public void TestSetup()
{
this.tdb = new MockObjectRepository();
this.tdb.InitializeCDARepository();
CodeSystem cs = tdb.FindOrCreateCodeSystem("LOINC", "1.2.3.4.5");
this.vs1 = tdb.FindOrCreateValueSet("Test Valueset 1", "1.2.3.4");
this.tdb.FindOrCreateValueSetMember(this.vs1, cs, "1", "One", "active", "1/1/2000");
this.tdb.FindOrCreateValueSetMember(this.vs1, cs, "2", "Two", "active", "1/1/2000");
this.tdb.FindOrCreateValueSetMember(this.vs1, cs, "1", "One", "inactive", "1/1/2001");
this.tdb.FindOrCreateValueSetMember(this.vs1, cs, "3", "Three", "active", "1/1/2001");
this.tdb.FindOrCreateValueSetMember(this.vs1, cs, "1", "One", "active", "1/1/2002");
this.vs2 = tdb.FindOrCreateValueSet("Test Valueset 2", "4.3.2.1");
this.tdb.FindOrCreateValueSetMember(this.vs2, cs, "1", "One");
this.tdb.FindOrCreateValueSetMember(this.vs2, cs, "2", "Two");
this.tdb.FindOrCreateValueSetMember(this.vs2, cs, "3", "Three", "inactive", "1/1/2000");
this.tdb.FindOrCreateValueSetMember(this.vs2, cs, "4", "Four", "active", "1/1/2000");
this.vs3 = tdb.FindOrCreateValueSet("Test Valueset 3", "1.4.2.3");
this.tdb.FindOrCreateValueSetMember(this.vs3, cs, "1", "One");
this.tdb.FindOrCreateValueSetMember(this.vs3, cs, "2", "Two");
this.tdb.FindOrCreateValueSetMember(this.vs3, cs, "3", "Three", valueSetStatus: "inactive", dateOfValueSetStatus: "08/05/2013");
this.tdb.FindOrCreateValueSetMember(this.vs3, cs, "4", "Four", valueSetStatus: "active");
this.tdb.FindOrCreateValueSetMember(this.vs3, cs, "5", "Five");
this.ig = this.tdb.FindOrCreateImplementationGuide(Constants.IGTypeNames.CDA, "Test IG");
}
public HttpResponseMessage ExportMSWord(MSWordSettingsModel exportSettings)
{
if (exportSettings == null)
{
throw new ArgumentNullException("model");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == exportSettings.ImplementationGuideId);
ImplementationGuideGenerator generator = new ImplementationGuideGenerator(this.tdb, exportSettings.ImplementationGuideId, exportSettings.TemplateIds);
string fileName = string.Format("{0}.docx", ig.GetDisplayName(true));
ExportSettings lConfig = new ExportSettings();
lConfig.Use(c =>
{
c.GenerateTemplateConstraintTable = exportSettings.TemplateTables == TemplateTableOptions.ConstraintOverview || exportSettings.TemplateTables == TemplateTableOptions.Both;
c.GenerateTemplateContextTable = exportSettings.TemplateTables == TemplateTableOptions.Context || exportSettings.TemplateTables == TemplateTableOptions.Both;
c.GenerateDocTemplateListTable = exportSettings.DocumentTables == DocumentTableOptions.List || exportSettings.DocumentTables == DocumentTableOptions.Both;
c.GenerateDocContainmentTable = exportSettings.DocumentTables == DocumentTableOptions.Containment || exportSettings.DocumentTables == DocumentTableOptions.Both;
c.AlphaHierarchicalOrder = exportSettings.TemplateSortOrder == TemplateSortOrderOptions.AlphaHierarchically;
c.DefaultValueSetMaxMembers = exportSettings.GenerateValuesets ? exportSettings.MaximumValuesetMembers : 0;
c.GenerateValueSetAppendix = exportSettings.ValuesetAppendix;
c.IncludeXmlSamples = exportSettings.IncludeXmlSample;
c.IncludeChangeList = exportSettings.IncludeChangeList;
c.IncludeTemplateStatus = exportSettings.IncludeTemplateStatus;
c.IncludeNotes = exportSettings.IncludeNotes;
c.SelectedCategories = exportSettings.SelectedCategories;
});
if (exportSettings.ValueSetOid != null && exportSettings.ValueSetOid.Count > 0)
{
Dictionary <string, int> valueSetMemberMaximums = new Dictionary <string, int>();
for (int i = 0; i < exportSettings.ValueSetOid.Count; i++)
{
if (valueSetMemberMaximums.ContainsKey(exportSettings.ValueSetOid[i]))
{
continue;
}
valueSetMemberMaximums.Add(exportSettings.ValueSetOid[i], exportSettings.ValueSetMaxMembers[i]);
}
lConfig.ValueSetMaxMembers = valueSetMemberMaximums;
}
// Save the export settings as the default settings
if (exportSettings.SaveAsDefaultSettings)
{
IGSettingsManager settingsManager = new IGSettingsManager(this.tdb, exportSettings.ImplementationGuideId);
var settingsJson = new System.Web.Script.Serialization.JavaScriptSerializer().Serialize(exportSettings);
settingsManager.SaveSetting(MSWordExportSettingsPropertyName, settingsJson);
}
generator.BuildImplementationGuide(lConfig);
byte[] data = generator.GetDocument();
return(GetExportResponse(fileName, DOCX_MIME_TYPE, data));
}
public static void Setup(TestContext context)
{
ExportTests.tdb = new MockObjectRepository();
TrifoliaImporter importer = new TrifoliaImporter(ExportTests.tdb);
ExportTests.tdb.InitializeFHIR3Repository();
ExportTests.tdb.InitializeLCGAndLogin();
string importContent = Helper.GetSampleContents(IMPORT_XML);
var importModel = ImportModel.Deserialize(importContent);
var importStatus = importer.Import(importModel);
Assert.IsTrue(importStatus.Success, "Expected import to succeed");
Assert.AreNotEqual(importStatus.ImplementationGuides.Count, 0, "Expected import to include implementation guides");
ImplementationGuide ig = ExportTests.tdb.ImplementationGuides.SingleOrDefault(y => y.Id == importStatus.ImplementationGuides.First().InternalId);
var schema = ig.ImplementationGuideType.GetSimpleSchema();
ImplementationGuideExporter exporter = new ImplementationGuideExporter(ExportTests.tdb, schema, "localhost", "http");
ExportTests.exportedBundle = exporter.GetImplementationGuides(implementationGuideId: ig.Id, include: "ImplementationGuide:resource");
ExportTests.exportedXml = FhirSerializer.SerializeResourceToXml(ExportTests.exportedBundle);
Assert.IsNotNull(ExportTests.exportedXml);
}
public string GetImplementationGuideVocabulary(int implementationGuideId, int maxValueSetMembers, int vocabOutputType, string encoding)
{
try
{
TDBImplementationGuide ig = tdb.ImplementationGuides.SingleOrDefault(y => y.Id == implementationGuideId);
if (ig == null)
{
throw new Exception("Could not find ImplementationGuide specified.");
}
bool?onlyStatic = VocabularyOutputTypeTranslator.FromInt(vocabOutputType) != VocabularyOutputType.FHIR ? (bool?)true : null;
List <ImplementationGuideValueSet> valueSets = ig.GetValueSets(tdb, onlyStatic);
List <VocabularySystem> systems = new List <VocabularySystem>();
foreach (ImplementationGuideValueSet cValueSet in valueSets)
{
VocabularySystem newSystem = this.GetSystem(tdb, cValueSet.ValueSet, cValueSet.BindingDate);
systems.Add(newSystem);
}
VocabularySystems schema = new VocabularySystems();
schema.Systems = systems.ToArray();
VocabularyOutputTypeAdapter adapter = new VocabularyOutputTypeAdapter(schema, VocabularyOutputTypeTranslator.FromInt(vocabOutputType), Encoding.GetEncoding(encoding));
return(adapter.AsXML());
}
catch (Exception ex)
{
Log.For(this).Critical("Error occurred while retrieving vocabulary for an implementation guide.", ex);
throw;
}
}
public Trifolia.Shared.ImportExport.Model.Trifolia ExportTrifoliaModel(XMLSettingsModel model)
{
if (model == null)
{
throw new ArgumentNullException("model");
}
if (model.ImplementationGuideId == 0)
{
throw new ArgumentNullException("model.ImplementationGuideId");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.SingleOrDefault(y => y.Id == model.ImplementationGuideId);
if (ig == null)
{
throw new Exception("Implementation guide with id " + model.ImplementationGuideId + " was not found");
}
List <Template> templates = this.tdb.Templates.Where(y => model.TemplateIds.Contains(y.Id)).ToList();
IGSettingsManager igSettings = new IGSettingsManager(this.tdb, model.ImplementationGuideId);
string fileName = string.Format("{0}.xml", ig.GetDisplayName(true));
string export = string.Empty;
try
{
NativeExporter exporter = new NativeExporter(this.tdb, templates, igSettings, categories: model.SelectedCategories);
return(exporter.GenerateExport());
}
catch (Exception ex)
{
Log.For(this).Error("Error creating Trifolia export", ex);
throw;
}
}
public HttpResponseMessage ExportVocabulary(VocabularySettingsModel model)
{
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == model.ImplementationGuideId);
byte[] data = new byte[0];
string fileType = string.Empty;
string contentType = string.Empty;
VocabularyService service = new VocabularyService(this.tdb, ig.ImplementationGuideType.SchemaURI == "urn:hl7-org:v3");
switch (model.ExportFormat)
{
case VocabularySettingsModel.ExportFormatTypes.Standard:
case VocabularySettingsModel.ExportFormatTypes.SVS:
case VocabularySettingsModel.ExportFormatTypes.FHIR:
fileType = "xml";
contentType = XML_MIME_TYPE;
string vocXml = service.GetImplementationGuideVocabulary(model.ImplementationGuideId, model.MaximumMembers, (int)model.ExportFormat, model.Encoding);
Encoding encoding = Encoding.GetEncoding(model.Encoding);
data = encoding.GetBytes(vocXml);
break;
case VocabularySettingsModel.ExportFormatTypes.Excel:
fileType = "xlsx";
contentType = XLSX_MIME_TYPE;
data = service.GetImplementationGuideVocabularySpreadsheet(model.ImplementationGuideId, model.MaximumMembers);
break;
}
string fileName = string.Format("{0}.{1}", ig.GetDisplayName(true), fileType);
return(GetExportResponse(fileName, contentType, data));
}
public XMLModel Xml(int implementationGuideId)
{
if (!CheckPoint.Instance.GrantViewImplementationGuide(implementationGuideId))
{
throw new AuthorizationException("You do not have permissions to this implementation guide.");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == implementationGuideId);
IGSettingsManager igSettings = new IGSettingsManager(this.tdb, implementationGuideId);
XMLModel model = new XMLModel()
{
ImplementationGuideId = implementationGuideId,
Name = ig.GetDisplayName(),
CancelUrl = GetCancelUrl(implementationGuideId),
ImplementationGuideType = ig.ImplementationGuideType.Name
};
// Get categories from the IG's settings
string categories = igSettings.GetSetting(IGSettingsManager.SettingProperty.Categories);
if (!string.IsNullOrEmpty(categories))
{
string[] categoriesSplit = categories.Split(',');
foreach (string category in categoriesSplit)
{
model.Categories.Add(category.Replace("###", ","));
}
}
return(model);
}
public AuditEntry CreateAuditEntry(string auditUserName, string auditIP)
{
if (this.fieldChanges.Count == 0)
{
return(null);
}
AuditEntry newAuditEntry = new AuditEntry();
ImplementationGuide ig = this.entity as ImplementationGuide;
Template template = this.entity as Template;
TemplateConstraint constraint = this.entity as TemplateConstraint;
if (this.changeState != EntityState.Deleted)
{
this.SetIds();
}
string note = string.Format("{0}: {1} ({2})",
this.changeState,
this.GetUniqueId(this.entity),
String.Join(", ", this.fieldChanges));
newAuditEntry.ImplementationGuideId = this.implementationGuideId;
newAuditEntry.TemplateId = this.templateId;
newAuditEntry.TemplateConstraintId = this.constraintId;
newAuditEntry.Note = note;
newAuditEntry.IP = auditIP;
newAuditEntry.Username = auditUserName;
newAuditEntry.AuditDate = DateTime.Now;
newAuditEntry.Type = this.entity.GetType().Name;
return(newAuditEntry);
}
public static string GetFullUrl(this ImplementationGuide implementationGuide, string scheme, string authority)
{
var url = string.Format("{0}://{1}/api/FHIR2/ImplementationGuide/{2}",
scheme,
authority,
implementationGuide.Id);
return(url);
}
private string GetFullUrl(ImplementationGuide implementationGuide)
{
var url = string.Format("{0}://{1}/api/FHIRLatest/ImplementationGuide/{2}",
this.scheme,
this.authority,
implementationGuide.Id);
return(url);
}
public HttpResponseMessage ExportXML(XMLSettingsModel model)
{
if (model == null)
{
throw new ArgumentNullException("model");
}
if (model.ImplementationGuideId == 0)
{
throw new ArgumentNullException("model.ImplementationGuideId");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.SingleOrDefault(y => y.Id == model.ImplementationGuideId);
if (ig == null)
{
throw new Exception("Implementation guide with id " + model.ImplementationGuideId + " was not found");
}
List <Template> templates = this.tdb.Templates.Where(y => model.TemplateIds.Contains(y.Id)).ToList();
IGSettingsManager igSettings = new IGSettingsManager(this.tdb, model.ImplementationGuideId);
string fileName = string.Format("{0}.xml", ig.GetDisplayName(true));
string export = string.Empty;
bool returnJson = Request.Headers.Accept.Count(y => y.MediaType == "application/json") == 1;
bool includeVocabulary = model.IncludeVocabulary == true;
var igTypePlugin = IGTypePluginFactory.GetPlugin(ig.ImplementationGuideType);
var schema = SimplifiedSchemaContext.GetSimplifiedSchema(HttpContext.Current.Application, ig.ImplementationGuideType);
if (model.XmlType == XMLSettingsModel.ExportTypes.Proprietary)
{
export = igTypePlugin.Export(tdb, schema, ExportFormats.Proprietary, igSettings, model.SelectedCategories, templates, includeVocabulary, returnJson);
}
else if (model.XmlType == XMLSettingsModel.ExportTypes.DSTU)
{
export = igTypePlugin.Export(tdb, schema, ExportFormats.TemplatesDSTU, igSettings, model.SelectedCategories, templates, includeVocabulary, returnJson);
}
else if (model.XmlType == XMLSettingsModel.ExportTypes.FHIR)
{
export = igTypePlugin.Export(this.tdb, schema, ExportFormats.FHIR, igSettings, model.SelectedCategories, templates, includeVocabulary, returnJson);
}
else if (model.XmlType == XMLSettingsModel.ExportTypes.JSON)
{
ImplementationGuideController ctrl = new ImplementationGuideController(this.tdb);
var dataModel = ctrl.GetViewData(model.ImplementationGuideId, null, null, true);
// Serialize the data to JSON
var jsonSerializer = new System.Web.Script.Serialization.JavaScriptSerializer();
jsonSerializer.MaxJsonLength = Int32.MaxValue;
export = jsonSerializer.Serialize(dataModel);
// Set the filename to JSON
fileName = string.Format("{0}.json", ig.GetDisplayName(true));
}
byte[] data = System.Text.ASCIIEncoding.UTF8.GetBytes(export);
return(GetExportResponse(fileName, data));
}
public ActionResult Schematron(int implementationGuideId)
{
if (!CheckPoint.Instance.GrantViewImplementationGuide(implementationGuideId))
{
throw new AuthorizationException("You do not have permissions to this implementation guide.");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == implementationGuideId);
return(View("Schematron", implementationGuideId));
}
public Bundle GetImplementationGuideValueSets(Trifolia.DB.ImplementationGuide ig)
{
var igValueSets = ig.GetValueSets(this.tdb, readOnly: true);
Bundle bundle = new Bundle();
foreach (var igValueSet in igValueSets)
{
bundle.AddResourceEntry(this.Convert(igValueSet.ValueSet), igValueSet.ValueSet.GetIdentifier(ValueSetIdentifierTypes.HTTP));
}
return(bundle);
}
public FhirImplementationGuide Convert(ImplementationGuide ig, SummaryType?summaryType = null)
{
var fhirImplementationGuide = new FhirImplementationGuide()
{
Id = ig.Id.ToString(),
Name = ig.Name,
Url = string.Format("ImplementationGuide/{0}", ig.Id)
};
// Status
if (ig.PublishStatus == PublishStatus.GetPublishedStatus(this.tdb))
{
fhirImplementationGuide.Status = ConformanceResourceStatus.Active;
}
else if (ig.PublishStatus == PublishStatus.GetRetiredStatus(this.tdb) || ig.PublishStatus == PublishStatus.GetDeprecatedStatus(this.tdb))
{
fhirImplementationGuide.Status = ConformanceResourceStatus.Retired;
}
else
{
fhirImplementationGuide.Status = ConformanceResourceStatus.Draft;
}
// Package
FhirImplementationGuide.ImplementationGuidePackageComponent package = new FhirImplementationGuide.ImplementationGuidePackageComponent();
package.Name = "Profiles in this Implementation Guide";
fhirImplementationGuide.Package.Add(package);
if (summaryType == null || summaryType == SummaryType.Data)
{
List <Template> templates = ig.GetRecursiveTemplates(this.tdb, inferred: false);
var packageResources = (from t in templates
select new FhirImplementationGuide.ImplementationGuidePackageResourceComponent()
{
Purpose = FhirImplementationGuide.GuideResourcePurpose.Profile,
Source = new ResourceReference()
{
Reference = string.Format("StructureDefinition/{0}", t.Id),
Display = t.Name
}
});
package.Resource.AddRange(packageResources);
}
// Page
fhirImplementationGuide.Page = new FhirImplementationGuide.ImplementationGuidePageComponent();
fhirImplementationGuide.Page.Kind = FhirImplementationGuide.GuidePageKind.Page;
fhirImplementationGuide.Page.Name = ig.GetDisplayName();
fhirImplementationGuide.Page.Source = string.Format("{0}://{1}/IG/View/{2}", this.scheme, this.authority, ig.Id);
return(fhirImplementationGuide);
}
public BuildExporter(IObjectRepository tdb, int implementationGuideId, IEnumerable <Template> templates = null, bool jsonFormat = false)
{
this.tdb = tdb;
this.ig = this.tdb.ImplementationGuides.SingleOrDefault(y => y.Id == implementationGuideId);
this.igTypePlugin = this.ig.ImplementationGuideType.GetPlugin();
this.templates = templates ?? this.ig.GetRecursiveTemplates(this.tdb);
this.schema = this.ig.ImplementationGuideType.GetSimpleSchema();
this.igName = this.ig.Name.Replace(" ", "_");
this.controlFileName = "ig.json";
this.JsonFormat = jsonFormat;
this.dataExamples = new DataExamples();
}
public List <VocabularyItemModel> GetValueSets(int implementationGuideId, int?exportFormat = 0)
{
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == implementationGuideId);
switch (exportFormat)
{
case 0:
case 1:
case 2:
return(ConvertVocabularyItems(ig.GetValueSets(this.tdb, true)));
default:
return(ConvertVocabularyItems(ig.GetValueSets(this.tdb)));
}
}
public HttpResponseMessage ExportSchematron(SchematronSettingsModel model)
{
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == model.ImplementationGuideId);
VocabularyOutputType vocOutputType = GetVocOutputType(model.ValueSetOutputFormat);
var templates = (from t in this.tdb.Templates
where model.TemplateIds.Contains(t.Id)
select t).ToList();
string schematronResult = SchematronGenerator.Generate(tdb, ig, model.IncludeCustomSchematron, vocOutputType, model.VocabularyFileName, templates, model.SelectedCategories, model.DefaultSchematron);
byte[] data = ASCIIEncoding.UTF8.GetBytes(schematronResult);
string fileName = string.Format("{0}.sch", ig.GetDisplayName(true));
return(GetExportResponse(fileName, XML_MIME_TYPE, data));
}
public GreenModel Green(int implementationGuideId)
{
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == implementationGuideId);
GreenModel model = new GreenModel()
{
ImplementationGuideId = implementationGuideId,
Name = ig.GetDisplayName()
};
List <TemplateType> rootTemplateTypes = ig.ImplementationGuideType.GetRootTemplateTypes();
model.Templates = (from t in ig.ChildTemplates
join rtt in rootTemplateTypes on t.TemplateTypeId equals rtt.Id
where t.GreenTemplates.Count > 0
select LookupTemplate.ConvertTemplate(t)).ToList();
return(model);
}
public ActionResult Vocabulary(int implementationGuideId)
{
if (!CheckPoint.Instance.GrantViewImplementationGuide(implementationGuideId))
{
throw new AuthorizationException("You do not have permissions to this implementation guide.");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == implementationGuideId);
// Check if we need to rediret the user first
ActionResult redirect = this.BeforeExport(ig, "Vocabulary");
if (redirect != null)
{
return(redirect);
}
return(View("Vocabulary", implementationGuideId));
}
/// <summary>
/// Checks if the authenticated user is from the HL7 organization.
/// If yes, a redirect ActionResult is returned that forwards the user to the HL7 disclaimer page.
/// The action result includes a redirectUrl parameter that tells HL7 to redirect the user back to trifolia.
/// The redirectUrl parameter of the returned ActionResult includes the retAction passed to this method
/// and an implementationGuideId param for the ig.
/// </summary>
private ActionResult BeforeExport(ImplementationGuide ig, string retAction)
{
bool dy = false;
bool.TryParse(Request.Params["dy"], out dy);
// If the user is HL7 authenticated, they must sign a disclaimer before generating the IG
if (CheckPoint.Instance.OrganizationName == "HL7" && !dy)
{
Dictionary <string, string> authData = CheckPoint.Instance.GetAuthenticatedData();
string userId = authData["UserId"];
string url = HL7AuthHelper.GetComplianceUrl(
Url.Action(retAction, "Export", new { implementationGuideId = ig.Id, dy = true }, Request.Url.Scheme),
userId,
ig.Name);
return(Redirect(url));
}
return(null);
}
public HttpResponseMessage ExportGreen(GreenSettingsModel model)
{
if (!CheckPoint.Instance.GrantViewImplementationGuide(model.ImplementationGuideId))
{
throw new AuthorizationException("You do not have permissions to this implementation guide.");
}
ImplementationGuide ig = this.tdb.ImplementationGuides.Single(y => y.Id == model.ImplementationGuideId);
Template rootTemplate = this.tdb.Templates.Single(y => y.Id == model.RootTemplateId);
// Generate the schema
GreenSchemaPackage package = GreenSchemaGenerator.Generate(this.tdb, rootTemplate, model.SeparateDataTypes);
using (ZipFile zip = new ZipFile())
{
byte[] schemaContentBytes = ASCIIEncoding.UTF8.GetBytes(package.GreenSchemaContent);
zip.AddEntry(package.GreenSchemaFileName, schemaContentBytes);
// If the datatypes were separated into another schema
if (!string.IsNullOrEmpty(package.DataTypesFileName))
{
byte[] dataTypesContentBytes = ASCIIEncoding.UTF8.GetBytes(package.DataTypesContent);
zip.AddEntry(package.DataTypesFileName, dataTypesContentBytes);
}
using (MemoryStream ms = new MemoryStream())
{
zip.Save(ms);
string packageFileName = string.Format("{0}_green.zip", ig.GetDisplayName(true));
byte[] data = ms.ToArray();
return(GetExportResponse(packageFileName, ZIP_MIME_TYPE, data));
}
}
}
public string[] GetValueSetOidsForImplementationGuide(int implementationGuideId)
{
try
{
TDBImplementationGuide ig = tdb.ImplementationGuides.SingleOrDefault(y => y.Id == implementationGuideId);
if (ig == null)
{
throw new Exception("Could not find ImplementationGuide specified.");
}
List <Template> templates = ig.GetRecursiveTemplates(tdb);
return((from t in templates
join tc in tdb.TemplateConstraints on t.Id equals tc.TemplateId
join vs in tdb.ValueSets on tc.ValueSetId equals vs.Id
where tc.ValueSetId != null
select vs).Distinct().Select(vs => vs.Oid).ToArray());
}
catch (Exception ex)
{
Log.For(this).Critical("Error occurred while retrieving valueset oids for an implementation guide.", ex);
throw;
}
}
public ImplementationGuide Convert(FhirImplementationGuide fhirImplementationGuide, ImplementationGuide implementationGuide)
{
if (implementationGuide == null)
{
implementationGuide = new ImplementationGuide()
{
ImplementationGuideType = this.implementationGuideType
}
}
;
if (implementationGuide.Name != fhirImplementationGuide.Name)
{
implementationGuide.Name = fhirImplementationGuide.Name;
}
if (fhirImplementationGuide.Package != null)
{
foreach (var package in fhirImplementationGuide.Package)
{
foreach (var resource in package.Resource)
{
if (resource.Source is ResourceReference)
{
}
else
{
throw new Exception("Only resource references are supported by ImplementationGuide.resource");
}
}
}
}
return(implementationGuide);
}
}
public Template Convert(StructureDefinition strucDef, Template template = null)
{
if (string.IsNullOrEmpty(strucDef.ConstrainedType))
{
throw new Exception("StructureDefinition.constrainedType is required");
}
if (template == null)
{
ImplementationGuide unassignedImplementationGuide = this.tdb.ImplementationGuides.SingleOrDefault(y =>
y.Name == DSTU2Helper.DEFAULT_IG_NAME &&
y.ImplementationGuideTypeId == this.implementationGuideType.Id);
if (unassignedImplementationGuide == null)
{
unassignedImplementationGuide = new ImplementationGuide()
{
Name = DSTU2Helper.DEFAULT_IG_NAME,
ImplementationGuideType = this.implementationGuideType
};
this.tdb.ImplementationGuides.Add(unassignedImplementationGuide);
}
template = new Template()
{
OwningImplementationGuide = unassignedImplementationGuide,
ImplementationGuideType = this.implementationGuideType,
Author = this.tdb.Users.Single(y => y.UserName == DSTU2Helper.DEFAULT_USER_NAME),
IsOpen = true
};
}
// Name
if (template.Name != strucDef.Name)
{
template.Name = strucDef.Name;
}
// Descrition
if (template.Description != strucDef.Description)
{
template.Description = strucDef.Description;
}
// Identifier -> Oid
string identifier = strucDef.Url;
if (string.IsNullOrEmpty(identifier))
{
identifier = string.Format(DSTU2Helper.STRUCDEF_NEW_IDENTIFIER_FORMAT, Guid.NewGuid());
}
if (template.Oid != identifier)
{
template.Oid = identifier;
}
// ConstrainedType -> Template Type
TemplateType templateType = this.tdb.TemplateTypes.SingleOrDefault(y =>
y.ImplementationGuideTypeId == this.implementationGuideType.Id &&
y.RootContextType == strucDef.ConstrainedType);
if (templateType == null)
{
throw new Exception("Could not find Template Type for " + strucDef.ConstrainedType);
}
if (template.TemplateType != templateType)
{
template.TemplateType = templateType;
}
if (template.PrimaryContext != template.TemplateType.RootContext)
{
template.PrimaryContext = template.TemplateType.RootContext;
}
if (template.PrimaryContextType != template.TemplateType.RootContextType)
{
template.PrimaryContextType = template.TemplateType.RootContextType;
}
// Bookmark
template.Bookmark = Template.GenerateBookmark(template.Name, template.TemplateType.Name.ToUpper());
if (strucDef.Snapshot != null && strucDef.Differential == null)
{
throw new Exception("Trifolia does not support snapshots for DSTU2, yet");
}
// Differential.Element -> Constraint
if (strucDef.Differential != null)
{
// Remove all current constraints from the template so that we re-create
foreach (var cc in template.ChildConstraints.ToList())
{
this.tdb.TemplateConstraints.Remove(cc);
}
ElementNavigator navigator = new ElementNavigator(strucDef.Differential.Element);
TemplateConstraint current = null;
if (navigator.MoveToFirstChild() && navigator.MoveToFirstChild())
{
while (true)
{
if (navigator.Current.Slicing != null)
{
if (!navigator.MoveToNext())
{
if (current != null && current.ParentConstraint != null && navigator.MoveToParent())
{
current = current.ParentConstraint;
}
else
{
break;
}
}
continue;
}
TemplateConstraint next = new TemplateConstraint();
next.Context = navigator.PathName;
next.ParentConstraint = current;
next.Order = current != null?current.ChildConstraints.Count() : template.ChildConstraints.Count(y => y.ParentConstraint == null);
if (navigator.Elements.Any(y => y.Path == navigator.Path && y.Slicing != null))
{
next.IsBranch = true;
}
template.ChildConstraints.Add(next);
string cardinality = string.Format("{0}..{1}",
navigator.Current.Min == null ? 0 : navigator.Current.Min,
string.IsNullOrEmpty(navigator.Current.Max) ? "*" : navigator.Current.Max);
if (next.Cardinality != cardinality)
{
next.Cardinality = cardinality;
}
string conformance = cardinality.StartsWith("1") ? "SHALL" : "SHOULD";
if (next.Conformance != conformance)
{
next.Conformance = conformance;
}
if (navigator.MoveToFirstChild())
{
current = next;
continue;
}
else if (navigator.MoveToNext())
{
continue;
}
else if (navigator.MoveToParent() && navigator.MoveToNext())
{
current = current.ParentConstraint;
continue;
}
else
{
break;
}
}
}
}
return(template);
}
public byte[] GetImplementationGuideVocabularySpreadsheet(int implementationGuideId, int maxValueSetMembers)
{
try
{
TDBImplementationGuide ig = tdb.ImplementationGuides.SingleOrDefault(y => y.Id == implementationGuideId);
if (ig == null)
{
throw new Exception("Could not find ImplementationGuide specified.");
}
List <ImplementationGuideValueSet> valueSets = ig.GetValueSets(tdb);
using (MemoryStream ms = new MemoryStream())
{
SpreadsheetDocument spreadsheet = SpreadsheetDocument.Create(ms, SpreadsheetDocumentType.Workbook, true);
WorkbookPart workbookpart = spreadsheet.AddWorkbookPart();
workbookpart.Workbook = new Workbook();
workbookpart.Workbook.AppendChild <Sheets>(new Sheets());
Worksheet sheet1 = CreateWorksheet(workbookpart.Workbook, "Affected Value Sets");
SheetData sheet1Data = sheet1.GetFirstChild <SheetData>();
Worksheet sheet2 = CreateWorksheet(workbookpart.Workbook, "Value Set Members");
SheetData sheet2Data = sheet2.GetFirstChild <SheetData>();
int sheet1Count = 2;
int sheet2Count = 2;
// Sheet 1 column widths
Columns sheet1Cols = new Columns(
new Column()
{
Min = 1,
Max = 1,
Width = 56,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
},
new Column()
{
Min = 2,
Max = 2,
Width = 38,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
});
sheet1.InsertBefore <Columns>(sheet1Cols, sheet1Data);
// Sheet 2 column widths
Columns sheet2Cols = new Columns(
new Column()
{
Min = 1,
Max = 1,
Width = 32,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
},
new Column()
{
Min = 2,
Max = 2,
Width = 51,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
},
new Column()
{
Min = 3,
Max = 3,
Width = 26,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
},
new Column()
{
Min = 4,
Max = 4,
Width = 39,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
},
new Column()
{
Min = 5,
Max = 5,
Width = 23,
BestFit = BooleanValue.FromBoolean(true),
CustomWidth = BooleanValue.FromBoolean(true)
});
sheet2.InsertBefore <Columns>(sheet2Cols, sheet2Data);
// Add headers
sheet1Data.AppendChild(
new Row(
new Cell(
new CellValue("Value Set Name"))
{
CellReference = "A1",
DataType = CellValues.String
},
new Cell(
new CellValue("Value Set OID"))
{
CellReference = "B1",
DataType = CellValues.String
})
{
RowIndex = 1
});
sheet2Data.AppendChild(
new Row(
new Cell(
new CellValue("Value Set OID"))
{
CellReference = "A1",
DataType = CellValues.String
},
new Cell(
new CellValue("Value Set Name"))
{
CellReference = "B1",
DataType = CellValues.String
},
new Cell(
new CellValue("Code"))
{
CellReference = "C1",
DataType = CellValues.String
},
new Cell(
new CellValue("Display Name"))
{
CellReference = "D1",
DataType = CellValues.String
},
new Cell(
new CellValue("Code System Name"))
{
CellReference = "E1",
DataType = CellValues.String
})
{
RowIndex = 1
});
for (int x = 0; x < valueSets.Count; x++)
{
var cValueSet = valueSets[x];
string summaryXml = string.Format(
"<row r=\"{0}\" xmlns=\"http://schemas.openxmlformats.org/spreadsheetml/2006/main\">" +
" <c r=\"A{0}\" t=\"str\"><v>{1}</v></c>" +
" <c r=\"B{0}\" t=\"str\"><v>{2}</v></c>" +
"</row>",
sheet1Count++,
XmlEncodeText(cValueSet.ValueSet.Name),
XmlEncodeText(cValueSet.ValueSet.Oid));
Row newSummaryRow = new Row(summaryXml);
sheet1Data.AppendChild(newSummaryRow);
List <ValueSetMember> members = cValueSet.ValueSet.GetActiveMembers(cValueSet.BindingDate);
for (int i = 0; i < members.Count && (maxValueSetMembers == 0 || i < maxValueSetMembers); i++)
{
var cMember = members[i];
string memberXml = string.Format(
"<row r=\"{0}\" xmlns=\"http://schemas.openxmlformats.org/spreadsheetml/2006/main\">" +
" <c r=\"A{0}\" t=\"str\"><v>{1}</v></c>" +
" <c r=\"B{0}\" t=\"str\"><v>{2}</v></c>" +
" <c r=\"C{0}\" t=\"str\"><v>{3}</v></c>" +
" <c r=\"D{0}\" t=\"str\"><v>{4}</v></c>" +
" <c r=\"E{0}\" t=\"str\"><v>{5}</v></c>" +
"</row>",
sheet2Count++,
XmlEncodeText(cValueSet.ValueSet.Oid),
XmlEncodeText(cValueSet.ValueSet.Name),
XmlEncodeText(cMember.Code),
XmlEncodeText(cMember.DisplayName),
XmlEncodeText(cMember.CodeSystem.Name));
Row newMemberRow = new Row(memberXml);
sheet2Data.AppendChild(newMemberRow);
}
}
workbookpart.Workbook.Save();
spreadsheet.Close();
ms.Position = 0;
byte[] buffer = new byte[ms.Length];
ms.Read(buffer, 0, (int)ms.Length);
return(buffer);
}
}
catch (Exception ex)
{
Log.For(this).Critical("Error occurred while generating spreadsheet for IG vocabulary", ex);
throw;
}
}
public FhirImplementationGuide Convert(ImplementationGuide ig, SummaryType?summaryType = null, bool includeVocabulary = true)
{
var parserSettings = new fhir_latest.Hl7.Fhir.Serialization.ParserSettings();
parserSettings.AcceptUnknownMembers = true;
parserSettings.AllowUnrecognizedEnums = true;
parserSettings.DisallowXsiAttributesOnRoot = false;
var fhirXmlParser = new FhirXmlParser(parserSettings);
var fhirJsonParser = new FhirJsonParser(parserSettings);
string url = string.Format("ImplementationGuide/{0}", ig.Id);
if (!string.IsNullOrEmpty(ig.Identifier) && (ig.Identifier.StartsWith("http://") || ig.Identifier.StartsWith("https://")))
{
url = ig.Identifier.TrimEnd('/') + "/" + url.TrimStart('/');
}
var fhirImplementationGuide = new FhirImplementationGuide()
{
Id = ig.Id.ToString(),
Name = ig.Name,
Url = url
};
// Status
if (ig.PublishStatus == PublishStatus.GetPublishedStatus(this.tdb))
{
fhirImplementationGuide.Status = PublicationStatus.Active;
}
else if (ig.PublishStatus == PublishStatus.GetRetiredStatus(this.tdb) || ig.PublishStatus == PublishStatus.GetDeprecatedStatus(this.tdb))
{
fhirImplementationGuide.Status = PublicationStatus.Retired;
}
else
{
fhirImplementationGuide.Status = PublicationStatus.Draft;
}
if (summaryType == null || summaryType == SummaryType.Data)
{
// Package
FhirImplementationGuide.PackageComponent package = new FhirImplementationGuide.PackageComponent();
package.Name = "Profiles in this Implementation Guide";
fhirImplementationGuide.Package.Add(package);
// Page: Create a page for the implementation guide. This is required by the fhir ig publisher
fhirImplementationGuide.Page = new FhirImplementationGuide.PageComponent();
fhirImplementationGuide.Page.Kind = FhirImplementationGuide.GuidePageKind.Page;
fhirImplementationGuide.Page.Title = ig.GetDisplayName();
fhirImplementationGuide.Page.Source = string.Format("{0}://{1}/IG/View/{2}", this.scheme, this.authority, ig.Id);
// Add profiles to the implementation guide
List <Template> templates = ig.GetRecursiveTemplates(this.tdb, inferred: false);
var profileResources = (from t in templates.OrderBy(y => y.ImpliedTemplateId)
select new FhirImplementationGuide.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("StructureDefinition/{0}", t.FhirId()),
Display = t.Name
}
});
package.Resource.AddRange(profileResources);
if (includeVocabulary)
{
// Add value sets to the implementation guide
var valueSetsIds = (from t in templates
join tc in this.tdb.TemplateConstraints.AsNoTracking() on t.Id equals tc.TemplateId
where tc.ValueSetId != null
select tc.ValueSetId)
.Distinct()
.ToList();
var valueSets = (from vs in this.tdb.ValueSets
join vsi in valueSetsIds on vs.Id equals vsi
select vs).ToList();
var valueSetResources = (from vs in valueSets
where vs.GetIdentifier() != null && !vs.GetIdentifier().StartsWith("http://hl7.org/fhir/ValueSet/") // Ignore value sets in the base spec
select new FhirImplementationGuide.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("ValueSet/{0}", vs.GetFhirId()),
Display = vs.Name
}
});
package.Resource.AddRange(valueSetResources);
}
// Add each of the individual FHIR resources added as files to the IG
foreach (var file in ig.Files)
{
var fileData = file.GetLatestData();
Resource resource = null;
try
{
string fileContent = System.Text.Encoding.UTF8.GetString(fileData.Data);
if (file.MimeType == "application/xml" || file.MimeType == "text/xml")
{
resource = fhirXmlParser.Parse <Resource>(fileContent);
}
else if (file.MimeType == "application/json")
{
resource = fhirJsonParser.Parse <Resource>(fileContent);
}
}
catch
{
}
if (resource == null || string.IsNullOrEmpty(resource.Id))
{
continue;
}
var packageFile = new FhirImplementationGuide.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("{0}/{1}", resource.ResourceType, resource.Id),
Display = GetResourceName(resource, file.FileName)
}
};
package.Resource.Add(packageFile);
}
// Add each of the samples generated for the template/profile
var templateExamples = (from t in templates
join ts in this.tdb.TemplateSamples on t.Id equals ts.TemplateId
select new { Template = t, Sample = ts });
foreach (var templateExample in templateExamples)
{
Resource resource = null;
try
{
resource = fhirXmlParser.Parse <Resource>(templateExample.Sample.XmlSample);
}
catch
{
}
try
{
if (resource == null)
{
resource = fhirJsonParser.Parse <Resource>(templateExample.Sample.XmlSample);
}
}
catch
{
}
if (resource == null || string.IsNullOrEmpty(resource.Id))
{
continue;
}
var packageExample = new FhirImplementationGuide.ResourceComponent()
{
Example = true,
Source = new ResourceReference()
{
Reference = string.Format("{0}/{1}", resource.ResourceType, resource.Id),
Display = GetResourceName(resource, templateExample.Sample.Name)
},
ExampleFor = new ResourceReference()
{
Reference = string.Format("StructureDefinition/{0}", templateExample.Template.Bookmark),
Display = templateExample.Template.Name
}
};
package.Resource.Add(packageExample);
}
}
return(fhirImplementationGuide);
}
private void SetProperties(ImplementationGuide ig)
{
}
public HttpResponseMessage Export(ExportSettingsModel model)
{
ImplementationGuide ig = this.tdb.ImplementationGuides.SingleOrDefault(y => y.Id == model.ImplementationGuideId);
if (model.TemplateIds == null)
{
model.TemplateIds = ig.GetRecursiveTemplates(this.tdb, categories: model.SelectedCategories.ToArray()).Select(y => y.Id).ToList();
}
List <Template> templates = this.tdb.Templates.Where(y => model.TemplateIds.Contains(y.Id)).ToList();
SimpleSchema schema = SimplifiedSchemaContext.GetSimplifiedSchema(HttpContext.Current.Application, ig.ImplementationGuideType);
IIGTypePlugin igTypePlugin = IGTypePluginFactory.GetPlugin(ig.ImplementationGuideType);
IGSettingsManager igSettings = new IGSettingsManager(this.tdb, model.ImplementationGuideId);
bool isCDA = ig.ImplementationGuideType.SchemaURI == "urn:hl7-org:v3";
string fileName;
byte[] export;
string contentType = null;
switch (model.ExportFormat)
{
case ExportFormats.FHIR_Build_Package:
case ExportFormats.FHIR_Bundle:
case ExportFormats.Native_XML:
case ExportFormats.Templates_DSTU_XML:
string fileExtension = model.ReturnJson ? "json" : "xml";
contentType = model.ReturnJson ? JSON_MIME_TYPE : XML_MIME_TYPE;
if (model.ExportFormat == ExportFormats.FHIR_Build_Package)
{
fileExtension = "zip";
contentType = ZIP_MIME_TYPE;
}
fileName = string.Format("{0}.{1}", ig.GetDisplayName(true), fileExtension);
var pluginExporter = igTypePlugin.GetExporter();
export = pluginExporter.Export(this.tdb, schema, model.ExportFormat, igSettings, model.SelectedCategories, templates, model.IncludeVocabulary, model.ReturnJson);
break;
case ExportFormats.Snapshot_JSON:
ImplementationGuideController ctrl = new ImplementationGuideController(this.tdb);
var dataModel = ctrl.GetViewData(model.ImplementationGuideId, null, null, true);
// Serialize the data to JSON
var jsonSerializer = new System.Web.Script.Serialization.JavaScriptSerializer();
jsonSerializer.MaxJsonLength = Int32.MaxValue;
export = System.Text.Encoding.UTF8.GetBytes(jsonSerializer.Serialize(dataModel));
// Set the filename to JSON
fileName = string.Format("{0}.json", ig.GetDisplayName(true));
contentType = JSON_MIME_TYPE;
break;
case ExportFormats.Microsoft_Word_DOCX:
ImplementationGuideGenerator generator = new ImplementationGuideGenerator(this.tdb, model.ImplementationGuideId, model.TemplateIds);
fileName = string.Format("{0}.docx", ig.GetDisplayName(true));
ExportSettings lConfig = new ExportSettings();
lConfig.Use(c =>
{
c.GenerateTemplateConstraintTable = model.TemplateTables == TemplateTableOptions.ConstraintOverview || model.TemplateTables == TemplateTableOptions.Both;
c.GenerateTemplateContextTable = model.TemplateTables == TemplateTableOptions.Context || model.TemplateTables == TemplateTableOptions.Both;
c.GenerateDocTemplateListTable = model.DocumentTables == DocumentTableOptions.List || model.DocumentTables == DocumentTableOptions.Both;
c.GenerateDocContainmentTable = model.DocumentTables == DocumentTableOptions.Containment || model.DocumentTables == DocumentTableOptions.Both;
c.AlphaHierarchicalOrder = model.TemplateSortOrder == TemplateSortOrderOptions.AlphaHierarchically;
c.DefaultValueSetMaxMembers = model.ValueSetTables ? model.MaximumValueSetMembers : 0;
c.GenerateValueSetAppendix = model.ValueSetAppendix;
c.IncludeXmlSamples = model.IncludeXmlSample;
c.IncludeChangeList = model.IncludeChangeList;
c.IncludeTemplateStatus = model.IncludeTemplateStatus;
c.IncludeNotes = model.IncludeNotes;
c.IncludeVolume1 = model.IncludeVolume1;
c.SelectedCategories = model.SelectedCategories;
c.GenerateRequiredAndOptionalSectionsTable = model.GenerateRequiredAndOptionalSectionsTable;
c.DocumentTemplateTypeId = model.DocumentTemplateTypeId;
c.SectionTemplateTypeId = model.SectionTemplateTypeId;
});
if (model.ValueSetOid != null && model.ValueSetOid.Count > 0)
{
Dictionary <string, int> valueSetMemberMaximums = new Dictionary <string, int>();
for (int i = 0; i < model.ValueSetOid.Count; i++)
{
if (valueSetMemberMaximums.ContainsKey(model.ValueSetOid[i]))
{
continue;
}
valueSetMemberMaximums.Add(model.ValueSetOid[i], model.ValueSetMaxMembers[i]);
}
lConfig.ValueSetMaxMembers = valueSetMemberMaximums;
}
generator.BuildImplementationGuide(lConfig, ig.ImplementationGuideType.GetPlugin());
export = generator.GetDocument();
contentType = DOCX_MIME_TYPE;
break;
case ExportFormats.Schematron_SCH:
string schematronResult = SchematronGenerator.Generate(tdb, ig, model.IncludeCustomSchematron, VocabularyOutputType.Default, model.VocabularyFileName, templates, model.SelectedCategories, model.DefaultSchematron);
export = ASCIIEncoding.UTF8.GetBytes(schematronResult);
fileName = string.Format("{0}.sch", ig.GetDisplayName(true));
contentType = XML_MIME_TYPE;
if (model.IncludeVocabulary)
{
using (ZipFile zip = new ZipFile())
{
zip.AddEntry(fileName, export);
NativeTerminologyExporter nativeTermExporter = new NativeTerminologyExporter(this.tdb);
byte[] vocData = nativeTermExporter.GetExport(ig.Id, model.MaximumValueSetMembers, this.GetExportEncoding(model));
string vocFileName = string.Format("{0}", model.VocabularyFileName);
//Ensuring the extension is present in case input doesn't have it
if (vocFileName.IndexOf(".xml") == -1)
{
vocFileName += ".xml";
}
zip.AddEntry(vocFileName, vocData);
using (MemoryStream ms = new MemoryStream())
{
zip.Save(ms);
fileName = string.Format("{0}.zip", ig.GetDisplayName(true));
contentType = ZIP_MIME_TYPE;
export = ms.ToArray();
}
}
}
break;
case ExportFormats.Vocabulary_XLSX:
fileName = string.Format("{0}.xlsx", ig.GetDisplayName(true));
contentType = XLSX_MIME_TYPE;
ExcelExporter excelExporter = new ExcelExporter(this.tdb);
export = excelExporter.GetSpreadsheet(ig.Id, model.MaximumValueSetMembers);
break;
case ExportFormats.Vocbulary_Single_SVS_XML:
fileName = string.Format("{0}_SingleSVS.xml", ig.GetDisplayName(true));
contentType = XML_MIME_TYPE;
SingleSVSExporter ssvsExporter = new SingleSVSExporter(this.tdb);
export = ssvsExporter.GetExport(ig.Id, model.MaximumValueSetMembers, this.GetExportEncoding(model));
break;
case ExportFormats.Vocabulary_Multiple_SVS_XML:
fileName = string.Format("{0}_MultipleSVS.xml", ig.GetDisplayName(true));
contentType = XML_MIME_TYPE;
MultipleSVSExporter msvsExporter = new MultipleSVSExporter(this.tdb);
export = msvsExporter.GetExport(ig.Id, model.MaximumValueSetMembers, this.GetExportEncoding(model));
break;
case ExportFormats.Vocabulary_Native_XML:
fileName = string.Format("{0}_MultipleSVS.xml", ig.GetDisplayName(true));
contentType = XML_MIME_TYPE;
NativeTerminologyExporter nativeExporter = new NativeTerminologyExporter(this.tdb);
export = nativeExporter.GetExport(ig.Id, model.MaximumValueSetMembers, this.GetExportEncoding(model));
break;
case ExportFormats.Web_HTML:
// Get the data from the API controller
HtmlExporter exporter = new HtmlExporter(this.tdb);
var templateIds = templates.Select(y => y.Id).ToArray();
var htmlDataModel = exporter.GetExportData(ig.Id, null, templateIds, model.IncludeInferred);
IGController igController = new IGController(this.tdb);
var downloadPackage = igController.GetDownloadPackage(ig, JsonConvert.SerializeObject(htmlDataModel));
export = downloadPackage.Content;
fileName = downloadPackage.FileName;
contentType = ZIP_MIME_TYPE;
break;
case ExportFormats.Vocbulary_Bundle_FHIR_XML:
ValueSetExporter vsExporter = new ValueSetExporter(this.tdb);
var bundle = vsExporter.GetImplementationGuideValueSets(ig);
if (model.ReturnJson)
{
export = fhir_stu3.Hl7.Fhir.Serialization.FhirSerializer.SerializeResourceToJsonBytes(bundle);
fileName = string.Format("{0}_fhir_voc.json", ig.GetDisplayName(true));
contentType = JSON_MIME_TYPE;
}
else
{
export = fhir_stu3.Hl7.Fhir.Serialization.FhirSerializer.SerializeResourceToXmlBytes(bundle);
fileName = string.Format("{0}_fhir_voc.xml", ig.GetDisplayName(true));
contentType = XML_MIME_TYPE;
}
break;
default:
throw new NotSupportedException();
}
return(GetExportResponse(fileName, contentType, export));
}
public FhirImplementationGuide Convert(ImplementationGuide ig, SummaryType?summaryType = null, bool includeVocabulary = true)
{
var fhirImplementationGuide = new FhirImplementationGuide()
{
Id = ig.Id.ToString(),
Name = ig.Name,
Url = string.Format("ImplementationGuide/{0}", ig.Id)
};
// Status
if (ig.PublishStatus == PublishStatus.GetPublishedStatus(this.tdb))
{
fhirImplementationGuide.Status = ConformanceResourceStatus.Active;
}
else if (ig.PublishStatus == PublishStatus.GetRetiredStatus(this.tdb) || ig.PublishStatus == PublishStatus.GetDeprecatedStatus(this.tdb))
{
fhirImplementationGuide.Status = ConformanceResourceStatus.Retired;
}
else
{
fhirImplementationGuide.Status = ConformanceResourceStatus.Draft;
}
if (summaryType == null || summaryType == SummaryType.Data)
{
// Package
FhirImplementationGuide.PackageComponent package = new FhirImplementationGuide.PackageComponent();
package.Name = "Profiles in this Implementation Guide";
fhirImplementationGuide.Package.Add(package);
// Page: Create a page for the implementation guide. This is required by the fhir ig publisher
fhirImplementationGuide.Page = new FhirImplementationGuide.PageComponent();
fhirImplementationGuide.Page.Kind = FhirImplementationGuide.GuidePageKind.Page;
fhirImplementationGuide.Page.Title = ig.GetDisplayName();
fhirImplementationGuide.Page.Source = string.Format("{0}://{1}/IG/View/{2}", this.scheme, this.authority, ig.Id);
// Add profiles to the implementation guide
List <Template> templates = ig.GetRecursiveTemplates(this.tdb, inferred: false);
var profileResources = (from t in templates
select new FhirImplementationGuide.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("StructureDefinition/{0}", t.FhirId()),
Display = t.Name
}
});
package.Resource.AddRange(profileResources);
if (includeVocabulary)
{
// Add value sets to the implementation guide
var valueSets = (from t in templates
join tc in this.tdb.TemplateConstraints on t.Id equals tc.TemplateId
where tc.ValueSet != null
select tc.ValueSet).Distinct().ToList();
var valueSetResources = (from vs in valueSets
select new FhirImplementationGuide.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("ValueSet/{0}", vs.Id.ToString()),
Display = vs.Name
}
});
package.Resource.AddRange(valueSetResources);
}
// Add each of the individual FHIR resources added as files to the IG
foreach (var file in ig.Files)
{
var fileData = file.GetLatestData();
Resource resource = null;
try
{
string fileContent = System.Text.Encoding.UTF8.GetString(fileData.Data);
if (file.MimeType == "application/xml" || file.MimeType == "text/xml")
{
resource = FhirParser.ParseResourceFromXml(fileContent);
}
else if (file.MimeType == "application/json")
{
resource = FhirParser.ParseResourceFromJson(fileContent);
}
}
catch
{
}
if (resource == null || string.IsNullOrEmpty(resource.Id))
{
continue;
}
var packageFile = new FhirImplementationGuide.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("{0}/{1}", resource.ResourceType, resource.Id),
Display = GetResourceName(resource, file.FileName)
}
};
package.Resource.Add(packageFile);
}
// Add each of the samples generated for the template/profile
var templateExamples = (from t in templates
join ts in this.tdb.TemplateSamples on t.Id equals ts.TemplateId
select new { Template = t, Sample = ts });
foreach (var templateExample in templateExamples)
{
Resource resource = null;
try
{
resource = FhirParser.ParseResourceFromXml(templateExample.Sample.XmlSample);
}
catch
{
}
try
{
if (resource == null)
{
resource = FhirParser.ParseResourceFromJson(templateExample.Sample.XmlSample);
}
}
catch
{
}
if (resource == null || string.IsNullOrEmpty(resource.Id))
{
continue;
}
var packageExample = new FhirImplementationGuide.ResourceComponent()
{
Example = true,
Source = new ResourceReference()
{
Reference = string.Format("{0}/{1}", resource.ResourceType, resource.Id),
Display = GetResourceName(resource, templateExample.Sample.Name)
}
};
package.Resource.Add(packageExample);
}
}
return(fhirImplementationGuide);
}
public static void SetPreviousVersion(this ImplementationGuide ig, ImplementationGuide previousVersion)
{
ig.PreviousVersion.Add(previousVersion);
ig.PreviousVersionImplementationGuideId = previousVersion.Id;
}