Method: Bio::FlatFileIndex::Indexer.addindex_bdb

Defined in:
lib/bio/io/flatfile/indexer.rb

.addindex_bdb(db, flag, need_update, parser, options) ⇒ Object

def



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# File 'lib/bio/io/flatfile/indexer.rb', line 476

def self.addindex_bdb(db, flag, need_update, parser, options)
  DEBUG.print "reading files...\n"

  pn = db.primary
  pn.file.close
  pn.file.flag = flag

  db.secondary.each_files do |x|
    x.file.close
    x.file.flag = flag
    x.file.open
    x.file.close
  end

  need_update.each do |fileid|
    filename = db.fileids[fileid].filename
    parser.open_flatfile(fileid, filename)
    parser.each do |pos, len|
      p = parser.parse_primary
      #pn.file.add_exclusive(p, [ fileid, pos, len ])
      pn.file.add_overwrite(p, [ fileid, pos, len ])
      #DEBUG.print "#{p} #{fileid} #{pos} #{len}\n"
      parser.parse_secondary do |sn, sp|
        db.secondary[sn].file.add_nr(sp, p)
        #DEBUG.print "#{sp} #{p}\n"
      end
    end
    parser.close_flatfile
  end
  true
end