Class: PubliSci::Writer::ARFF

Inherits:
Object
  • Object
show all
Includes:
Analyzer, Parser, Query
Defined in:
lib/bio-publisci/writers/arff.rb

Instance Method Summary collapse

Methods included from Analyzer

#check_integrity, #dirty?, #recommend_range, #recommend_range_strings

Methods included from Parser

#get_ary, #get_hashes, #is_uri?, #load_string, #observation_hash, #sanitize, #sanitize_hash, #strip_prefixes, #strip_uri, #to_literal, #to_resource

Methods included from Query

#execute, #execute_from_file, #property_names, #property_values, #row_names, #vocabulary

Instance Method Details

#build_arff(relation, attributes, data, source) ⇒ Object 



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# File 'lib/bio-publisci/writers/arff.rb', line 8

def build_arff(relation, attributes, data, source)
  str = <<-EOS
% 1. Title: #{relation.capitalize} Database
%
% 2. Sources:
%    (a) Generated from RDF source #{source}
%
@RELATION #{relation}

EOS

  Hash[attributes.sort].map{|attribute,type|
    str << "@ATTRIBUTE #{attribute} #{type}\n"
  }

  str << "\n@DATA\n"
  data.map { |d| str << Hash[d[1].sort].values.join(',') + "\n" }

  str
end

#from_store(endpoint_url, variable_in = nil, variable_out = nil, verbose = false) ⇒ Object 



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# File 'lib/bio-publisci/writers/arff.rb', line 60

def from_store(endpoint_url,variable_in=nil, variable_out=nil, verbose=false)
  raise "not implemented yet"
end

#from_turtle(turtle_file, verbose = false) ⇒ Object 



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# File 'lib/bio-publisci/writers/arff.rb', line 29

def from_turtle(turtle_file, verbose=false)
  puts "loading #{turtle_file}" if verbose
  repo = RDF::Repository.load(turtle_file)
  puts "loaded #{repo.size} statements into temporary repo" if verbose

  dims = execute_from_file("dimensions.rq",repo,:graph).to_h.map{|d| [d[:dimension].to_s, d[:label].to_s]}
  meas = execute_from_file("measures.rq",repo,:graph).to_h.map{|m| [m[:measure].to_s, m[:label].to_s]}
  relation = execute_from_file("dataset.rq",repo,:graph).to_h.first[:label].to_s
  codes = execute_from_file("codes.rq",repo,:graph).to_h.map{|e| e.values.map(&:to_s)}.inject({}){|h,el|
    (h[el.first]||=[]) << el.last; h
  }

  data = observation_hash(execute_from_file("observations.rq",repo,:graph), true)
  attributes = {}
  (dims | meas).map{|component|
    attributes[component[1]] = case recommend_range(data.map{|o| o[1][component[1]]})
      when "xsd:int"
        "integer"
      when "xsd:double"
        "real"
      when :coded
        if dims.include? component
          "{#{codes[component[1]].join(',')}}"
        else
          "string"
        end
      end
  }
  build_arff(relation, attributes, data, turtle_file)
end