Module: BioTable::TableLoader

Defined in:
lib/bio-table/tableload.rb

Class Method Summary collapse

Class Method Details

.emit(generator, options = {}) ⇒ Object

Emit a row at a time, using generator as input (the generator should have an ‘each’ method) and apply the filters etc. defined in options

Note that this class does not hold data in memory(!)

Note that you need to pass in :with_header to get the header row



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# File 'lib/bio-table/tableload.rb', line 11

def TableLoader::emit generator, options = {}
  table_apply = TableApply.new(options)
  column_index = nil, prev_line = nil
  skip = options[:skip]
  skip = 0 if skip == nil
  header = nil
  Enumerator.new { |yielder|
    # fields = LineParser::parse(line,options[:in_format])
    generator.each_with_index do |line, line_num|
      # p [line_num, line]
      if line_num-skip == 0
        header = table_apply.parse_header(line, options)
        # Validator::valid_header?(header, @header)  # compare against older header when merging
        column_index,header = table_apply.column_index(header) # we may rewrite the header
        yielder.yield header,:header if options[:write_header] != false
        prev_line = header[table_apply.first_column..-1]
        # When a header filter is defined, rewind the generator, note that skip won't work
        # properly (FIXME)
        if options[:with_headers]
          generator.rewind
        end
      elsif line_num-skip < 0
        # do nothing
      else
        rowname, data_fields = table_apply.parse_row(line_num, line, header, column_index, prev_line, options)
        if data_fields
          list = []
          list << rowname if not options[:with_rownames] # otherwise doubles rownames
          list += data_fields if data_fields
          yielder.yield list,:row
          prev_line = data_fields
        end
      end
    end
  }
end