RubyGems - hqmf2js - Versions diffs - 1.0.0 - Mend

hqmf2js 1.0.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (58) hide show

data/.gitignore +10 -0
data/.travis.yml +17 -0
data/Gemfile +41 -0
data/Gemfile.lock +202 -0
data/README.md +7 -0
data/Rakefile +22 -0
data/VERSION +1 -0
data/app/assets/javascripts/hqmf_util.js.coffee +776 -0
data/app/assets/javascripts/logging_utils.js.coffee +150 -0
data/app/assets/javascripts/patient_api_extension.js.coffee +36 -0
data/app/assets/javascripts/specifics.js.coffee +462 -0
data/bin/hqmf2js.rb +25 -0
data/config/warble.rb +144 -0
data/hqmf2js.gemspec +20 -0
data/lib/config/codes.xml +1935 -0
data/lib/generator/characteristic.js.erb +19 -0
data/lib/generator/codes_to_json.rb +81 -0
data/lib/generator/converter.rb +60 -0
data/lib/generator/data_criteria.js.erb +47 -0
data/lib/generator/derived_data.js.erb +5 -0
data/lib/generator/js.rb +263 -0
data/lib/generator/measure_period.js.erb +18 -0
data/lib/generator/patient_data.js.erb +22 -0
data/lib/generator/population_criteria.js.erb +4 -0
data/lib/generator/precondition.js.erb +14 -0
data/lib/hqmf2js.rb +20 -0
data/lib/hquery/engine.rb +4 -0
data/lib/tasks/codes.rake +12 -0
data/lib/tasks/coffee.rake +15 -0
data/lib/tasks/convert.rake +47 -0
data/lib/tasks/cover_me.rake +8 -0
data/test/fixtures/NQF59New.xml +1047 -0
data/test/fixtures/codes/codes.xls +0 -0
data/test/fixtures/codes/codes.xml +1941 -0
data/test/fixtures/i2b2.xml +305 -0
data/test/fixtures/invalid/missing_id.xml +18 -0
data/test/fixtures/invalid/unknown_criteria_type.xml +16 -0
data/test/fixtures/invalid/unknown_demographic_entry.xml +16 -0
data/test/fixtures/invalid/unknown_population_type.xml +9 -0
data/test/fixtures/invalid/unknown_value_type.xml +18 -0
data/test/fixtures/js/59New.js +366 -0
data/test/fixtures/js/test1.js +356 -0
data/test/fixtures/js/test2.js +366 -0
data/test/fixtures/json/0043.json +6 -0
data/test/fixtures/json/0043_hqmf1.json +1 -0
data/test/fixtures/json/0043_hqmf2.json +172 -0
data/test/fixtures/json/59New.json +1352 -0
data/test/fixtures/patient_api.js +2823 -0
data/test/fixtures/patients/francis_drake.json +1180 -0
data/test/fixtures/patients/larry_vanderman.json +645 -0
data/test/test_helper.rb +58 -0
data/test/unit/codes_to_json_test.rb +38 -0
data/test/unit/effective_date_test.rb +48 -0
data/test/unit/hqmf_from_json_javascript_test.rb +108 -0
data/test/unit/hqmf_javascript_test.rb +175 -0
data/test/unit/library_function_test.rb +553 -0
data/test/unit/specifics_test.rb +757 -0
metadata +183 -0

data/test/fixtures/patients/larry_vanderman.json ADDED Viewed

@@ -0,0 +1,645 @@
+{
+  "addresses": null,
+  "allergies": [],
+  "birthdate": 160117200,
+  "care_goals": [
+    {
+      "codes": {
+        "CPT": [
+          "97804"
+        ],
+        "HCPCS": [
+          "S9470"
+        ],
+        "ICD-9-CM": [
+          "V65.3"
+        ],
+        "SNOMED-CT": [
+          "305849009"
+        ]
+      },
+      "description": "follow-up plan_BMI management",
+      "time": 1283313600
+    }
+  ],
+  "conditions": [
+    {
+      "codes": {
+        "ICD-10-CM": [
+          "E11.9"
+        ],
+        "ICD-9-CM": [
+          "250"
+        ],
+        "SNOMED-CT": [
+          "73211009"
+        ]
+      },
+      "description": "diabetes",
+      "status": "active",
+      "time": 1270094400
+    },
+    {
+      "codes": {
+        "ICD-10-CM": [
+          "J45"
+        ],
+        "ICD-9-CM": [
+          "493.92"
+        ],
+        "SNOMED-CT": [
+          "195979001"
+        ]
+      },
+      "description": "Asthma",
+      "status": "active",
+      "time": 1270094400
+    },
+    {
+      "codes": {
+        "ICD-10-CM": [
+          "I10"
+        ],
+        "ICD-9-CM": [
+          "401.9"
+        ],
+        "SNOMED-CT": [
+          "59621000"
+        ]
+      },
+      "description": "Hypertension",
+      "status": "active",
+      "time": 1270094400
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "370202007"
+        ]
+      },
+      "description": "Asthma Daytime Symptoms Quantified",
+      "time": 1270094400
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "370205009"
+        ]
+      },
+      "description": "Asthma Nighttime Symptoms Quantified",
+      "time": 1270094400
+    }
+  ],
+  "encounters": [
+    {
+      "codes": {
+        "CPT": [
+          "99213"
+        ],
+        "ICD-9-CM": [
+          "V70.0"
+        ]
+      },
+      "description": "Encounter Outpatient",
+      "end_time": 1291266000
+    },
+    {
+      "codes": {
+        "CPT": [
+          "99241"
+        ]
+      },
+      "description": "Encounter Office & Outpatient Consult",
+      "time": 1283313600
+    },
+    {
+      "codes": {
+        "CPT": [
+          "99213"
+        ],
+        "ICD-9-CM": [
+          "V70.0"
+        ]
+      },
+      "description": "Encounter Outpatient",
+      "time": 1277265600
+    },
+    {
+      "codes": {
+        "CPT": [
+          "99241"
+        ]
+      },
+      "description": "Encounter Office & Outpatient Consult",
+      "time": 1270094400
+    }
+  ],
+  "ethnicity": "Not Hispanic or Latino",
+  "first": "Larry",
+  "gender": "M",
+  "immunizations": [],
+  "languages": null,
+  "last": "Vanderman",
+  "medical_equipment": [],
+  "medications": [
+    {
+      "codes": {
+        "RxNorm": [
+          "847207"
+        ]
+      },
+      "description": "Insulin",
+      "time": 1278475200,
+      "cumulativeMedicationDuration" : {
+        "scalar": 6,
+        "unit": "d"
+      }
+    },
+    {
+      "codes": {
+        "RxNorm": [
+          "617314"
+        ]
+      },
+      "description": "Lipid Lowering Therapy",
+      "time": 1277265600
+    },
+    {
+      "codes": {
+        "RxNorm": [
+          "858828"
+        ]
+      },
+      "description": "Antihypertensive combinations",
+      "time": 1277265600
+    },
+    {
+      "codes": {
+        "RxNorm": [
+          "318142"
+        ]
+      },
+      "description": "Long acting inhaled beta 2 agonist",
+      "time": 1277265600
+    },
+    {
+      "codes": {
+        "RxNorm": [
+          "630208"
+        ]
+      },
+      "description": "Short acting beta 2 agonist",
+      "time": 1277265600
+    }
+  ],
+  "procedures": [
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "401191002"
+        ]
+      },
+      "description": "Foot Exam",
+      "time": 1291266000,
+      "values": [
+        {
+          "scalar": "Normal",
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "401191002"
+        ]
+      },
+      "description": "Foot Exam",
+      "time": 1283313600,
+      "values": [
+        {
+          "scalar": "Normal",
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "401191002"
+        ]
+      },
+      "description": "Foot Exam",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": "Normal",
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "401191002"
+        ]
+      },
+      "description": "Foot Exam",
+      "time": 1270094400,
+      "values": [
+        {
+          "scalar": "Normal",
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "97802"
+        ],
+        "HCPCS": [
+          "S9470"
+        ],
+        "ICD-10-CM": [
+          "Z00.8"
+        ],
+        "ICD-9-CM": [
+          "V65.3"
+        ]
+      },
+      "description": "counseling for nutrition",
+      "time": 1277265600
+    },
+    {
+      "codes": {
+        "HCPCS": [
+          "S9451"
+        ],
+        "ICD-10-CM": [
+          "Z71.3"
+        ],
+        "ICD-9-CM": [
+          "V65.41"
+        ]
+      },
+      "description": "counseling for physical activity",
+      "time": 1277265600
+    },
+    {
+      "codes": {
+        "CPT": [
+          "92012"
+        ],
+        "HCPCS": [
+          "S0621"
+        ],
+        "ICD-9-CM": [
+          "95.03"
+        ],
+        "SNOMED-CT": [
+          "390735007"
+        ]
+      },
+      "description": "eye exam",
+      "time": 1278388800
+    }
+  ],
+  "race": "Black or African American",
+  "results": [
+    {
+      "codes": {
+        "CPT": [
+          "83036"
+        ],
+        "LOINC": [
+          "4548-4"
+        ],
+        "SNOMED-CT": [
+          "43396009"
+        ]
+      },
+      "description": "HbA1c test",
+      "time": 1285992000,
+      "values": [
+        {
+          "scalar": 9.5,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "83036"
+        ],
+        "LOINC": [
+          "4548-4"
+        ],
+        "SNOMED-CT": [
+          "43396009"
+        ]
+      },
+      "description": "HbA1c test",
+      "time": 1283313600,
+      "values": [
+        {
+          "scalar": 9.2,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "83036"
+        ],
+        "LOINC": [
+          "4548-4"
+        ],
+        "SNOMED-CT": [
+          "43396009"
+        ]
+      },
+      "description": "HbA1c test",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 8.9,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "83721"
+        ],
+        "LOINC": [
+          "2089-1"
+        ],
+        "SNOMED-CT": [
+          "113079009"
+        ]
+      },
+      "description": "LDL",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 115,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "83701"
+        ],
+        "LOINC": [
+          "14646-4"
+        ],
+        "SNOMED-CT": [
+          "28036006"
+        ]
+      },
+      "description": "High Density Lipoprotein (HDL)",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 51,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "82465"
+        ],
+        "LOINC": [
+          "2093-3"
+        ],
+        "SNOMED-CT": [
+          "121868005"
+        ]
+      },
+      "description": "Total Cholesterol",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 186,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "CPT": [
+          "84478"
+        ],
+        "LOINC": [
+          "12951-0"
+        ],
+        "SNOMED-CT": [
+          "14740000"
+        ]
+      },
+      "description": "Triglycerides",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 143,
+          "units": null
+        }
+      ]
+    }
+  ],
+  "social_history": [
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "160618006"
+        ]
+      },
+      "description": "Tobacco Non-User",
+      "time": 1270094400
+    }
+  ],
+  "vital_signs": [
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271649006"
+        ]
+      },
+      "description": "Systolic Blood Pressure",
+      "time": 1291266000,
+      "values": [
+        {
+          "scalar": 142,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271650006"
+        ]
+      },
+      "description": "Diastolic Blood Pressure",
+      "time": 1291266000,
+      "values": [
+        {
+          "scalar": 92,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271649006"
+        ]
+      },
+      "description": "Systolic Blood Pressure",
+      "time": 1283313600,
+      "values": [
+        {
+          "scalar": 138,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271650006"
+        ]
+      },
+      "description": "Diastolic Blood Pressure",
+      "time": 1283313600,
+      "values": [
+        {
+          "scalar": 88,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271649006"
+        ]
+      },
+      "description": "Systolic Blood Pressure",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 138,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271650006"
+        ]
+      },
+      "description": "Diastolic Blood Pressure",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 86,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271649006"
+        ]
+      },
+      "description": "Systolic Blood Pressure",
+      "time": 1270094400,
+      "values": [
+        {
+          "scalar": 136,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "SNOMED-CT": [
+          "271650006"
+        ]
+      },
+      "description": "Diastolic Blood Pressure",
+      "time": 1270094400,
+      "values": [
+        {
+          "scalar": 84,
+          "units": "mm[Hg]"
+        }
+      ]
+    },
+    {
+      "codes": {
+        "LOINC": [
+          "39156-5"
+        ],
+        "SNOMED-CT": [
+          "60621009"
+        ]
+      },
+      "description": "BMI",
+      "time": 1285992000,
+      "values": [
+        {
+          "scalar": 30.84591836734694,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "LOINC": [
+          "39156-5"
+        ],
+        "SNOMED-CT": [
+          "60621009"
+        ]
+      },
+      "description": "BMI",
+      "time": 1283313600,
+      "values": [
+        {
+          "scalar": 30.27204081632653,
+          "units": null
+        }
+      ]
+    },
+    {
+      "codes": {
+        "LOINC": [
+          "39156-5"
+        ],
+        "SNOMED-CT": [
+          "60621009"
+        ]
+      },
+      "description": "BMI",
+      "time": 1277265600,
+      "values": [
+        {
+          "scalar": 31.56326530612245,
+          "units": null
+        }
+      ]
+    }
+  ]
+}

data/test/test_helper.rb ADDED Viewed

@@ -0,0 +1,58 @@
+require 'cover_me'
+require 'test/unit'
+require 'turn'
+if RUBY_PLATFORM=='java'
+  require 'rhino'
+else
+  require 'v8'
+end
+# allows import of patient api without rails
+module HqueryPatientApi
+  module Rails
+    class Engine
+    end
+  end
+end
+PROJECT_ROOT = File.expand_path("../../", __FILE__)
+require File.join(PROJECT_ROOT, 'lib', 'hqmf2js')
+def get_js_context(javascript)
+  if RUBY_PLATFORM=='java'
+    @context = Rhino::Context.new
+  else
+    @context = V8::Context.new
+  end
+  @context.eval(javascript)
+  @context
+end
+def initialize_javascript_context(hqmf_utils, codes_json, converted_hqmf)
+  patient_api = File.open('test/fixtures/patient_api.js').read
+  fixture_json = File.read('test/fixtures/patients/larry_vanderman.json')
+  initialize_patient = 'var numeratorPatient = new hQuery.Patient(larry);'
+  if RUBY_PLATFORM=='java'
+    @context = Rhino::Context.new
+  else
+    @context = V8::Context.new
+  end
+  @context.eval("#{patient_api}
+    #{hqmf_utils}
+    var OidDictionary = #{codes_json};
+    #{converted_hqmf}
+    var larry = #{fixture_json};
+    #{initialize_patient}")
+  @context.eval("Specifics.initialize()")
+end
+def compile_coffee_script
+  ctx = Sprockets::Environment.new(File.expand_path("../../..", __FILE__))
+  Tilt::CoffeeScriptTemplate.default_bare = true
+  ctx.append_path "app/assets/javascripts"
+  HQMF2JS::Generator::JS.library_functions
+end