hquery-patient-api 0.3.0

data/test/test_helper.rb

@@ -0,0 +1,25 @@
+require 'bundler/setup'
+require 'test/unit'
+require 'tilt'
+require 'coffee_script'
+require 'sprockets'
+require 'execjs'
+require 'turn'
+
+Tilt::CoffeeScriptTemplate.default_bare=true
+class QueryExecutor
+  @@ctx = nil
+  
+  def self.ctx 
+    unless @@ctx
+      @@ctx = Sprockets::Environment.new(File.expand_path("../../", __FILE__))
+      @@ctx.append_path "app/assets/javascripts"
+    end
+    @@ctx
+  end
+
+  def self.patient_api_javascript
+    self.ctx.find_asset('patient')
+  end
+  
+end

data/test/unit/patient_api_test.rb

@@ -0,0 +1,178 @@
+require File.expand_path("../../test_helper", __FILE__)
+
+class PatientApiTest  < Test::Unit::TestCase
+  def setup
+    patient_api = QueryExecutor.patient_api_javascript.to_s
+    fixture_json = File.read('test/fixtures/patient/barry_berry.json')
+    initialize_patient = 'var patient = new hQuery.Patient(barry);'
+    date = Time.new(2010,1,1)
+    initialize_date = "var sampleDate = new Date(#{date.to_i*1000});"
+    @context = ExecJS.compile(patient_api + "\nvar barry = " + fixture_json + ";\n" + initialize_patient + "\n" + initialize_date)
+  end
+
+  def test_demographics
+    assert_equal 'Barry', @context.eval('patient.given()')
+    assert_equal 'Berry', @context.eval('patient.last()')
+    assert_equal 'Barry B. Berry', @context.eval('patient.name()')
+    assert_equal 1962, @context.eval('patient.birthtime().getFullYear()')
+    assert_equal 'M', @context.eval('patient.gender()')
+    assert_equal 49, @context.eval('patient.age(new Date(2012,1,10))').to_i
+    assert_equal 1, @context.eval('patient.addresses().length').to_i
+    assert_equal 'MA', @context.eval('patient.addresses()[0].state()')
+    assert_equal 'M', @context.eval('patient.maritalStatus().code()')
+    assert_equal '1013', @context.eval('patient.religiousAffiliation().code()')
+    assert_equal '2131-1', @context.eval('patient.race().code()')
+    assert_equal '2186-5', @context.eval('patient.ethnicity().code()')
+    assert_equal 'DC', @context.eval('patient.birthPlace().state()')
+    assert_equal 'Washington', @context.eval('patient.birthPlace().city()')
+    assert_equal 'N', @context.eval('patient.confidentiality().code()')
+    assert_equal 'General Hospital', @context.eval('patient.custodian().organizationName()')
+    assert_equal 2005, @context.eval('patient.supports().supportDate().hi().getFullYear()')
+    assert_equal 2005, @context.eval('patient.provider().careProvisionDateRange().hi().getFullYear()')
+    assert_equal 'Mary', @context.eval('patient.provider().providerEntity().given()')
+    assert_equal 'Care', @context.eval('patient.provider().providerEntity().last()')
+    assert_equal 'en', @context.eval('patient.languages()[0].type()[0].code()')
+    assert_equal true, @context.eval('patient.expired()')
+    assert_equal false, @context.eval('patient.clinicalTrialParticipant()')
+  end
+
+  def test_encounters
+    assert_equal 2, @context.eval('patient.encounters().length')
+    assert_equal '99201', @context.eval('patient.encounters()[0].type()[0].code()')
+    assert_equal 'CPT', @context.eval('patient.encounters()[0].type()[0].codeSystemName()')
+    assert_equal 'OP12345', @context.eval('patient.encounters()[0].id')
+    assert_equal 'Outpatient encounter', @context.eval('patient.encounters()[0].freeTextType()')
+    assert_equal 'Home', @context.eval('patient.encounters()[0].dischargeDisp()')
+    assert_equal '04', @context.eval('patient.encounters()[0].admitType().code()')
+    assert_equal 'General Hospital', @context.eval('patient.encounters()[0].performer().organization().organizationName()')
+    assert_equal 2005, @context.eval('patient.encounters()[0].encounterDuration().low().getFullYear()')
+    assert_equal 2011, @context.eval('patient.encounters()[0].encounterDuration().hi().getFullYear()')
+    assert_equal 'PCP referred', @context.eval('patient.encounters()[0].reasonForVisit().freeTextType()')
+    assert_equal 'CPT', @context.eval('patient.encounters()[0].reasonForVisit().type()[0].codeSystemName()')
+    assert_equal 'HL7 Healthcare Service Location', @context.eval('patient.encounters()[0].facility().codeSystemName()')
+    assert_equal '1155-1', @context.eval('patient.encounters()[0].facility().code()')
+    assert_equal 'General Hospital', @context.eval('patient.encounters()[0].facility().name()')
+  end
+
+  def test_procedures
+    assert_equal 1, @context.eval('patient.procedures().length')
+    assert_equal '44388', @context.eval('patient.procedures()[0].type()[0].code()')
+    assert_equal 'CPT', @context.eval('patient.procedures()[0].type()[0].codeSystemName()')
+    assert_equal 'Colonscopy', @context.eval('patient.procedures()[0].freeTextType()')
+    assert @context.eval('patient.procedures()[0].includesCodeFrom({"CPT": ["44388"]})')
+    assert_equal 1, @context.eval('patient.procedures().match({"CPT": ["44388"]}).length')
+    assert_equal 0, @context.eval('patient.procedures().match({"CPT": ["44388"]}, sampleDate).length')
+    assert_equal 'SNOMED-CT', @context.eval('patient.procedures()[0].site().codeSystemName()')
+    assert_equal '71854001', @context.eval('patient.procedures()[0].site().code()')
+    assert_equal 'Bobby', @context.eval('patient.procedures()[0].performer().person().given()')
+    assert_equal 'Tables', @context.eval('patient.procedures()[0].performer().person().last()')
+  end
+
+  def test_vital_signs
+    assert_equal 2, @context.eval('patient.vitalSigns().length')
+    assert_equal '105539002', @context.eval('patient.vitalSigns()[0].type()[0].code()')
+    assert_equal 'SNOMED-CT', @context.eval('patient.vitalSigns()[0].type()[0].codeSystemName()')
+    assert_equal 'completed', @context.eval('patient.vitalSigns()[0].status()')
+    assert_equal 'completed', @context.eval('patient.vitalSigns()[0].statusCode()["HL7 ActStatus"][0]')
+    assert_equal 132, @context.eval('patient.vitalSigns()[1].values()[0].scalar()')
+    assert_equal '8480-6', @context.eval('patient.vitalSigns()[1].resultType()[0].code()')
+    assert_equal 'BP taken sitting', @context.eval('patient.vitalSigns()[1].comment()')
+  end
+  
+  def test_results
+    assert_equal 1, @context.eval('patient.results().length')
+    assert_equal '104150001', @context.eval('patient.results()[0].type()[0].code()')
+    assert_equal 'SNOMED-CT', @context.eval('patient.results()[0].type()[0].codeSystemName()')
+    assert_equal 'SNOMED-CT', @context.eval('patient.results()[0].resultType()[0].codeSystemName()')
+    assert_equal 'completed', @context.eval('patient.results()[0].status()')
+    assert_equal 'Negative', @context.eval('patient.results()[0].comment()')
+  end
+
+  def test_conditions
+    assert_equal 2, @context.eval('patient.conditions().length')
+    assert @context.eval('patient.conditions().match({"SNOMED-CT": ["105539002"]}).length != 0')
+    assert @context.eval('patient.conditions().match({"SNOMED-CT": ["109838007"]}).length != 0')
+    assert_equal 20, @context.eval('patient.conditions()[1].ageAtOnset()')
+    assert_equal '55561003', @context.eval('patient.conditions()[1].problemStatus().code()')
+    assert_equal '371924009', @context.eval('patient.conditions()[1].severity().code()')
+    assert_equal 1, @context.eval('patient.conditions()[1].diagnosisPriority()')
+    assert_equal '8319008', @context.eval('patient.conditions()[1].ordinality().code()')
+  end
+
+  def test_medications
+    assert_equal 1, @context.eval('patient.medications().length')
+    assert_equal 24, @context.eval('patient.medications()[0].administrationTiming().period().value()')
+    assert @context.eval('patient.medications()[0].administrationTiming().institutionSpecified()')
+    assert_equal 'tablet', @context.eval('patient.medications()[0].dose().unit()')
+    assert_equal 'Multivitamin', @context.eval('patient.medications()[0].medicationInformation().freeTextProductName()')
+    assert_equal 1, @context.eval('patient.medications().match({"RxNorm": ["89905"]}).length')
+    assert_equal 'C38288', @context.eval('patient.medications()[0].route().code()')
+    assert_equal 30, @context.eval('patient.medications()[0].fulfillmentHistory()[0].quantityDispensed().value()')
+    assert @context.eval('patient.medications()[0].typeOfMedication().isOverTheCounter()')
+    assert @context.eval('patient.medications()[0].statusOfMedication().isActive()')
+    assert_equal 30, @context.eval('patient.medications()[0].orderInformation()[0].quantityOrdered().value()')
+    assert_equal 20, @context.eval('patient.medications()[0].orderInformation()[0].fills()')
+    assert_equal 3, @context.eval('patient.medications()[0].cumulativeMedicationDuration()["scalar"]')
+  end
+  
+  def test_immunizations
+    assert_equal 3, @context.eval('patient.immunizations().length')
+    assert_equal 2, @context.eval('patient.immunizations().withoutNegation().length')
+    assert_equal 1, @context.eval('patient.immunizations().withNegation().length')
+    assert_equal 1, @context.eval('patient.immunizations().withNegation({"HL7 No Immunization Reason":["IMMUNE"]}).length')
+    assert_equal 0, @context.eval('patient.immunizations().withNegation({"HL7 No Immunization Reason":["OSTOCK"]}).length')
+    assert_equal 1, @context.eval('patient.immunizations().match({"CVX": ["03"]}).length')
+    assert_equal 1, @context.eval('patient.immunizations().match({"CVX": ["04"]}).length')
+    assert_equal 2, @context.eval('patient.immunizations().match({"CVX": ["04"]},null,null,true).length')
+    assert_equal 'MMR', @context.eval('patient.immunizations()[0].medicationInformation().freeTextProductName()')
+    assert_equal 2, @context.eval('patient.immunizations()[0].medicationSeriesNumber().value()')
+    assert_equal 'vaccine', @context.eval('patient.immunizations()[0].comment()')
+    assert @context.eval('patient.immunizations()[1].refusalInd()')
+    assert @context.eval('patient.immunizations()[1].refusalReason().isImmune()')
+    assert @context.eval('patient.immunizations()[1].negationInd()')
+    assert_equal 'IMMUNE', @context.eval('patient.immunizations()[1].negationReason().code()')
+    assert_equal 'FirstName', @context.eval('patient.immunizations()[1].performer().person().given()')
+    assert_equal 'LastName', @context.eval('patient.immunizations()[1].performer().person().last()')
+    assert_equal 1, @context.eval('patient.immunizations()[1].performer().person().addresses().length')
+    assert_equal '100 Bureau Drive', @context.eval('patient.immunizations()[1].performer().person().addresses()[0].street()[0]')
+    assert_equal 'Gaithersburg', @context.eval('patient.immunizations()[1].performer().person().addresses()[0].city()')
+    assert_equal 'MD', @context.eval('patient.immunizations()[1].performer().person().addresses()[0].state()')
+    assert_equal '20899', @context.eval('patient.immunizations()[1].performer().person().addresses()[0].postalCode()')
+  end
+  
+  def test_allergies
+    assert_equal 1, @context.eval('patient.allergies().length')
+    assert_equal 'Carries Epipen',@context.eval('patient.allergies()[0].comment()')
+    assert_equal 1, @context.eval('patient.allergies().match({"SNOMED-CT": ["39579001"]}).length')
+    assert_equal 'Anaphalactic reaction to peanuts', @context.eval('patient.allergies()[0].freeTextType()')
+    assert_equal '414285001', @context.eval('patient.allergies()[0].reaction().code()')
+    assert_equal '371924009', @context.eval('patient.allergies()[0].severity().code()')
+    assert_equal 1269762692000, @context.eval('patient.allergies()[0].date().getTime()')
+    assert_equal 1269762692000, @context.eval('patient.allergies()[0].timeStamp().getTime()')
+    assert_equal 1269762691000, @context.eval('patient.allergies()[0].startDate().getTime()')
+    assert_equal 1269762693000, @context.eval('patient.allergies()[0].endDate().getTime()')
+    assert @context.eval('patient.allergies()[0].isTimeRange()')
+  end
+  
+  def test_pregnancies
+    assert_equal 1, @context.eval('patient.pregnancies().length')
+    assert_equal 1, @context.eval('patient.pregnancies().match({"SNOMED-CT": ["77386006"]}).length')
+  end
+  
+  def test_socialhistory
+    assert_equal 1, @context.eval('patient.socialHistories().length')
+    assert_equal 1, @context.eval('patient.socialHistories().match({"SNOMED-CT": ["229819007"]}).length')
+  end
+  
+  def test_functional_status
+    assert_equal 1, @context.eval('patient.functionalStatuses().length')
+    assert_equal 'result', @context.eval('patient.functionalStatuses()[0].type()')
+    assert_equal 'patient reported', @context.eval('patient.functionalStatuses()[0].source().code()')
+  end
+
+  def test_medical_equipment
+    assert_equal 1, @context.eval('patient.medicalEquipment().length')
+    assert_equal '13648007', @context.eval('patient.medicalEquipment()[0].anatomicalStructure().code()')
+  end
+  
+end

metadata

@@ -0,0 +1,193 @@
+--- !ruby/object:Gem::Specification
+name: hquery-patient-api
+version: !ruby/object:Gem::Version
+  version: 0.3.0
+  prerelease: 
+platform: ruby
+authors:
+- Marc Hadley
+- Andy Gregorowicz
+- Rob Dingwell
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2012-11-01 00:00:00.000000000 Z
+dependencies: []
+description: A javascript library abstraction for dealing with patients in hQuery
+  map reduce functions
+email: talk@hquery.org
+executables: []
+extensions: []
+extra_rdoc_files: []
+files:
+- .gitignore
+- .travis.yml
+- Gemfile
+- LICENSE
+- README.md
+- Rakefile
+- VERSION
+- app/assets/javascripts/allergy.js.coffee
+- app/assets/javascripts/caregoal.js.coffee
+- app/assets/javascripts/condition.js.coffee
+- app/assets/javascripts/core.js.coffee
+- app/assets/javascripts/encounter.js.coffee
+- app/assets/javascripts/functionalstatus.js.coffee
+- app/assets/javascripts/immunization.js.coffee
+- app/assets/javascripts/languages.js.coffee
+- app/assets/javascripts/medicalequipment.js.coffee
+- app/assets/javascripts/medication.js.coffee
+- app/assets/javascripts/patient.js.coffee
+- app/assets/javascripts/pregnancy.js.coffee
+- app/assets/javascripts/procedure.js.coffee
+- app/assets/javascripts/provider.js.coffee
+- app/assets/javascripts/result.js.coffee
+- app/assets/javascripts/socialhistory.js.coffee
+- doc/jsdoc-toolkit/README.txt
+- doc/jsdoc-toolkit/app/frame.js
+- doc/jsdoc-toolkit/app/frame/Chain.js
+- doc/jsdoc-toolkit/app/frame/Dumper.js
+- doc/jsdoc-toolkit/app/frame/Hash.js
+- doc/jsdoc-toolkit/app/frame/Link.js
+- doc/jsdoc-toolkit/app/frame/Namespace.js
+- doc/jsdoc-toolkit/app/frame/Opt.js
+- doc/jsdoc-toolkit/app/frame/Reflection.js
+- doc/jsdoc-toolkit/app/frame/String.js
+- doc/jsdoc-toolkit/app/frame/Testrun.js
+- doc/jsdoc-toolkit/app/handlers/FOODOC.js
+- doc/jsdoc-toolkit/app/handlers/XMLDOC.js
+- doc/jsdoc-toolkit/app/handlers/XMLDOC/DomReader.js
+- doc/jsdoc-toolkit/app/handlers/XMLDOC/XMLDoc.js
+- doc/jsdoc-toolkit/app/handlers/XMLDOC/XMLParse.js
+- doc/jsdoc-toolkit/app/lib/JSDOC.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/DocComment.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/DocTag.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/JsDoc.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/JsPlate.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/Lang.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/Parser.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/PluginManager.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/Symbol.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/SymbolSet.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/TextStream.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/Token.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/TokenReader.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/TokenStream.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/Util.js
+- doc/jsdoc-toolkit/app/lib/JSDOC/Walker.js
+- doc/jsdoc-toolkit/app/main.js
+- doc/jsdoc-toolkit/app/plugins/commentSrcJson.js
+- doc/jsdoc-toolkit/app/plugins/frameworkPrototype.js
+- doc/jsdoc-toolkit/app/plugins/functionCall.js
+- doc/jsdoc-toolkit/app/plugins/publishSrcHilite.js
+- doc/jsdoc-toolkit/app/plugins/symbolLink.js
+- doc/jsdoc-toolkit/app/plugins/tagParamConfig.js
+- doc/jsdoc-toolkit/app/plugins/tagSynonyms.js
+- doc/jsdoc-toolkit/app/run.js
+- doc/jsdoc-toolkit/app/t/TestDoc.js
+- doc/jsdoc-toolkit/app/t/runner.js
+- doc/jsdoc-toolkit/app/test.js
+- doc/jsdoc-toolkit/app/test/addon.js
+- doc/jsdoc-toolkit/app/test/anon_inner.js
+- doc/jsdoc-toolkit/app/test/augments.js
+- doc/jsdoc-toolkit/app/test/augments2.js
+- doc/jsdoc-toolkit/app/test/borrows.js
+- doc/jsdoc-toolkit/app/test/borrows2.js
+- doc/jsdoc-toolkit/app/test/config.js
+- doc/jsdoc-toolkit/app/test/constructs.js
+- doc/jsdoc-toolkit/app/test/encoding.js
+- doc/jsdoc-toolkit/app/test/encoding_other.js
+- doc/jsdoc-toolkit/app/test/event.js
+- doc/jsdoc-toolkit/app/test/exports.js
+- doc/jsdoc-toolkit/app/test/functions_anon.js
+- doc/jsdoc-toolkit/app/test/functions_nested.js
+- doc/jsdoc-toolkit/app/test/global.js
+- doc/jsdoc-toolkit/app/test/globals.js
+- doc/jsdoc-toolkit/app/test/ignore.js
+- doc/jsdoc-toolkit/app/test/inner.js
+- doc/jsdoc-toolkit/app/test/jsdoc_test.js
+- doc/jsdoc-toolkit/app/test/lend.js
+- doc/jsdoc-toolkit/app/test/memberof.js
+- doc/jsdoc-toolkit/app/test/memberof2.js
+- doc/jsdoc-toolkit/app/test/memberof3.js
+- doc/jsdoc-toolkit/app/test/memberof_constructor.js
+- doc/jsdoc-toolkit/app/test/module.js
+- doc/jsdoc-toolkit/app/test/multi_methods.js
+- doc/jsdoc-toolkit/app/test/name.js
+- doc/jsdoc-toolkit/app/test/namespace_nested.js
+- doc/jsdoc-toolkit/app/test/nocode.js
+- doc/jsdoc-toolkit/app/test/oblit_anon.js
+- doc/jsdoc-toolkit/app/test/overview.js
+- doc/jsdoc-toolkit/app/test/param_inline.js
+- doc/jsdoc-toolkit/app/test/params_optional.js
+- doc/jsdoc-toolkit/app/test/prototype.js
+- doc/jsdoc-toolkit/app/test/prototype_nested.js
+- doc/jsdoc-toolkit/app/test/prototype_oblit.js
+- doc/jsdoc-toolkit/app/test/prototype_oblit_constructor.js
+- doc/jsdoc-toolkit/app/test/public.js
+- doc/jsdoc-toolkit/app/test/scripts/code.js
+- doc/jsdoc-toolkit/app/test/scripts/notcode.txt
+- doc/jsdoc-toolkit/app/test/shared.js
+- doc/jsdoc-toolkit/app/test/shared2.js
+- doc/jsdoc-toolkit/app/test/shortcuts.js
+- doc/jsdoc-toolkit/app/test/static_this.js
+- doc/jsdoc-toolkit/app/test/synonyms.js
+- doc/jsdoc-toolkit/app/test/tosource.js
+- doc/jsdoc-toolkit/app/test/variable_redefine.js
+- doc/jsdoc-toolkit/conf/sample.conf
+- doc/jsdoc-toolkit/java/build.xml
+- doc/jsdoc-toolkit/java/build_1.4.xml
+- doc/jsdoc-toolkit/java/classes/js.jar
+- doc/jsdoc-toolkit/java/src/JsDebugRun.java
+- doc/jsdoc-toolkit/java/src/JsRun.java
+- doc/jsdoc-toolkit/jsdebug.jar
+- doc/jsdoc-toolkit/jsrun.jar
+- doc/jsdoc-toolkit/jsrun.sh
+- doc/jsdoc-toolkit/out/jsdoc/files.html
+- doc/jsdoc-toolkit/out/jsdoc/index.html
+- doc/jsdoc-toolkit/out/jsdoc/symbols/Patient.html
+- doc/jsdoc-toolkit/out/jsdoc/symbols/_global_.html
+- doc/jsdoc-toolkit/out/jsdoc/symbols/src/tmp_patient.js.html
+- doc/jsdoc-toolkit/templates/jsdoc/allclasses.tmpl
+- doc/jsdoc-toolkit/templates/jsdoc/allfiles.tmpl
+- doc/jsdoc-toolkit/templates/jsdoc/class.tmpl
+- doc/jsdoc-toolkit/templates/jsdoc/index.tmpl
+- doc/jsdoc-toolkit/templates/jsdoc/publish.js
+- doc/jsdoc-toolkit/templates/jsdoc/static/default.css
+- doc/jsdoc-toolkit/templates/jsdoc/static/header.html
+- doc/jsdoc-toolkit/templates/jsdoc/static/index.html
+- doc/jsdoc-toolkit/templates/jsdoc/symbol.tmpl
+- hquery_patientapi.gemspec
+- lib/hquery-patient-api.rb
+- lib/hquery/engine.rb
+- lib/hquery/generator.rb
+- test/fixtures/patient/barry_berry.json
+- test/test_helper.rb
+- test/unit/patient_api_test.rb
+homepage: http://github.com/hquery/patient_api
+licenses: []
+post_install_message: 
+rdoc_options: []
+require_paths:
+- lib
+required_ruby_version: !ruby/object:Gem::Requirement
+  none: false
+  requirements:
+  - - ! '>='
+    - !ruby/object:Gem::Version
+      version: '0'
+required_rubygems_version: !ruby/object:Gem::Requirement
+  none: false
+  requirements:
+  - - ! '>='
+    - !ruby/object:Gem::Version
+      version: '0'
+requirements: []
+rubyforge_project: 
+rubygems_version: 1.8.24
+signing_key: 
+specification_version: 3
+summary: A javascript library abstraction for dealing with patients in hQuery map
+  reduce functions
+test_files: []
+has_rdoc: