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 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 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);
}
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);
}