public void GetRecursiveTemplates_ContainedNotInferred_MultiVersions()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeCDARepository();
var externalIG = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "External IG");
var exTemplate1 = tdb.GenerateTemplate("4.3.2.1", "Entry", "Ext Entry Template", externalIG, "observation", "Observation");
// Version 1, create the template
var implementationGuide1 = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "IG V1");
var template1 = tdb.GenerateTemplate("1.2.3.4", "Document", "Doc Template V1", implementationGuide1, "ClinicalDocument", "ClinicalDocument");
var tc1 = tdb.GenerateConstraint(template1, null, null, "entryRelationship", "SHALL", "1..1");
tdb.GenerateConstraint(template1, tc1, exTemplate1, "observation", "SHALL", "1..1");
// Version 2, deprecate the template, remove contained external template
var implementationGuide2 = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "IG V2", previousVersion: implementationGuide1);
var template2 = tdb.GenerateTemplate("1.2.3.4", "Document", "Doc Template V2", implementationGuide2, "ClinicalDocument", "ClinicalDocument", previousVersion: template1);
// Check list of templates for version 1
var templates = implementationGuide1.GetRecursiveTemplates(tdb, inferred: false);
Assert.IsNotNull(templates, "Version 1 returned null value");
Assert.AreEqual(1, templates.Count, "Version 1 returned incorrect number of templates");
// Check list of templates for version 2
templates = implementationGuide2.GetRecursiveTemplates(tdb, inferred: false);
Assert.IsNotNull(templates, "Version 2 returned null value");
Assert.AreEqual(1, templates.Count, "Version 2 returned incorrect number of templates");
}
public void GetRecursiveTemplates_ThreeVersions_V3Changed()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeCDARepository();
// Version 1
var implementationGuide1 = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "IG V1");
var template1 = tdb.GenerateTemplate("1.2.3.4", "Document", "Doc Template V1", implementationGuide1, "ClinicalDocument", "ClinicalDocument");
// Version 2
var implementationGuide2 = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "IG V2", previousVersion: implementationGuide1);
// Version 3
var implementationGuide3 = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "IG V3", previousVersion: implementationGuide2);
var template2 = tdb.GenerateTemplate("1.2.3.4", "Document", "Doc Template V3", implementationGuide3, "ClinicalDocument", "ClinicalDocument", previousVersion: template1);
// Check list of templates for version 1
var templates = implementationGuide1.GetRecursiveTemplates(tdb);
Assert.IsNotNull(templates, "Version 1 returned null value");
Assert.AreEqual(1, templates.Count, "Version 1 returned incorrect number of templates");
// Check list of templates for version 2
templates = implementationGuide2.GetRecursiveTemplates(tdb);
Assert.IsNotNull(templates, "Version 2 returned null value");
Assert.AreEqual(1, templates.Count, "Version 2 returned incorrect number of templates");
// Check list of templates for version 3
templates = implementationGuide3.GetRecursiveTemplates(tdb);
Assert.IsNotNull(templates, "Version 3 returned null value");
Assert.AreEqual(1, templates.Count, "Version 3 returned incorrect number of templates");
}
public void TestGetTemplates()
{
MockObjectRepository mockRepo = new MockObjectRepository();
mockRepo.InitializeFHIR3Repository();
mockRepo.InitializeLCGAndLogin();
var ig = mockRepo.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_FHIR_STU3_IG_TYPE_NAME, "Test IG");
var template = mockRepo.GenerateTemplate("http://test.com/profile1", "Composition", "Test Composition", ig);
HttpRequestMessage request = new HttpRequestMessage()
{
RequestUri = new Uri("http://localhost:8080/api/FHIR3/StructureDefinition")
};
HttpRequest contextRequest = new HttpRequest(null, "http://localhost:8080/api/FHIR3/StructureDefinition", null);
HttpResponse contextResponse = new HttpResponse(new StringWriter());
HttpContext.Current = new HttpContext(contextRequest, contextResponse);
FHIR3StructureDefinitionController controller = new FHIR3StructureDefinitionController(mockRepo, request);
var response = controller.GetTemplates();
var result = AssertHelper.IsType <NegotiatedContentResult <Bundle> >(response);
Assert.IsNotNull(result.Content);
Assert.AreEqual(1, result.Content.Entry.Count);
var firstEntry = result.Content.Entry.First();
Assert.AreEqual("http://localhost:8080/api/FHIR3/StructureDefinition/1", firstEntry.FullUrl);
Assert.IsNotNull(firstEntry.Resource);
var firstStrucDef = AssertHelper.IsType <StructureDefinition>(firstEntry.Resource);
Assert.AreEqual("Test-Composition", firstStrucDef.Id);
}
public void GenerateXMLTest()
{
MockObjectRepository mockTdb = new MockObjectRepository();
mockTdb.InitializeCDARepository();
ImplementationGuide ig = mockTdb.FindOrAddImplementationGuide("CDA", "Test IG", null, DateTime.Now);
Template template = mockTdb.GenerateTemplate("urn:oid:2.16.22.22.11", "Document", "Test Doc Type", ig, "ClinicalDocument", "ClinicalDocument", "Test Description");
var tca1 = mockTdb.GenerateConstraint(template, null, null, "@classCode", "SHALL", "1..1", value: "test1");
var tca2 = mockTdb.GenerateConstraint(template, null, null, "@moodCode", "SHALL", "1..1", value: "test2");
var tc1 = mockTdb.GenerateConstraint(template, null, null, "entryRelationship", "SHALL", "1..1");
var tc2 = mockTdb.GenerateConstraint(template, tc1, null, "observation", "SHOULD", "0..1");
var tc3 = mockTdb.GenerateConstraint(template, tc2, null, "value", "SHALL", "1..1", "CD", value: "4321", displayName: "Test");
template.TemplateSamples = new System.Data.Entity.Core.Objects.DataClasses.EntityCollection <TemplateSample>();
template.TemplateSamples.Add(new TemplateSample()
{
XmlSample = "<test><example>VALUE</example></test>"
});
List <Template> templates = new List <Template>();
templates.Add(template);
IGSettingsManager igSettings = new IGSettingsManager(mockTdb, ig.Id);
TemplateExporter exporter = new TemplateExporter(templates, mockTdb, ig.Id);
string export = exporter.GenerateXML();
Assert.IsFalse(string.IsNullOrEmpty(export));
}
public void ExportTemplatesModelTest1()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeCDARepository();
Organization org = tdb.FindOrAddOrganization("LCG Test");
ImplementationGuide ig = tdb.FindOrAddImplementationGuide(tdb.FindImplementationGuideType(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME), "Test Implementation Guide");
IGSettingsManager igSettings = new IGSettingsManager(tdb, ig.Id);
Template template = tdb.GenerateTemplate("1.2.3.4", "Document", "Test Template", ig, "observation", "Observation", "Test Description", "Test Notes", org);
var tc1 = tdb.GenerateConstraint(template, null, null, "entryRelationship", "SHALL", "1..1");
var tc2 = tdb.GenerateConstraint(template, tc1, null, "observation", "SHOULD", "0..1");
var tc3 = tdb.GenerateConstraint(template, tc2, null, "value", "SHALL", "1..1", "CD", value: "4321", displayName: "Test");
tc3.Description = "Test description";
tc3.Label = "Test Label";
var tc4 = tdb.GeneratePrimitive(template, null, "SHALL", "This is a test");
ExportTemplate export = template.Export(tdb, igSettings);
Assert.IsNotNull(export);
Assert.AreEqual(template.Oid, export.identifier);
Assert.AreEqual(template.Name, export.title);
Assert.AreEqual(template.TemplateType.Name, export.templateType);
Assert.AreEqual(template.PrimaryContext, export.context);
Assert.AreEqual(template.PrimaryContextType, export.contextType);
Assert.AreEqual(template.Description, export.Description);
Assert.AreEqual(template.Notes, export.Notes);
Assert.AreEqual(template.OrganizationName, export.organizationName);
// Assert constraints
Assert.IsNotNull(export.Constraint);
Assert.AreEqual(2, export.Constraint.Count);
// tc1
Assert.AreEqual(tc1.Context, export.Constraint[0].context);
Assert.AreEqual(ExportConformanceTypes.SHALL, export.Constraint[0].conformance);
Assert.AreEqual(tc1.Cardinality, export.Constraint[0].cardinality);
// tc4
Assert.IsNull(export.Constraint[1].context);
Assert.AreEqual(true, export.Constraint[1].isPrimitive);
Assert.AreEqual(tc4.PrimitiveText, export.Constraint[1].NarrativeText);
// tc2
Assert.AreEqual(1, export.Constraint[0].Constraint.Count);
Assert.AreEqual(tc2.Context, export.Constraint[0].Constraint[0].context);
Assert.AreEqual(ExportConformanceTypes.SHOULD, export.Constraint[0].Constraint[0].conformance);
Assert.AreEqual(tc2.Cardinality, export.Constraint[0].Constraint[0].cardinality);
// tc3
Assert.AreEqual(1, export.Constraint[0].Constraint[0].Constraint.Count);
Assert.AreEqual(tc3.Context, export.Constraint[0].Constraint[0].Constraint[0].context);
Assert.AreEqual(ExportConformanceTypes.SHALL, export.Constraint[0].Constraint[0].Constraint[0].conformance);
Assert.AreEqual(tc3.Cardinality, export.Constraint[0].Constraint[0].Constraint[0].cardinality);
Assert.AreEqual(tc3.Description, export.Constraint[0].Constraint[0].Constraint[0].Description);
Assert.AreEqual(tc3.Label, export.Constraint[0].Constraint[0].Constraint[0].Label);
Assert.IsFalse(string.IsNullOrEmpty(export.Constraint[0].Constraint[0].Constraint[0].Description));
}
public void ExportTemplatesModelTest2()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeCDARepository();
Organization org = tdb.FindOrAddOrganization("LCG Test");
ImplementationGuide ig = tdb.FindOrAddImplementationGuide(tdb.FindImplementationGuideType(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME), "Test Implementation Guide");
IGSettingsManager igSettings = new IGSettingsManager(tdb, ig.Id);
Template template = tdb.GenerateTemplate("1.2.3.4", "Document", "Test Template", ig, "observation", "Observation", "Test Description", "Test Notes");
ExportTemplate export = template.Export(tdb, igSettings);
Assert.IsNotNull(export);
Assert.AreEqual(template.Oid, export.identifier);
Assert.AreEqual(template.Name, export.title);
Assert.AreEqual(template.TemplateType.Name, export.templateType);
Assert.AreEqual(template.PrimaryContext, export.context);
Assert.AreEqual(template.PrimaryContextType, export.contextType);
Assert.AreEqual(template.Description, export.Description);
Assert.AreEqual(template.Notes, export.Notes);
Assert.IsNull(export.organizationName);
Assert.AreEqual(template.OwningImplementationGuide.Name, export.ImplementationGuide.name);
}
/// <summary>
/// Used to test green artifact generation.
/// </summary>
/// <returns></returns>
public static MockObjectRepository GenerateGreenMockDataset1()
{
MockObjectRepository mockRepo = new MockObjectRepository();
mockRepo.FindOrCreateCodeSystem("SNOMED CT", "6.96");
mockRepo.FindOrCreateCodeSystem("HL7ActStatus", "113883.5.14");
mockRepo.FindOrCreateValueSet("GenderCode", "11.1");
ImplementationGuideType igType = mockRepo.FindOrCreateImplementationGuideType("CDA", "CDA.xsd", "cda", "urn:hl7-org:v3");
TemplateType docType = mockRepo.FindOrCreateTemplateType(igType, "Document", "ClinicalDocument", "ClinicalDocument", 1);
TemplateType sectionType = mockRepo.FindOrCreateTemplateType(igType, "Section", "section", "Section", 2);
mockRepo.GenerateDataType(igType, "II");
mockRepo.GenerateDataType(igType, "INT");
mockRepo.GenerateDataType(igType, "TS");
mockRepo.GenerateDataType(igType, "CE");
ImplementationGuide ig1 = mockRepo.FindOrAddImplementationGuide(igType, "Test IG 1");
Template t1 = mockRepo.GenerateTemplate("urn:oid:1.2.3.4", docType, "Test Template 1", ig1, null, null, null);
TemplateConstraint tc1 = mockRepo.GenerateConstraint(t1, null, null, "code", "SHALL", "1..1", "CE");
TemplateConstraint tc1_1 = mockRepo.GenerateConstraint(t1, tc1, null, "@code", "SHALL", "1..1", null, "SHALL", "1234-x", "Test Doc Code", null, null);
TemplateConstraint tc1_2 = mockRepo.GenerateConstraint(t1, tc1, null, "@codeSystem", "SHALL", "1..1", null, "SHALL", "1.5.4.2.3", "Test Code System OID", null, null);
TemplateConstraint tc2 = mockRepo.GenerateConstraint(t1, null, null, "setId", "SHALL", "1..1", "II");
TemplateConstraint tc3 = mockRepo.GenerateConstraint(t1, null, null, "versionNumber", "SHALL", "1..1", "INT");
TemplateConstraint tc4 = mockRepo.GenerateConstraint(t1, null, null, "recordTarget", "SHALL", "1..*", null);
TemplateConstraint tc4_1 = mockRepo.GenerateConstraint(t1, tc4, null, "patientRole", "SHALL", "1..1", null);
TemplateConstraint tc4_1_1 = mockRepo.GenerateConstraint(t1, tc4_1, null, "id", "SHALL", "1..1", "II");
TemplateConstraint tc4_1_2 = mockRepo.GenerateConstraint(t1, tc4_1, null, "patient", "SHALL", "1..1", null);
TemplateConstraint tc4_1_2_1 = mockRepo.GenerateConstraint(t1, tc4_1_2, null, "birthTime", "SHALL", "1..1", "TS");
TemplateConstraint tc4_1_2_2 = mockRepo.GenerateConstraint(t1, tc4_1_2, null, "administrativeGenderCode", "SHALL", "1..1", "CE");
// Green Info
GreenTemplate gt1 = new GreenTemplate()
{
Id = 1,
Template = t1,
TemplateId = t1.Id,
Name = "Test Green Template 1"
};
mockRepo.GreenTemplates.AddObject(gt1);
t1.GreenTemplates.Add(gt1);
GreenConstraint gc1 = mockRepo.GenerateGreenConstraint(gt1, tc2, null, 1, "VersionSet", true);
GreenConstraint gc2 = mockRepo.GenerateGreenConstraint(gt1, tc3, null, 2, "VersionNumber", true);
GreenConstraint gc3 = mockRepo.GenerateGreenConstraint(gt1, tc4, null, 3, "Patient", false);
GreenConstraint gc4 = mockRepo.GenerateGreenConstraint(gt1, tc4_1_1, gc3, 1, "Id", true);
GreenConstraint gc5 = mockRepo.GenerateGreenConstraint(gt1, tc4_1_2_1, gc3, 2, "BirthDate", true);
GreenConstraint gc6 = mockRepo.GenerateGreenConstraint(gt1, tc4_1_2_2, gc3, 3, "Gender", true);
return(mockRepo);
}
public void TestCloneTemplate()
{
MockObjectRepository mockDb = new MockObjectRepository();
mockDb.InitializeCDARepository();
var ig = mockDb.FindOrAddImplementationGuide("CDA", "My Test IG");
var template1 = mockDb.GenerateTemplate("1.2.3.4.1", "Document", "My Test Template", ig);
template1.AuthorId = 2;
mockDb.GenerateConstraint(template1, null, null, "recordTarget", "SHALL", "1..1");
template1.TemplateSamples.Add(new TemplateSample()
{
Name = "My Test Sample",
XmlSample = "<test></test>"
});
// Test 1
var clone1 = template1.CloneTemplate(mockDb, null);
Assert.IsNotNull(clone1);
Assert.AreEqual("D_My_Test_Template (Copy)", clone1.Bookmark);
Assert.AreEqual("My Test Template (Copy)", clone1.Name);
Assert.AreEqual("1.2.3.4.1.1", clone1.Oid);
Assert.AreEqual(2, clone1.AuthorId);
Assert.AreEqual(1, clone1.Constraints.Count);
// Test the sample for clone1
Assert.AreEqual(1, clone1.TemplateSamples.Count);
Assert.AreEqual("My Test Sample", clone1.TemplateSamples.First().Name);
Assert.AreEqual("<test></test>", clone1.TemplateSamples.First().XmlSample);
mockDb.Templates.AddObject(clone1);
// Test 2
var clone2 = template1.CloneTemplate(mockDb, 1);
Assert.IsNotNull(clone2);
Assert.AreEqual("D_My_Test_Template (Copy 2)", clone2.Bookmark);
Assert.AreEqual("My Test Template (Copy 2)", clone2.Name);
Assert.AreEqual("1.2.3.4.1.2", clone2.Oid);
Assert.AreEqual(1, clone2.AuthorId);
Assert.AreEqual(1, clone2.Constraints.Count);
}
/// <summary>
/// Used to test different narrative constraint generation combinations.
/// </summary>
/// <returns></returns>
public static MockObjectRepository GenerateMockDataset2()
{
MockObjectRepository mockRepo = new MockObjectRepository();
mockRepo.FindOrCreateCodeSystem("SNOMED CT", "6.96");
mockRepo.FindOrCreateCodeSystem("HL7ActStatus", "113883.5.14");
CodeSystem hl7CodeSystem = mockRepo.FindOrCreateCodeSystem("HL7", "1.2.3");
ValueSet genderCodeValueSet = mockRepo.FindOrCreateValueSet("GenderCode", "11.1");
mockRepo.FindOrCreateValueSetMember(genderCodeValueSet, hl7CodeSystem, "M", "Male", "active", "01/02/2012");
mockRepo.FindOrCreateValueSetMember(genderCodeValueSet, hl7CodeSystem, "F", "Female", "active", "01/02/2012");
mockRepo.FindOrCreateValueSetMember(genderCodeValueSet, hl7CodeSystem, "U", "Undetermined", "active", "01/02/2012");
ImplementationGuideType igType = mockRepo.FindOrCreateImplementationGuideType("CDA", "CDA.xsd", "cda", "urn:hl7-org:v3");
ImplementationGuide ig = mockRepo.FindOrAddImplementationGuide(igType, "The IG");
TemplateType docType = mockRepo.FindOrCreateTemplateType(igType, "Document", "ClinicalDocument", "ClinicalDocument", 1);
Template template1 = mockRepo.GenerateTemplate("1.2.3.4.5.6", docType, "Test Template 1", ig, null, null, "Test Description 1", "Test Notes 1");
Template template2 = mockRepo.GenerateTemplate("1.2.3.4.5.6.5", docType, "Test Template 2", ig, null, null, "Test Description 2", "Test Notes 2");
mockRepo.GenerateConstraint(template1, null, null, "value", "SHALL", "1..1", null, null, null, null, null, null);
mockRepo.GenerateConstraint(template1, null, null, "@classCode", "SHALL", "1..1", null, null, "OBS", "Observation", null, mockRepo.CodeSystems.Single(y => y.Id == 2));
mockRepo.GenerateConstraint(template1, null, null, "templateId/@root", "SHALL", "1..1", null, null, "22.4.47", null, null, null);
mockRepo.GenerateConstraint(template1, null, null, "code", "SHALL", "1..1", "CD", null, null, null, null, null);
mockRepo.GenerateConstraint(template1, null, template2, null, "MAY", "0..1", null, null, null, null, null, null);
mockRepo.GenerateConstraint(template1, null, null, "administrativeGenderCode/@code", "SHALL", "1..1", null, "MAY", null, null, mockRepo.ValueSets.Single(y => y.Id == 1), null);
mockRepo.GenerateConstraint(template1, null, null, "statusCode", "SHALL", "1..1", null, null, "completed", "Completed", null, mockRepo.CodeSystems.Single(y => y.Id == 2));
mockRepo.GenerateConstraint(template1, null, null, "code/@code", "SHALL", "1..1", "CD", "SHALL", "1234-X", "Test Disp", null, mockRepo.CodeSystems.Single(y => y.Id == 1));
mockRepo.GenerateConstraint(template1, null, null, "code", "SHALL", "1..1", "CD", "SHALL", "1234-X", "Test Disp", null, mockRepo.CodeSystems.Single(y => y.Id == 1));
Template template3 = mockRepo.GenerateTemplate("1.2.3.4.5.6.7", docType, "Test Template 3", ig, null, null, "Test Description 3", "");
TemplateConstraint template3_c1 = mockRepo.GenerateConstraint(template3, null, null, "code", "SHALL", "1..1");
template3_c1.Category = "TestCategory";
return(mockRepo);
}
public void ExportFHIRComposition()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeFHIRRepository();
ImplementationGuide ig = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_FHIR_DSTU1_IG_TYPE_NAME, "Test FHIR IG");
Template t = tdb.GenerateTemplate("FHIR_1.2.3.4", "Composition", "Test FHIR Composition", ig, "Composition", "Composition");
var tc1 = tdb.GenerateConstraint(t, null, null, "subject", "SHALL", "1..1");
var tc2 = tdb.GenerateConstraint(t, null, null, "author", "SHALL", "1..1");
List <Template> templates = new List <Template>();
templates.Add(t);
string export = FHIRExporter.GenerateExport(tdb, templates, new Trifolia.Shared.IGSettingsManager(tdb));
Assert.IsNotNull(export, "Expected generated export not to be null");
Assert.AreNotEqual(0, export.Length, "Expected generated export not to be empty");
}
public void TestImportBundle()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeFHIRRepository();
tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_FHIR_DSTU1_IG_TYPE_NAME, "Unowned FHIR DSTU1 Profiles");
string bundleXml = Helper.GetSampleContents("Trifolia.Test.DocSamples.FHIR.DSTU1.bundle.xml");
FHIRImporter importer = new FHIRImporter(tdb, false);
importer.Import(bundleXml);
try
{
importer.Import(bundleXml);
Assert.Fail("Expected an exception to be thrown when importing FHIR profiles with 'create' option, when profile already exists");
}
catch { }
importer = new FHIRImporter(tdb, true);
importer.Import(bundleXml);
}
public void FindTemplate_Local_RelativeUrl_Test()
{
HttpRequestMessage request = new HttpRequestMessage();
request.RequestUri = new Uri("http://test:100/");
MockObjectRepository repo = new MockObjectRepository();
repo.InitializeFHIR2Repository();
var ig = repo.FindOrAddImplementationGuide(repo.FindImplementationGuideType(MockObjectRepository.DEFAULT_FHIR_DSTU2_IG_TYPE_NAME), "Test IG");
var template = repo.GenerateTemplate("urn:oid:1.2.3.4", repo.FindTemplateType(MockObjectRepository.DEFAULT_FHIR_DSTU2_IG_TYPE_NAME, "Composition"), "Test Template", ig);
ResourceReference reference = new ResourceReference();
reference.Reference = "StructureDefinition/" + template.Id;
MockWebClient webClient = new MockWebClient();
var foundTemplate = Shared.FindTemplate(request, webClient, repo, reference);
Assert.IsNotNull(foundTemplate);
Assert.AreEqual(template.Id, foundTemplate.Id);
Assert.AreEqual(template.Name, foundTemplate.Name);
Assert.AreEqual(0, webClient.RequestCount);
}
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 MyTestInitialize()
{
tdb = new MockObjectRepository();
// IG Type
ImplementationGuideType cdaType = tdb.FindOrCreateImplementationGuideType("CDA", "cda.xsd", "cda", "urn:hl7-org:v3");
// Template Type
TemplateType docType = tdb.FindOrCreateTemplateType(cdaType, "document", "ClinicalDocument", "ClinicalDocument", 1);
TemplateType secType = tdb.FindOrCreateTemplateType(cdaType, "section", "section", "Section", 2);
TemplateType entType = tdb.FindOrCreateTemplateType(cdaType, "entry", "entry", "Entry", 3);
// Code System
CodeSystem cs1 = tdb.FindOrCreateCodeSystem("SNOMED CT", "6.36");
// Value Set
ValueSet vs1 = tdb.FindOrCreateValueSet("Test Value Set 1", "1.2.3.4");
tdb.FindOrCreateValueSetMember(vs1, cs1, "1234", "Test Member 1");
tdb.FindOrCreateValueSetMember(vs1, cs1, "4321", "Test Member 2");
// Implementation Guide
ImplementationGuide ig1 = tdb.FindOrAddImplementationGuide(cdaType, "Test Implementation Guide 1", publishDate: new DateTime(2012, 1, 1));
// IG Files
byte[] testSchBytes = Helper.GetSampleContentBytes("Trifolia.Test.DocSamples.test.sch");
ImplementationGuideFile testSchFile = tdb.GenerateImplementationGuideFile(ig1, "test.sch", ImplementationGuideFile.ContentTypeSchematron, "text/xml", content: testSchBytes);
this.testSchFileId = testSchFile.Id;
tdb.GenerateImplementationGuideFile(ig1, "voc.xml", ImplementationGuideFile.ContentTypeVocabulary, "text/xml", content: testSchBytes);
tdb.GenerateImplementationGuideFile(ig1, "test1_template1.ent", ImplementationGuideFile.ContentTypeSchematronHelper, "text/xml", content: testSchBytes);
ImplementationGuide ig2 = tdb.FindOrAddImplementationGuide(cdaType, "Test Implementation Guide 2");
// Template 1
Template t1 = tdb.GenerateTemplate("urn:oid:1.2.3.4", docType, "Test Template", ig1, null, null, null);
tdb.GenerateConstraint(t1, null, null, "title", "SHALL", "1..1");
// Template 2
Template t2 = tdb.GenerateTemplate("urn:oid:1.2.3.4.1", docType, "Test Template", ig1, null, null, null);
TemplateConstraint t2_tc1 = tdb.GenerateConstraint(t2, null, null, "title", "SHALL", "1..1");
t2_tc1.Schematron = "count(cda:title)";
TemplateConstraint t2_tc2 = tdb.GeneratePrimitive(t2, null, "SHALL", "This is a test primitive");
tdb.GeneratePrimitive(t2, null, "SHALL", "This is test primitive #2", "count(cda:title) > 0");
// Template 3
Template t3 = tdb.GenerateTemplate("urn:oid:1.2.3.4.2", docType, "Test Template", ig2, null, null, null);
tdb.GenerateConstraint(t1, null, null, "title", "SHOULD", "1..1");
// Template 4
Template t4 = tdb.GenerateTemplate("urn:oid:1.2.3.4.3", docType, "Test Template", ig2, null, null, null);
TemplateConstraint t4_p1 = tdb.GenerateConstraint(t4, null, null, "entryRelationship", "SHALL", "1..1", null, null, null, null, null, null, null, true);
TemplateConstraint t4_p2 = tdb.GenerateConstraint(t4, t4_p1, null, "@typeCode", "SHALL", "1..1", null, null, "DRIV");
TemplateConstraint t4_p3 = tdb.GenerateConstraint(t4, t4_p1, null, "observation", "SHALL", "1..1", null, null, "DRIV", null, null, null, null, true);
}
/// <summary>
/// Data set is used to test implementation guide generation (the MS Word document export) and to test importing/exporting
/// implementation guides in the legacy trifolia format.
/// </summary>
public static MockObjectRepository GenerateMockDataset1()
{
MockObjectRepository mockRepo = new MockObjectRepository();
Organization internalOrg = mockRepo.FindOrAddOrganization("Lantana");
Organization testOrg = mockRepo.FindOrAddOrganization("Test Organization");
ImplementationGuideType igType = mockRepo.FindOrCreateImplementationGuideType("CDA", "CDA.xsd", "cda", "urn:hl7-org:v3");
TemplateType docType = mockRepo.FindOrCreateTemplateType(igType, "Document", "ClinicalDocument", "ClinicalDocument", 1);
TemplateType sectionType = mockRepo.FindOrCreateTemplateType(igType, "Section", "Section", "Section", 2);
TemplateType entryType = mockRepo.FindOrCreateTemplateType(igType, "Entry", "entry", "Entry", 3);
TemplateType subEntryType = mockRepo.FindOrCreateTemplateType(igType, "Sub-Entry", "entry", "Entry", 4);
TemplateType otherType = mockRepo.FindOrCreateTemplateType(igType, "Other", string.Empty, string.Empty, 5);
mockRepo.FindOrCreateValueSet("Test Value Set", "9.8.7.6.5.4.3.2.1");
ImplementationGuide ig = mockRepo.FindOrAddImplementationGuide(igType, "Test Implementation Guide", internalOrg);
mockRepo.FindOrAddImplementationGuide(igType, "Test IG 2", testOrg);
mockRepo.FindOrAddImplementationGuide(igType, "Test IG 3", internalOrg);
Template template1 = mockRepo.GenerateTemplate("1.2.3.4.5", docType, "Test Template 1", ig, null, null, "Test Description 2", "Test Note 1");
template1.Notes = "This is a test note";
// Basic constraint, nothing special
TemplateConstraint t1tc1 = mockRepo.GenerateConstraint(template1, null, null, "templateId", "SHALL", "1..1");
t1tc1.Notes = "This is a test constraint comment";
// Constraint with a child
TemplateConstraint t1tc2 = mockRepo.GenerateConstraint(template1, null, null, "code", "SHALL", "1..1");
TemplateConstraint t1tc2_2 = mockRepo.GenerateConstraint(template1, t1tc2, null, "@code", "SHALL", "1..1", null, null, "12345X", "Test Static Value");
// Constraint with a child (child has valueset)
ValueSet t1tc3_vs = mockRepo.FindOrCreateValueSet("Test Valueset", "9.8.7.6.5.4.3.2.1");
TemplateConstraint t1tc3 = mockRepo.GenerateConstraint(template1, null, null, "code", "SHALL", "1..1");
TemplateConstraint t1tc3_1 = mockRepo.GenerateConstraint(template1, t1tc3, null, "@code", "SHALL", "1..1", "CE", "SHALL", null, null, t1tc3_vs);
t1tc3_1.IsStatic = true;
Template template2 = mockRepo.GenerateTemplate("1.2.3.4.5.6", docType, "Test Template 2", ig, null, null, "Test Description 1", "Test Note 2");
template2.ImpliedTemplate = template1;
// Constraint with a child
TemplateConstraint t2tc1 = mockRepo.GenerateConstraint(template2, null, null, "code", "SHALL", "1..1");
Template template3 = mockRepo.GenerateTemplate("1.2.3.4.5.6.7", docType, "Test Template 3", ig, null, null, "Test Description 3", "Test Note 3");
TemplateConstraint t3tc1 = mockRepo.GenerateConstraint(template3, null, template2, null, "SHALL", "1..1");
TemplateConstraint t3tc2 = mockRepo.GenerateConstraint(template3, null, null, "entry", "SHALL", "1..1");
TemplateConstraint t3tc2_1 = mockRepo.GenerateConstraint(template3, t3tc2, template2, "observation", "SHALL", "1..1");
Template template4 = mockRepo.GenerateTemplate("8.2234.19.234.11", docType, "Test Constraint Description Template", ig, null, null, null, null);
mockRepo.GenerateConstraint(template4, null, null, "code", "SHALL", "1..1", "CD", null, null, null, null, null, "Test constraint description");
return(mockRepo);
}
public void ImportTemplatesTest()
{
MockObjectRepository tdb = new MockObjectRepository();
tdb.InitializeCDARepository();
var implementationGuide = tdb.FindOrAddImplementationGuide(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, "Test IG");
string importXml =
"<?xml version=\"1.0\" encoding=\"utf-16\"?>" +
"<Trifolia xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\" xmlns:xsd=\"http://www.w3.org/2001/XMLSchema\" xmlns=\"http://www.lantanagroup.com\">" +
" <Template identifier=\"urn:oid:1.2.3.4.5\" implementationGuideType=\"CDA\" templateType=\"Document\" title=\"Test Template 1\" bookmark=\"D_Test_Template_1\" context=\"ClinicalDocument\">" +
" <ImplementationGuide name=\"Test IG\" />" +
" <Description>Test Description 2</Description>" +
" <Notes>Test Note 1</Notes>" +
" <Constraint isVerbose=\"false\" number=\"1000\" context=\"templateId\" conformance=\"SHALL\" cardinality=\"1..1\" />" +
" <Constraint isVerbose=\"false\" number=\"1001\" context=\"code\" conformance=\"SHALL\" cardinality=\"1..1\">" +
" <Constraint isVerbose=\"false\" number=\"1002\" context=\"@code\" conformance=\"SHALL\" cardinality=\"1..1\">" +
" <SingleValueCode code=\"12345X\" displayName=\"Test Static Value\" />" +
" </Constraint>" +
" </Constraint>" +
" <Constraint isVerbose=\"false\" number=\"1003\" context=\"code\" conformance=\"SHALL\" cardinality=\"1..1\">" +
" <Constraint isVerbose=\"false\" number=\"1004\" context=\"@code\" conformance=\"SHALL\" cardinality=\"1..1\" dataType=\"CE\">" +
" <ValueSet identifier=\"9.8.7.6.5.4.3.2.1\" isStatic=\"true\" />" +
" </Constraint>" +
" </Constraint>" +
" </Template>" +
" <Template identifier=\"urn:oid:1.2.3.4.5.6\" implementationGuideType=\"CDA\" templateType=\"Document\" title=\"Test Template 2\" bookmark=\"D_Test_Template_2\" impliedTemplateOid=\"urn:oid:1.2.3.4.5\" context=\"Document\">" +
" <ImplementationGuide name=\"Test IG\" />" +
" <Description>Test Description 1</Description>" +
" <Notes>Test Note 2</Notes>" +
" <Constraint isVerbose=\"false\" number=\"1005\" context=\"code\" conformance=\"SHALL\" cardinality=\"1..1\" />" +
" </Template>" +
" <Template identifier=\"urn:oid:1.2.3.4.5.6.7\" implementationGuideType=\"CDA\" templateType=\"Document\" title=\"Test Template 3\" bookmark=\"D_Test_Template_3\" context=\"Document\">" +
" <ImplementationGuide name=\"Test IG\" />" +
" <Description>Test Description 3</Description>" +
" <Notes>Test Note 3</Notes>" +
" <Constraint isVerbose=\"false\" number=\"1006\" conformance=\"SHALL\" cardinality=\"1..1\" containedTemplateOid=\"urn:oid:1.2.3.4.5.6\" />" +
" <Constraint isVerbose=\"false\" number=\"1007\" context=\"entry\" conformance=\"SHALL\" cardinality=\"1..1\">" +
" <Constraint isVerbose=\"false\" number=\"1008\" context=\"observation\" conformance=\"SHALL\" cardinality=\"1..1\" containedTemplateOid=\"urn:oid:1.2.3.4.5.6\" />" +
" </Constraint>" +
" </Template>" +
"</Trifolia>";
TemplateImporter importer = new TemplateImporter(tdb);
List <Template> templates = importer.Import(importXml);
Assert.AreEqual(0, importer.Errors.Count, "Should not have errors");
Assert.IsNotNull(templates, "Did not expect import to return null list of templates");
Assert.AreEqual(3, templates.Count, "Expected to find 3 imported templates");
Template firstTemplate = templates[0];
Assert.AreEqual("urn:oid:1.2.3.4.5", firstTemplate.Oid, "First template's oid was not correct.");
Assert.AreEqual("Test Template 1", firstTemplate.Name, "First template's title was not set correctly.");
Assert.AreEqual("D_Test_Template_1", firstTemplate.Bookmark, "First template's bookmark was not set correctly.");
Assert.IsNotNull(firstTemplate.ImplementationGuideType, "First template's implementation guide type was not set.");
Assert.AreEqual(MockObjectRepository.DEFAULT_CDA_IG_TYPE_NAME, firstTemplate.ImplementationGuideType.Name, "First template's implementation guide was not correct.");
Assert.IsNotNull(firstTemplate.TemplateType, "First template's type was not set.");
Assert.AreEqual("Document", firstTemplate.TemplateType.Name, "First template's type was not correct.");
Assert.IsNotNull(firstTemplate.PrimaryContext, "First template's context was not set.");
Assert.AreEqual("ClinicalDocument", firstTemplate.PrimaryContext, "First template's context was not correct.");
Assert.AreEqual(5, firstTemplate.ChildConstraints.Count, "Expected to find 5 constraints in the first template.");
TemplateConstraint constraint = firstTemplate.ChildConstraints.ToList()[0];
Assert.IsNotNull(constraint.Context, "First constraint of first template does not have a context.");
Assert.AreEqual(constraint.Context, "templateId", "First constraint of first template does not have the correct context.");
Assert.AreEqual(constraint.Cardinality, "1..1", "First constraint of first template does not have the correct cardinality.");
Assert.IsNotNull(constraint.Conformance, "First constraint of first template does does not have a conformance.");
Assert.AreEqual(constraint.Conformance, "SHALL", "First constraint of first template does does not have the correct conformance.");
TemplateConstraint secondConstraint = firstTemplate.ChildConstraints.ToList()[2];
Assert.IsNotNull(secondConstraint.ParentConstraint, "Third constraint of the first template does not have a parent constraint.");
}
