
640:         self.cache_all
641:         a = []
642:         (0...self.size).each do |i|
643:           a << i if self[i]
644:         end
645:         a
646:       end

     # File lib/bio/io/flatfile/index.rb, line 676
676:       def recalc_all
677:         self.cache_all
678:         self.each do |x|
679:           x.recalc
680:         end
681:         true
682:       end