Class: Bio::Ucsc::Schema::Joiner

Inherits:
Object
  • Object
show all
Defined in:
lib/bio-ucsc/schema.rb

Instance Attribute Summary collapse

Class Method Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(text) ⇒ Joiner

Returns a new instance of Joiner.



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# File 'lib/bio-ucsc/schema.rb', line 23

def initialize(text)
  @joiner = text << "\n" << EOF
  @variables = nil
  @identifiers = nil
end

Instance Attribute Details

#joiner ⇒ Object (readonly)

Returns the value of attribute joiner.



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# File 'lib/bio-ucsc/schema.rb', line 21

def joiner
  @joiner
end

Class Method Details

.load(uri = nil) ⇒ Object 



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# File 'lib/bio-ucsc/schema.rb', line 29

def self.load(uri=nil)
  uri ||= ALL_JOINER_URI
  new(URI(uri).read)
end

Instance Method Details

#define_association(klass) ⇒ Object 



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# File 'lib/bio-ucsc/schema.rb', line 109

def define_association(klass)
  krhash = find_association(class_to_table(klass))
  define_association_by_pkey_referer(krhash)
end

#identifiers ⇒ Object 



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# File 'lib/bio-ucsc/schema.rb', line 52

def identifiers
  if @identifiers
    return @identifiers
  else
    parse
    return @identifiers
  end
end

#parse ⇒ Object 



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# File 'lib/bio-ucsc/schema.rb', line 61

def parse
  enum = @joiner.lines.reject{|x|remove_indent(x).start_with?('#')}.each
  here = remove_indent(enum.next)
  loop do
    cmd, name, value = here.split(" ",3)
    case cmd
    when "set"
      @variables ||= Variables.new
      @variables[name] = value.split(",")
    when "identifier"
      @identifiers ||= Hash.new
      @identifiers[name] ||= Identifier.new
      if value
        value.split(" ").each do |attrib|
          type, info = attrib.split("=")
          @identifiers[name].attributes[type] = info
        end
      end
      @identifiers[name].comment = remove_indent(enum.next).gsub(/\"/, "")
      @identifiers[name].primary_key = remove_indent(enum.next)
      @identifiers[name].fields = Array.new
      here = remove_indent(enum.next)
      loop do
        @identifiers[name].fields << here
        peek = remove_indent(enum.peek)
        break if (peek.empty? || peek == EOF)
        here = remove_indent(enum.next)
      end
    when "type", "tablesIgnored"
      loop do
        peek = enum.peek
        break if (peek.empty? || peek == EOF)
        enum.next
      end
    when nil
      # ignore
    when "dependency", "databasesChecked", "databasesIgnored", "exclusiveSet"
      # ignore
    else
      raise "this should not happen."
    end
    peek = remove_indent(enum.peek)
    break if peek == EOF
    here = remove_indent(enum.next)
  end
  self
end

#variables ⇒ Object 



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# File 'lib/bio-ucsc/schema.rb', line 34

def variables
  if @variables
    return @variables
  else
    parse
    return @variables
  end
end

#variables=(val) ⇒ Object 



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# File 'lib/bio-ucsc/schema.rb', line 43

def variables=(val)
  if @variables
    @variables = val
  else
    parse
    @variables = val
  end
end