public void MyTestInitialize()
{
this.cdaSchema = SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = Constants.IGTypeNames.CDA,
SchemaLocation = Constants.IGTypeSchemaLocations.CDA
}));
this.eMeasureSchema = SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = Constants.IGTypeNames.EMEASURE,
SchemaLocation = "schemas/EMeasure.xsd"
}));
this.hqmfSchema = SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = Constants.IGTypeNames.HQMF,
SchemaLocation = "schemas/EMeasure.xsd"
}));
Assert.IsNotNull(this.eMeasureSchema);
Assert.IsNotNull(this.cdaSchema);
Assert.IsNotNull(this.hqmfSchema);
}
public void MyTestInitialize()
{
this.cdaSchema = SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = "CDA",
SchemaLocation = "CDA.xsd"
}));
this.eMeasureSchema = SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = "eMeasure",
SchemaLocation = "schemas/EMeasure.xsd"
}));
this.fhirSchema = SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = MockObjectRepository.DEFAULT_FHIR_DSTU1_IG_TYPE_NAME,
SchemaLocation = "fhir-all.xsd"
}));
Assert.IsNotNull(this.eMeasureSchema);
Assert.IsNotNull(this.cdaSchema);
Assert.IsNotNull(this.fhirSchema);
}
public void TestSimplifiedSchema_eMeasure()
{
SimpleSchema cdaSchema = SimpleSchema.CreateSimpleSchema(
Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = "CDA",
SchemaLocation = "CDA.xsd"
}));
cdaSchema = cdaSchema.GetSchemaFromContext("Observation");
var foundClassCodeAttr = cdaSchema.Children.SingleOrDefault(y => y.Name == "classCode" && y.IsAttribute);
Assert.IsNotNull(foundClassCodeAttr);
var foundCode = cdaSchema.Children.SingleOrDefault(y => y.Name == "code" && !y.IsAttribute);
Assert.IsNotNull(foundCode);
var foundValue = cdaSchema.Children.SingleOrDefault(y => y.Name == "value" && !y.IsAttribute);
Assert.IsNotNull(foundValue);
var foundEntryRelationship = cdaSchema.Children.SingleOrDefault(y => y.Name == "entryRelationship" && !y.IsAttribute);
Assert.IsNotNull(foundEntryRelationship);
var foundObservation = foundEntryRelationship.Children.SingleOrDefault(y => y.Name == "observation" && !y.IsAttribute);
Assert.IsNotNull(foundObservation);
Assert.IsNotNull(cdaSchema);
}
public GreenTransformGenerator(IObjectRepository tdb, Dictionary <int, int> greenTemplates, long templateId)
: this(tdb)
{
this.rootTemplate = tdb.Templates.Single(y => y.Id == templateId);
this.greenTemplates = greenTemplates;
this.schemaNamespace = this.rootTemplate.ImplementationGuideType.SchemaURI;
this.simpleSchema =
SimpleSchema.CreateSimpleSchema(
Helper.GetIGSimplifiedSchemaLocation(this.rootTemplate.ImplementationGuideType));
TransformHelper.InitializeTransform(this.transformDoc, this.schemaNamespace);
}
public static SimpleSchema GetSimplifiedSchema(HttpApplicationState application, ImplementationGuideType igType)
{
if (application != null && application[igType.Name] != null)
{
return((SimpleSchema)application[igType.Name]);
}
SimpleSchema newSimplifiedSchema =
SimpleSchema.CreateSimpleSchema(Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(igType));
if (application != null)
{
application.Add(igType.Name, newSimplifiedSchema);
}
return(newSimplifiedSchema);
}
public void DSTU2_TestConvertExtension()
{
StructureDefinitionExporter exporter = new StructureDefinitionExporter(StructureDefinitionControllerTest.mockRepo1, "http", "test.com");
SimpleSchema schema = SimpleSchema.CreateSimpleSchema(
Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = Constants.IGTypeNames.FHIR_DSTU2,
SchemaLocation = "fhir-all.xsd"
}));
StructureDefinition strucDef = exporter.Convert(StructureDefinitionControllerTest.profile1, schema);
Assert.IsNotNull(strucDef);
Assert.IsNotNull(strucDef.Extension);
Assert.AreEqual(strucDef.Extension.Count, 4);
// Extension 1
Assert.AreEqual(strucDef.Extension[0].Url, "http://test.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[0].Value, typeof(FhirString));
Assert.AreEqual(((FhirString)strucDef.Extension[0].Value).Value, "Test string extension value");
// Extension 2
Assert.AreEqual(strucDef.Extension[1].Url, "http://test2.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[1].Value, typeof(Date));
Assert.AreEqual(((Date)strucDef.Extension[1].Value).Value, "2016234234234");
// Extension 3
Assert.AreEqual(strucDef.Extension[2].Url, "http://test3.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[2].Value, typeof(Coding));
Assert.AreEqual(((Coding)strucDef.Extension[2].Value).Code, "xyz-123");
Assert.AreEqual(((Coding)strucDef.Extension[2].Value).Display, "display");
Assert.AreEqual(((Coding)strucDef.Extension[2].Value).System, "urn:oid:2.16.113");
// Extension 4
Assert.AreEqual(strucDef.Extension[3].Url, "http://test4.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[3].Value, typeof(CodeableConcept));
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding.Count, 1);
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding[0].Code, "xyz-123");
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding[0].Display, "display");
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding[0].System, "urn:oid:2.16.113");
}
public void TestSimplifiedSchema_eMeasure()
{
SimpleSchema cdaSchema = SimpleSchema.CreateSimpleSchema(
Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = Constants.IGTypeNames.CDA,
SchemaLocation = Constants.IGTypeSchemaLocations.CDA
}));
cdaSchema = cdaSchema.GetSchemaFromContext("Observation");
var foundClassCodeAttr = cdaSchema.Children.SingleOrDefault(y => y.Name == "classCode" && y.IsAttribute);
Assert.IsNotNull(foundClassCodeAttr);
var foundCode = cdaSchema.Children.SingleOrDefault(y => y.Name == "code" && !y.IsAttribute);
Assert.IsNotNull(foundCode);
var foundValue = cdaSchema.Children.SingleOrDefault(y => y.Name == "value" && !y.IsAttribute);
Assert.IsNotNull(foundValue);
var foundEntryRelationship = cdaSchema.Children.SingleOrDefault(y => y.Name == "entryRelationship" && !y.IsAttribute);
Assert.IsNotNull(foundEntryRelationship);
/* TODO: Schema Choice support temporarily removed from non-FHIR schemas
* var foundChoice = foundEntryRelationship.Children.SingleOrDefault(y => y.Name == "choice" && !y.IsAttribute);
* Assert.IsNotNull(foundChoice);
*
* var foundObservation = foundChoice.Children.SingleOrDefault(y => y.Name == "observation" && !y.IsAttribute);
* Assert.IsNotNull(foundObservation);
*/
var foundObservation = foundEntryRelationship.Children.SingleOrDefault(y => y.Name == "observation" && !y.IsAttribute);
Assert.IsNotNull(foundObservation);
Assert.IsNotNull(cdaSchema);
}
private DefaultSampleGenerator(IObjectRepository tdb, Template template)
{
this.tdb = tdb;
this.template = template;
this.simpleSchema =
SimpleSchema.CreateSimpleSchema(
Helper.GetIGSimplifiedSchemaLocation(template.ImplementationGuideType));
if (string.IsNullOrEmpty(this.template.PrimaryContextType))
{
this.simpleSchema = this.simpleSchema.GetSchemaFromContext(template.TemplateType.RootContextType);
}
else
{
this.simpleSchema = this.simpleSchema.GetSchemaFromContext(template.PrimaryContextType);
}
this.igType = template.ImplementationGuideType;
this.igTypePlugin = this.igType.GetPlugin();
}
public static void SetupData(TestContext context)
{
STU3Tests.tdb = new MockObjectRepository();
STU3Tests.tdb.InitializeFHIR3Repository();
var fhirIgType = STU3Tests.tdb.FindImplementationGuideType(Constants.IGTypeNames.FHIR_STU3);
STU3Tests.fhirIg = STU3Tests.tdb.FindOrCreateImplementationGuide(fhirIgType, "Test IG");
string schemaLocation = Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(fhirIgType);
schema = SimpleSchema.CreateSimpleSchema(schemaLocation);
var templateType = tdb.FindTemplateType(Constants.IGTypeNames.FHIR_STU3, RESOURCE_TYPE_OBS);
STU3Tests.template1 = STU3Tests.tdb.CreateTemplate("http://test.com/StructureDefinition/1", templateType, "Test Observation", fhirIg, RESOURCE_TYPE_OBS, RESOURCE_TYPE_OBS, DESCRIPTION);
var c1_1 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template1, null, null, "extension");
var c1_2 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template1, c1_1, null, "value[x]", isChoice: true);
var c1_3 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template1, c1_2, null, "valueCodeableConcept", value: "1234-x", displayName: "test single-value binding");
STU3Tests.template2 = STU3Tests.tdb.CreateTemplate("http://test.com/StructureDefinition/2", templateType, "Test Observation", fhirIg, RESOURCE_TYPE_OBS, RESOURCE_TYPE_OBS, DESCRIPTION);
var c2_1 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template2, null, null, "extension");
var c2_2 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template2, c2_1, null, "value[x]", isChoice: true, cardinality: "1..1");
var c2_3 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template2, c2_2, null, "valueCodeableConcept", value: "1234-x", displayName: "test single-value binding");
var c2_4 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template2, c2_2, null, "valuePeriod");
var c2_5 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template2, c2_4, null, "start", cardinality: "1..1");
STU3Tests.template3 = STU3Tests.tdb.CreateTemplate("http://test.com/StructureDefinition/3", templateType, "Test Observation", fhirIg, RESOURCE_TYPE_OBS, RESOURCE_TYPE_OBS, DESCRIPTION);
var c3_1 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template3, null, null, "comment", cardinality: "1..1", value: "Test");
STU3Tests.template4 = STU3Tests.tdb.CreateTemplate("http://test.com/StructureDefinition/4", templateType, "Test Observation", fhirIg, RESOURCE_TYPE_OBS, RESOURCE_TYPE_OBS, DESCRIPTION);
var c4_1 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template4, null, null, "referenceRange", cardinality: "1..1", isBranch: true);
var c4_2 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template4, c4_1, null, "low", cardinality: "1..1");
var c4_3 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template4, c4_1, null, "appliesTo", cardinality: "1..1", value: "at1", displayName: "appliesTo1", isBranchIdentifier: true);
var c4_4 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template4, null, null, "referenceRange", cardinality: "1..1", isBranch: true);
var c4_5 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template4, c4_4, null, "high", cardinality: "1..1");
var c4_6 = STU3Tests.tdb.AddConstraintToTemplate(STU3Tests.template4, c4_4, null, "appliesTo", cardinality: "1..1", value: "at2", displayName: "appliesTo2", isBranchIdentifier: true);
}
public void TestConvertExtension()
{
MockObjectRepository mockRepo = new MockObjectRepository();
mockRepo.InitializeFHIR3Repository();
mockRepo.InitializeLCG();
var ig = mockRepo.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_FHIR_STU3_IG_TYPE_NAME, "Test IG");
var template = mockRepo.GenerateTemplate("http://test.com/fhir/test", "Composition", "Test Composition", ig, "Composition", "Composition");
template.Extensions.Add(new Trifolia.DB.TemplateExtension()
{
Identifier = "http://test.com/extension",
Type = "String",
Value = "Test string extension value"
});
template.Extensions.Add(new Trifolia.DB.TemplateExtension()
{
Identifier = "http://test2.com/extension",
Type = "Date",
Value = "2016234234234" // Invalid date format, but should still be parsed by FHIR library
});
template.Extensions.Add(new Trifolia.DB.TemplateExtension()
{
Identifier = "http://test3.com/extension",
Type = "Coding",
Value = "xyz-123|display|urn:oid:2.16.113"
});
template.Extensions.Add(new Trifolia.DB.TemplateExtension()
{
Identifier = "http://test4.com/extension",
Type = "CodeableConcept",
Value = "xyz-123|display|urn:oid:2.16.113"
});
template.Extensions.Add(new Trifolia.DB.TemplateExtension() // Extension has invalid value... It is skipped
{
Identifier = "http://test5.com/extension",
Type = "CodeableConcept",
Value = "test"
});
template.Extensions.Add(new Trifolia.DB.TemplateExtension() // Extension has invalid value... It is skipped
{
Identifier = "http://test6.com/extension",
Type = "Boolean",
Value = "test"
});
template.Extensions.Add(new Trifolia.DB.TemplateExtension() // Extension has invalid value... It is skipped
{
Identifier = "http://test7.com/extension",
Type = "Integer",
Value = "test"
});
StructureDefinitionExporter exporter = new StructureDefinitionExporter(mockRepo, "http", "test.com");
SimpleSchema schema = SimpleSchema.CreateSimpleSchema(
Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = MockObjectRepository.DEFAULT_FHIR_STU3_IG_TYPE_NAME,
SchemaLocation = "fhir-all.xsd"
}));
StructureDefinition strucDef = exporter.Convert(template, schema);
Assert.IsNotNull(strucDef);
Assert.IsNotNull(strucDef.Extension);
Assert.AreEqual(strucDef.Extension.Count, 4);
// Extension 1
Assert.AreEqual(strucDef.Extension[0].Url, "http://test.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[0].Value, typeof(FhirString));
Assert.AreEqual(((FhirString)strucDef.Extension[0].Value).Value, "Test string extension value");
// Extension 2
Assert.AreEqual(strucDef.Extension[1].Url, "http://test2.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[1].Value, typeof(Date));
Assert.AreEqual(((Date)strucDef.Extension[1].Value).Value, "2016234234234");
// Extension 3
Assert.AreEqual(strucDef.Extension[2].Url, "http://test3.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[2].Value, typeof(Coding));
Assert.AreEqual(((Coding)strucDef.Extension[2].Value).Code, "xyz-123");
Assert.AreEqual(((Coding)strucDef.Extension[2].Value).Display, "display");
Assert.AreEqual(((Coding)strucDef.Extension[2].Value).System, "urn:oid:2.16.113");
// Extension 4
Assert.AreEqual(strucDef.Extension[3].Url, "http://test4.com/extension");
Assert.IsInstanceOfType(strucDef.Extension[3].Value, typeof(CodeableConcept));
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding.Count, 1);
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding[0].Code, "xyz-123");
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding[0].Display, "display");
Assert.AreEqual(((CodeableConcept)strucDef.Extension[3].Value).Coding[0].System, "urn:oid:2.16.113");
}
public void TestSimplifiedSchema_CDA()
{
SimpleSchema cdaSchema = SimpleSchema.CreateSimpleSchema(
Trifolia.Shared.Helper.GetIGSimplifiedSchemaLocation(
new ImplementationGuideType()
{
Name = Constants.IGTypeNames.CDA,
SchemaLocation = Constants.IGTypeSchemaLocations.CDA
}));
Assert.IsNotNull(cdaSchema.ComplexTypes);
Assert.AreEqual(232, cdaSchema.ComplexTypes.Count); // This number may change if the schema changes
Assert.IsNotNull(cdaSchema.Children);
Assert.AreEqual(1, cdaSchema.Children.Count);
// Test root document level
SimpleSchema.SchemaObject clinicalDocument = cdaSchema.Children.SingleOrDefault(y => y.Name == "ClinicalDocument");
Assert.IsNotNull(clinicalDocument);
Assert.AreEqual("ClinicalDocument", clinicalDocument.DataType);
Assert.AreEqual(false, clinicalDocument.Mixed);
Assert.AreEqual(31, clinicalDocument.Children.Count);
var clinicalDocumentInvalidChildNames = clinicalDocument.Children.Where(y => string.IsNullOrEmpty(y.Name) || y.Name.Length <= 1);
Assert.IsTrue(clinicalDocumentInvalidChildNames.Count() == 0);
Assert.AreEqual(SimpleSchema.ObjectTypes.Element, clinicalDocument.Type);
// Test datatype
SimpleSchema.SchemaObject typeId = clinicalDocument.Children.SingleOrDefault(y => y.Name == "typeId");
Assert.IsNotNull(typeId);
Assert.AreEqual("typeId[typeId]", typeId.ToString());
Assert.AreEqual("typeId", typeId.DataType);
Assert.AreEqual("1..1", typeId.Cardinality);
Assert.AreEqual("SHALL", typeId.Conformance);
Assert.AreEqual(false, typeId.Mixed);
Assert.AreEqual(5, typeId.Children.Count);
var typeIdInvalidNames = typeId.Children.Where(y => string.IsNullOrEmpty(y.Name) || y.Name.Length <= 1);
Assert.IsTrue(typeIdInvalidNames.Count() == 0);
Assert.AreEqual(SimpleSchema.ObjectTypes.Element, typeId.Type);
// Test attribute
SimpleSchema.SchemaObject typeIdRoot = typeId.Children.SingleOrDefault(y => y.Name == "root");
Assert.IsNotNull(typeId);
Assert.AreEqual("uid", typeIdRoot.DataType);
Assert.AreEqual("1..1", typeIdRoot.Cardinality);
Assert.AreEqual("SHALL", typeIdRoot.Conformance);
Assert.AreEqual(false, typeIdRoot.Mixed);
Assert.AreEqual(0, typeIdRoot.Children.Count);
Assert.AreEqual(SimpleSchema.ObjectTypes.Attribute, typeIdRoot.Type);
// Test many cardinality
SimpleSchema.SchemaObject recordTarget = clinicalDocument.Children.SingleOrDefault(y => y.Name == "recordTarget");
Assert.IsNotNull(recordTarget);
Assert.AreEqual("RecordTarget", recordTarget.DataType);
Assert.AreEqual("1..*", recordTarget.Cardinality);
Assert.AreEqual("SHALL", recordTarget.Conformance);
Assert.AreEqual(false, recordTarget.Mixed);
Assert.AreEqual(7, recordTarget.Children.Count);
var recordTargetInvalidNames = recordTarget.Children.Where(y => string.IsNullOrEmpty(y.Name) || y.Name.Length <= 1);
Assert.IsTrue(recordTargetInvalidNames.Count() == 0);
Assert.AreEqual(SimpleSchema.ObjectTypes.Element, recordTarget.Type);
// Test patientRole
SimpleSchema.SchemaObject patientRole = recordTarget.Children.SingleOrDefault(y => y.Name == "patientRole");
Assert.IsNotNull(patientRole);
Assert.AreEqual("PatientRole", patientRole.DataType);
Assert.AreEqual("1..1", patientRole.Cardinality);
Assert.AreEqual("SHALL", patientRole.Conformance);
Assert.AreEqual(false, patientRole.Mixed);
Assert.AreEqual(10, patientRole.Children.Count);
Assert.AreEqual(SimpleSchema.ObjectTypes.Element, patientRole.Type);
// Test conformance
SimpleSchema.SchemaObject patient = patientRole.Children.SingleOrDefault(y => y.Name == "patient");
Assert.IsNotNull(patient);
Assert.AreEqual("Patient", patient.DataType);
Assert.AreEqual("0..1", patient.Cardinality);
Assert.AreEqual("MAY", patient.Conformance);
Assert.AreEqual(false, patient.Mixed);
Assert.AreEqual(24, patient.Children.Count);
Assert.IsNotNull(patient.Children.SingleOrDefault(y => y.Name == "sdtc:raceCode"));
var patientInvalidNames = patient.Children.Where(y => string.IsNullOrEmpty(y.Name) || y.Name.Length <= 1);
Assert.IsTrue(patientInvalidNames.Count() == 0);
Assert.AreEqual(SimpleSchema.ObjectTypes.Element, patientRole.Type);
SimpleSchema.SchemaObject sdtcRaceCode = patient.Children.Single(y => y.Name == "sdtc:raceCode");
var sdtcRaceCodeInvalidNames = sdtcRaceCode.Children.Where(y => string.IsNullOrEmpty(y.Name) || y.Name.Length <= 1);
Assert.IsTrue(sdtcRaceCodeInvalidNames.Count() == 0);
// Test mixed
SimpleSchema.SchemaObject patientName = patient.Children.SingleOrDefault(y => y.Name == "name");
Assert.IsNotNull(patientName);
Assert.AreEqual("PN", patientName.DataType);
Assert.AreEqual("0..*", patientName.Cardinality);
Assert.AreEqual("MAY", patientName.Conformance);
Assert.AreEqual(true, patientName.Mixed);
Assert.AreEqual(8, patientName.Children.Count, "Expected patient to have 8 children"); // TODO: Schema Choice support temporarily removed from non-FHIR schemas
Assert.IsTrue(patientName.Children.Count(y => string.IsNullOrEmpty(y.Name) || y.Name.Length <= 1) == 0);
Assert.AreEqual(SimpleSchema.ObjectTypes.Element, patientRole.Type);
}