Class: FHIR::Boot::Preprocess

Inherits:
Object
  • Object
show all
Defined in:
lib/fhir_models/bootstrap/preprocess.rb

Class Method Summary collapse

Class Method Details

.pre_process_bundle(filename) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 6

def self.pre_process_bundle(filename)
  # Read the file
  puts "Processing #{File.basename(filename)}..."
  start = File.size(filename)
  json = File.open(filename, 'r:UTF-8', &:read)
  hash = JSON.parse(json)

  # Remove entries that do not interest us: CompartmentDefinitions, OperationDefinitions, Conformance statements
  hash['entry'].select! do |entry|
    ['StructureDefinition', 'ValueSet', 'CodeSystem', 'SearchParameter'].include? entry['resource']['resourceType']
  end

  # Remove unnecessary elements from the hash
  hash['entry'].each do |entry|
    if entry['resource']
      pre_process_structuredefinition(entry['resource']) if 'StructureDefinition'==entry['resource']['resourceType']
      pre_process_valueset(entry['resource']) if 'ValueSet'==entry['resource']['resourceType']
      pre_process_codesystem(entry['resource']) if 'CodeSystem'==entry['resource']['resourceType']
      pre_process_searchparam(entry['resource']) if 'SearchParameter'==entry['resource']['resourceType']
      remove_fhir_comments(entry['resource'])
    end
  end

  # Output the post processed file
  f = File.open(filename, 'w:UTF-8')
  f.write(JSON.pretty_unparse(hash))
  f.close
  finish = File.size(filename)
  puts "  Removed #{(start-finish) / 1024} KB" if (start!=finish)
end

.pre_process_codesystem(hash) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 80

def self.pre_process_codesystem(hash)
  # Remove large HTML narratives and unused content
  ['meta', 'text', 'publisher', 'contact', 'description', 'requirements'].each{|key| hash.delete(key) }

  if(hash['concept'])
    hash['concept'].each do |concept|
      pre_process_codesystem_concept(concept)
    end
  end
end

.pre_process_codesystem_concept(hash) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 91

def self.pre_process_codesystem_concept(hash)
  ['extension', 'definition', 'designation'].each{|key| hash.delete(key) }
  if hash['concept']
    hash['concept'].each do |concept|
      pre_process_codesystem_concept(concept)
    end
  end
end

.pre_process_schema(filename) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 121

def self.pre_process_schema(filename)
  # Read the file
  puts "Processing #{File.basename(filename)}..."
  start = File.size(filename)
  raw = File.open(filename, 'r:UTF-8', &:read)

  # Remove annotations
  doc = Nokogiri::XML(raw)
  doc.root.add_namespace_definition('xs', 'http://www.w3.org/2001/XMLSchema')
  doc.search('//xs:annotation').each{ |e| e.remove }

  # Output the post processed file
  f = File.open(filename, 'w:UTF-8')
  f.write(doc.to_xml)
  f.close
  finish = File.size(filename)
  puts "  Removed #{(start-finish) / 1024} KB" if (start!=finish)
end

.pre_process_searchparam(hash) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 100

def self.pre_process_searchparam(hash)
  # Remove large HTML narratives and unused content
  ['id', 'url', 'name', 'date', 'publisher', 'contact', 'description', 'xpathUsage'].each{|key| hash.delete(key) }
end

.pre_process_structuredefinition(hash) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 37

def self.pre_process_structuredefinition(hash)
  # Remove large HTML narratives and unused content
  ['text', 'publisher', 'contact', 'description', 'requirements', 'mapping'].each{|key| hash.delete(key) }

  # Remove unused descriptions within the snapshot elements
  if(hash['snapshot'])
    hash['snapshot']['element'].each do |element|
      ['short', 'definition', 'comments', 'requirements', 'alias', 'mapping'].each{|key| element.delete(key) }
    end
  end
  # Remove unused descriptions within the differential elements
  if(hash['differential'])
    hash['differential']['element'].each do |element|
      ['short', 'definition', 'comments', 'requirements', 'alias', 'mapping'].each{|key| element.delete(key) }
    end
  end
end

.pre_process_valueset(hash) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 55

def self.pre_process_valueset(hash)
  # Remove large HTML narratives and unused content
  ['meta', 'text', 'publisher', 'contact', 'description', 'requirements'].each{|key| hash.delete(key) }

  if(hash['compose'] && hash['compose']['include'])
    hash['compose']['include'].each do |element|
      if(element['concept'])
        element['concept'].each do |concept|
          concept.delete('designation')
        end
      end
    end
  end

  if(hash['compose'] && hash['compose']['exclude'])
    hash['compose']['exclude'].each do |element|
      if(element['concept'])
        element['concept'].each do |concept|
          concept.delete('designation')
        end
      end
    end
  end
end

.remove_fhir_comments(hash) ⇒ Object 



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# File 'lib/fhir_models/bootstrap/preprocess.rb', line 105

def self.remove_fhir_comments(hash)
  hash.delete('fhir_comments')
  hash.each do |_key, value|
    if value.is_a?(Hash)
      remove_fhir_comments(value)
    elsif value.is_a?(Array)
      value.each do |v|
        remove_fhir_comments(v) if v.is_a?(Hash)
      end
    end
  end
  hash.keep_if do |_key, value|
    !value.is_a?(Hash) || !value.empty?
  end
end