Class: Measures::Loader

Inherits:
Object
  • Object
show all
Defined in:
lib/measures/loading/loader.rb

Overview

Utility class for loading measure definitions into the database

Constant Summary collapse

SOURCE_PATH = 
File.join(".", "db", "measures")
VALUE_SET_PATH = 
File.join(".", "db", "value_sets")
HQMF_VS_OID_CACHE = 
File.join(".", "db", "hqmf_vs_oid_cache")
PARSERS = 
[HQMF::Parser::V2CQLParser, HQMF::Parser::V2Parser,HQMF::Parser::V1Parser,SimpleXml::Parser::V1Parser]

Class Method Summary collapse

Class Method Details

.clear_sources ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 151

def self.clear_sources
  FileUtils.rm_r File.join(SOURCE_PATH, "html") if File.exist?(File.join(SOURCE_PATH, "html"))
  FileUtils.rm_r File.join(SOURCE_PATH, "value_sets") if File.exist?(File.join(SOURCE_PATH, "value_sets"))
  FileUtils.rm_r File.join(SOURCE_PATH, "hqmf") if File.exist?(File.join(SOURCE_PATH, "hqmf"))
end

.get_parser(xml_contents) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 161

def self.get_parser(xml_contents)
  doc = self.parse(xml_contents)
  PARSERS.each do |p|
    if p.valid? doc
      return p.new
    end
  end
  raise "unknown document type"
end

.load_hqmf_cql_model_json(json, user, measure_oids, main_cql_library, cql_definition_dependency_structure, elm, elm_annotations, cql, measure_details, value_set_oid_version_objects) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 68

def self.load_hqmf_cql_model_json(json, user, measure_oids, main_cql_library, cql_definition_dependency_structure, elm, elm_annotations, cql, measure_details, value_set_oid_version_objects)
  measure = CqlMeasure.new
  measure.user = user if user
  measure.bundle = user.bundle if (user && user.respond_to?(:bundle))
  measure.measure_id = json["id"]
  measure.cql = cql
  measure.elm = elm
  measure.elm_annotations = elm_annotations
  # Add metadata
  measure.hqmf_id = json["hqmf_id"]
  measure.hqmf_set_id = json["hqmf_set_id"]
  measure.hqmf_version_number = json["hqmf_version_number"]
  measure.cms_id = json["cms_id"]
  measure.title = json["title"]
  measure.description = json["description"]
  measure.measure_attributes = json["attributes"]
  measure.populations = json['populations']
  measure.value_set_oids = measure_oids
  measure.value_set_oid_version_objects = value_set_oid_version_objects

  # Set CQL specific information
  measure.cql = cql
  measure.elm = elm
  measure.main_cql_library = main_cql_library
  measure.cql_statement_dependencies = cql_definition_dependency_structure

  # Add metadata
  metadata = measure_details
  measure.measure_id = metadata["nqf_id"] || json["id"]
  measure.type = metadata["type"]
  measure.category = metadata["category"] || "Miscellaneous"
  measure.episode_of_care = metadata["episode_of_care"]
  measure.calculate_sdes = metadata['calculate_sdes']
  measure.continuous_variable = metadata["continuous_variable"] || false
  measure.composite = metadata["composite"]
  measure.episode_ids = metadata["episode_ids"]
  puts "\tWARNING: Episode of care does not align with episode ids existance" if ((!measure.episode_ids.nil? && measure.episode_ids.length > 0) ^ measure.episode_of_care)
  if (measure.populations.count > 1)
    sub_ids = ('a'..'az').to_a
    measure.populations.each_with_index do |population, population_index|
      sub_id = sub_ids[population_index]
      population_title = metadata['subtitles'][sub_id] if metadata['subtitles']
      measure.populations[population_index]['title'] = population_title if population_title
    end
  end

  # Set measure population information
  measure.population_criteria = json["population_criteria"]
  measure.data_criteria = json["data_criteria"]
  measure.source_data_criteria = json["source_data_criteria"]
  puts "\tCould not find episode ids #{measure.episode_ids} in measure #{measure.cms_id || measure.measure_id}" if (measure.episode_ids && measure.episode_of_care && (measure.episode_ids - measure.source_data_criteria.keys).length > 0)
  measure.measure_period = json["measure_period"]
  measure.population_criteria = json["population_criteria"]
  measure.populations_cql_map = json["populations_cql_map"]
  measure.observations = json["observations"]

  measure
end

.load_hqmf_model_json(json, user, measure_oids, measure_details = nil) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 16

def self.load_hqmf_model_json(json, user, measure_oids, measure_details=nil)

  measure = Measure.new
  measure.user = user if user
  measure.bundle = user.bundle if (user && user.respond_to?(:bundle) )
  measure.id = json["hqmf_id"]
  measure.measure_id = json["id"]
  measure.hqmf_id = json["hqmf_id"]
  measure.hqmf_set_id = json["hqmf_set_id"]
  measure.hqmf_version_number = json["hqmf_version_number"]
  measure.cms_id = json["cms_id"]
  measure.title = json["title"]
  measure.description = json["description"]
  measure.measure_attributes = json["attributes"]
  measure.populations = json['populations']
  measure.value_set_oids = measure_oids

  metadata = measure_details
  if metadata
    measure.measure_id = metadata["nqf_id"] || json["id"]
    measure.type = metadata["type"]
    measure.category = metadata["category"]
    measure.episode_of_care = metadata["episode_of_care"]
    measure.continuous_variable = metadata["continuous_variable"]
    measure.episode_ids = metadata["episode_ids"]
    puts "\tWARNING: Episode of care does not align with episode ids existance" if ((!measure.episode_ids.nil? && measure.episode_ids.length > 0) ^ measure.episode_of_care)
    if (measure.populations.count > 1)
      sub_ids = ('a'..'az').to_a
      measure.populations.each_with_index do |population, population_index|
        sub_id = sub_ids[population_index]
        population_title = metadata['subtitles'][sub_id] if metadata['subtitles']
        measure.populations[population_index]['title'] = population_title if population_title
      end
    end
    measure.custom_functions = metadata["custom_functions"]
    measure.force_sources = metadata["force_sources"]
  else
    measure.type = "unknown"
    measure.category = "Miscellaneous"
    measure.episode_of_care = false
    measure.continuous_variable = false
    puts "\tWARNING: Could not find metadata for measure: #{measure.hqmf_set_id}"
  end

  measure.population_criteria = json["population_criteria"]
  measure.data_criteria = json["data_criteria"]
  measure.source_data_criteria = json["source_data_criteria"]
  puts "\tCould not find episode ids #{measure.episode_ids} in measure #{measure.cms_id || measure.measure_id}" if (measure.episode_ids && measure.episode_of_care && (measure.episode_ids - measure.source_data_criteria.keys).length > 0)
  measure.measure_period = json["measure_period"]
  measure
end

.parse(xml_contents) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 146

def self.parse(xml_contents)
  doc = xml_contents.kind_of?(Nokogiri::XML::Document) ? xml_contents : Nokogiri::XML(xml_contents)
  doc
end

.parse_hqmf_model(xml_path) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 10

def self.parse_hqmf_model(xml_path)
  xml_contents = Nokogiri::XML(File.new xml_path)
  parser = get_parser(xml_contents)
  parser.parse(xml_contents)
end

.parse_measures_yml(measures_yml) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 157

def self.parse_measures_yml(measures_yml)
  YAML.load_file(measures_yml)['measures']
end

.save_sources(measure, hqmf_path, html_path, xls_path = nil) ⇒ Object 



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# File 'lib/measures/loading/loader.rb', line 127

def self.save_sources(measure, hqmf_path, html_path, xls_path=nil)
  # Save original files
  if (html_path)
    html_out_path = File.join(SOURCE_PATH, "html")
    FileUtils.mkdir_p html_out_path
    FileUtils.cp(html_path, File.join(html_out_path,"#{measure.hqmf_id}.html"))
  end

  if (xls_path)
    value_set_out_path = File.join(SOURCE_PATH, "value_sets")
    FileUtils.mkdir_p value_set_out_path
    FileUtils.cp(xls_path, File.join(value_set_out_path,"#{measure.hqmf_id}.xls"))
  end

  hqmf_out_path = File.join(SOURCE_PATH, "hqmf")
  FileUtils.mkdir_p hqmf_out_path
  FileUtils.cp(hqmf_path, File.join(hqmf_out_path, "#{measure.hqmf_id}.xml"))
end