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.PackageComponent package = new FhirImplementationGuide.PackageComponent();
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.ResourceComponent()
{
Example = false,
Source = new ResourceReference()
{
Reference = string.Format("StructureDefinition/{0}", t.Id),
Display = t.Name
}
});
package.Resource.AddRange(packageResources);
}
// Page
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);
return(fhirImplementationGuide);
}
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 FhirImplementationGuide Convert(ImplementationGuide ig, SummaryType?summaryType = null, bool includeVocabulary = true)
{
var parserSettings = new fhir_stu3.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 Bundle GetImplementationGuides(SummaryType?summary = null, string include = null, int?implementationGuideId = null, string name = null)
{
// TODO: Should not be using constant string for IG type name to find templates... Not sure how else to identify FHIR DSTU1 templates though
var implementationGuides = this.tdb.ImplementationGuides.Where(y => y.ImplementationGuideTypeId == this.implementationGuideType.Id);
if (!CheckPoint.Instance.IsDataAdmin)
{
User currentUser = CheckPoint.Instance.GetUser(this.tdb);
implementationGuides = (from ig in implementationGuides
join igp in this.tdb.ImplementationGuidePermissions on ig.Id equals igp.UserId
where igp.UserId == currentUser.Id
select ig);
}
if (implementationGuideId != null)
{
implementationGuides = implementationGuides.Where(y => y.Id == implementationGuideId);
}
if (!string.IsNullOrEmpty(name))
{
implementationGuides = implementationGuides.Where(y => y.Name.ToLower().Contains(name.ToLower()));
}
Bundle bundle = new Bundle()
{
Type = Bundle.BundleType.BatchResponse
};
foreach (var ig in implementationGuides)
{
FhirImplementationGuide fhirImplementationGuide = Convert(ig, summary);
// Add the IG before the templates
bundle.AddResourceEntry(fhirImplementationGuide, this.GetFullUrl(ig));
// TODO: Need to implement a more sophisticated approach to parsing "_include"
if (!string.IsNullOrEmpty(include) && include == "ImplementationGuide:resource")
{
List <Template> templates = ig.GetRecursiveTemplates(this.tdb, inferred: true);
/*
* // TODO: Add additional query parameters for indicating parent template ids and categories?
* IGSettingsManager igSettings = new IGSettingsManager(this.tdb, ig.Id);
* string templateBundleXml = FHIRExporter.GenerateExport(this.tdb, templates, igSettings);
* Bundle templateBundle = (Bundle)FhirParser.ParseResourceFromXml(templateBundleXml);
*
* var templateEntries = templateBundle.Entry.Where(y =>
* y.Resource.ResourceType != ResourceType.ImplementationGuide &&
* y.Resource.Id != fhirImplementationGuide.Id);
*
* // TODO: Make sure that if multiple IGs are returned, that there are distinct bundle entries
* // (no duplicate template/profile entries that are referenced by two separate IGs)
* bundle.Entry.AddRange(templateEntries);
*/
StructureDefinitionExporter strucDefExporter = new StructureDefinitionExporter(this.tdb, this.scheme, this.authority);
foreach (var template in templates)
{
var templateSchema = this.schema.GetSchemaFromContext(template.PrimaryContextType);
var strucDef = strucDefExporter.Convert(template, schema);
bundle.AddResourceEntry(strucDef, this.GetFullUrl(template));
}
}
}
return(bundle);
}
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);
}
