/// <summary>
/// Find all entries in a Bundle that match the given reference.
/// </summary>
/// <param name="bundle">Bundle to search in</param>
/// <param name="reference">An absolute reference to match against the fullUrl of the entries in the bundle</param>
/// <param name="includeDeleted">Whether to include deleted entries in the search. Optional.</param>
/// <returns>A list of Resources with the given identity, or an empty list if none were found.</returns>
public static IEnumerable <Bundle.BundleEntryComponent> FindEntry(this Bundle bundle, string reference, bool includeDeleted = false)
{
if (reference == null)
{
throw Error.ArgumentNull("reference");
}
if (bundle.Entry == null)
{
return(Enumerable.Empty <Bundle.BundleEntryComponent>());
}
if (!new Uri(reference, UriKind.RelativeOrAbsolute).IsAbsoluteUri)
{
throw Error.Argument("reference", "uri should be absolute");
}
string referencedVersion = ResourceIdentity.IsRestResourceIdentity(reference) ? (new ResourceIdentity(reference).VersionId) : null;
reference = referencedVersion != null ? (new ResourceIdentity(reference).WithoutVersion().ToString()) : reference;
var refRestUrl = new RestUrl(reference);
var result = bundle.Entry.Where(be => new RestUrl(be.FullUrl).IsSameUrl(refRestUrl) && (includeDeleted == true || !be.IsDeleted()));
if (referencedVersion != null)
{
result = result.Where(be => be.HasResource() && be.Resource.Meta.VersionId == referencedVersion);
}
return(result);
}
public Hl7.Fhir.Model.Resource ResolveByUri(string uri)
{
if (uri == null)
{
throw Error.ArgumentNull(nameof(uri));
}
if (!ResourceIdentity.IsRestResourceIdentity(uri))
{
return(null); // Weakness in FhirClient, need to have the base :-( So return null if we cannot determine it.
}
var id = new ResourceIdentity(uri);
// [WMR 20150810] Use custom FhirClient factory if specified
var client = _clientFactory != null?_clientFactory(id.BaseUri) : new FhirClient(id.BaseUri)
{
Timeout = 5000
};
try
{
var resultResource = client.Read <Resource>(id);
resultResource.SetOrigin(uri);
return(resultResource);
}
catch (FhirOperationException)
{
return(null);
}
catch (WebException)
{
return(null);
}
}
public Hl7.Fhir.Model.Resource LoadConformanceResourceByUrl(string url)
{
if (url == null)
{
throw Error.ArgumentNull("identifier");
}
if (!ResourceIdentity.IsRestResourceIdentity(url))
{
return(null); // Weakness in FhirClient, need to have the base :-( So return null if we cannot determine it.
}
var id = new ResourceIdentity(url);
// [WMR 20150810] Use custom FhirClient factory if specified
var client = _clientFactory != null?_clientFactory(id.BaseUri) : new FhirClient(id.BaseUri)
{
Timeout = 5000
};
try
{
return(client.Read <Resource>(id));
}
catch (FhirOperationException)
{
return(null);
}
catch (WebException)
{
return(null);
}
}
public void TestIsResourceId()
{
Assert.IsTrue(ResourceIdentity.IsRestResourceIdentity("Patient/4"));
Assert.IsTrue(ResourceIdentity.IsRestResourceIdentity("Patient/4/_history/5"));
Assert.IsTrue(ResourceIdentity.IsRestResourceIdentity("http://nu.nl/fhir/Patient/4"));
Assert.IsFalse(ResourceIdentity.IsRestResourceIdentity("http://nu.nl/fhir/crap"));
Assert.IsFalse(ResourceIdentity.IsRestResourceIdentity("x/y/z/4"));
Assert.IsFalse(ResourceIdentity.IsRestResourceIdentity("urn:oid:1.2.3.4.5"));
}
/// <summary>
/// Scan all xml files found by prepareFiles and find conformance resources + their id
/// </summary>
private void prepareResources()
{
if (_resourcesPrepared)
{
return;
}
prepareFiles();
_resourceInformation = new List <ConformanceInformation>();
foreach (var file in _artifactFilePaths.Where(af => Path.GetExtension(af) == ".xml"))
{
if (file.EndsWith("dataelements.xml"))
{
continue; // buggy file
}
try
{
var conformanceResources = readInformationFromFile(file).Where(ci =>
ResourceIdentity.IsRestResourceIdentity(ci.Url) &&
ModelInfo.IsConformanceResource((new ResourceIdentity(ci.Url)).ResourceType));
_resourceInformation.AddRange(conformanceResources);
}
catch (XmlException)
{
throw;
}
}
// Check for duplicate canonical urls, this is forbidden within a single source (and actually, universally,
// but if another source has the same url, the order of polling in the MultiArtifactSource matters)
var doubles = _resourceInformation.Where(ci => ci.Url != null).GroupBy(ci => ci.Url).Where(group => group.Count() > 1);
if (doubles.Any())
{
throw Error.InvalidOperation("The source has found multiple Conformance Resource artifacts with the same canonical url: {0} appears at {1}"
.FormatWith(doubles.First().Key, String.Join(", ", doubles.First().Select(hit => hit.Origin))));
}
_resourcesPrepared = true;
}
public Resource ResolveByUri(string uri)
{
if (uri == null)
{
throw Error.ArgumentNull(nameof(uri));
}
if (!ResourceIdentity.IsRestResourceIdentity(uri))
{
// Weakness in FhirClient, need to have the base :-( So return null if we cannot determine it.
return(null);
}
var id = new ResourceIdentity(uri);
var client = _clientFactory?.Invoke(id.BaseUri)
?? new FhirClient(id.BaseUri)
{
Timeout = this.TimeOut
};
client.ParserSettings = this.ParserSettings;
try
{
var resultResource = client.Read <Resource>(id);
resultResource.SetOrigin(uri);
LastError = null;
return(resultResource);
}
catch (FhirOperationException foe)
{
LastError = foe;
return(null);
}
catch (WebException we)
{
LastError = we;
return(null);
}
// Other runtime exceptions are fatal...
}
public static bool IsTargetOf(this Bundle.BundleEntryComponent entry, string reference)
{
// From the spec: If the reference is version specific (either relative or absolute), then remove the version from the URL
// before matching fullUrl, and then match the version based on Resource.meta.versionId.
if (reference == null)
{
throw Error.ArgumentNull("reference");
}
if (!new Uri(reference, UriKind.RelativeOrAbsolute).IsAbsoluteUri)
{
throw Error.Argument("reference", "uri should be absolute");
}
string referencedVersion = ResourceIdentity.IsRestResourceIdentity(reference) ? (new ResourceIdentity(reference).VersionId) : null;
reference = referencedVersion != null ? (new ResourceIdentity(reference).WithoutVersion().ToString()) : reference;
var refRestUrl = new RestUrl(reference);
return(refRestUrl.IsSameUrl(new RestUrl(entry.FullUrl)) &&
(referencedVersion == null || (entry.HasResource() && entry.Resource.VersionId == referencedVersion)));
}
// Process request and craft response.
public override CefReturnValue ProcessRequestAsync(IRequest request, ICallback callback)
{
if (request.Method == "OPTIONS")
{
// This is the CORS request, and that's good
base.StatusCode = 200;
// base.Headers.Add("Access-Control-Allow-Origin", "*");
base.Headers.Add("Access-Control-Allow-Methods", "GET,POST,PUT,OPTIONS");
base.Headers.Add("Access-Control-Allow-Headers", "Content-Type, Accept, authorization");
callback.Continue();
return(CefReturnValue.Continue);
}
var uri = new Uri(request.Url);
Console.WriteLine($"-----------------\r\n{request.Url}");
// Check the bearer header
if (!string.IsNullOrEmpty(_launchContext.Bearer))
{
string bearer = request.GetHeaderByName("authorization");
if (bearer != "Bearer " + _launchContext.Bearer)
{
base.StatusCode = (int)HttpStatusCode.Unauthorized;
callback.Continue();
return(CefReturnValue.Continue);
}
}
try
{
// This is a regular request
Hl7.Fhir.Rest.FhirClient server = new Hl7.Fhir.Rest.FhirClient("http://localhost:4178");
server.OnAfterResponse += (sender, args) =>
{
base.Charset = args.RawResponse.CharacterSet;
foreach (string header in args.RawResponse.Headers.AllKeys)
{
base.Headers.Add(header, args.RawResponse.Headers[header]);
}
};
server.PreferredFormat = Hl7.Fhir.Rest.ResourceFormat.Json;
string redirectedUrl = server.Endpoint.OriginalString.TrimEnd('/') + uri.PathAndQuery;
System.Diagnostics.Trace.WriteLine($"{redirectedUrl}");
var headers = new List <KeyValuePair <string, IEnumerable <string> > >();
ModelBaseInputs <IServiceProvider> requestDetails = new ModelBaseInputs <IServiceProvider>(null, null, request.Method, uri, new Uri($"https://{AuthProtocolSchemeHandlerFactory.FhirFacadeAddress(_launchContext)}"), null, headers, null);
if (request.Method == "GET")
{
if (uri.LocalPath == "/metadata")
{
_facade.GetConformance(requestDetails, Rest.SummaryType.False).ContinueWith <CapabilityStatement>(r =>
{
if (r.Exception != null)
{
System.Diagnostics.Trace.WriteLine($"Error: {r.Exception.Message}");
if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
{
base.StatusCode = (int)fe.Status;
if (fe.Outcome != null)
{
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(fe.Outcome));
base.MimeType = "application/fhir+json";
}
callback.Continue();
System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
return(null);
}
}
base.StatusCode = 200;
// As per the documentation http://hl7.org/fhir/smart-app-launch/conformance/index.html
CapabilityStatement cs = r.Result;
// Update the security node with our internal security node
if (cs.Rest[0].Security == null)
{
cs.Rest[0].Security = new Hl7.Fhir.Model.CapabilityStatement.SecurityComponent();
}
Hl7.Fhir.Model.CapabilityStatement.SecurityComponent security = cs.Rest[0].Security;
if (!security.Service.Any(cc => cc.Coding.Any(c => c.System == "http://hl7.org/fhir/restful-security-service" && c.Code == "SMART-on-FHIR")))
{
security.Service.Add(new Hl7.Fhir.Model.CodeableConcept("http://hl7.org/fhir/restful-security-service", "SMART-on-FHIR"));
}
var extension = security.GetExtension("http://fhir-registry.smarthealthit.org/StructureDefinition/oauth-uris");
if (extension == null)
{
extension = new Extension()
{
Url = "http://fhir-registry.smarthealthit.org/StructureDefinition/oauth-uris"
};
security.Extension.Add(extension);
}
// remove the existing authentications, and put in our own
extension.Extension.Clear();
extension.AddExtension("token", new FhirUri($"https://{AuthProtocolSchemeHandlerFactory.AuthAddress(_launchContext)}/token"));
extension.AddExtension("authorize", new FhirUri($"https://{AuthProtocolSchemeHandlerFactory.AuthAddress(_launchContext)}/authorize"));
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(r.Result));
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = "application/fhir+json";
callback.Continue();
return(r.Result);
});
return(CefReturnValue.ContinueAsync);
}
if (!uri.LocalPath.StartsWith("/$") && !uri.LocalPath.StartsWith("/_") && uri.LocalPath.Length > 2)
{
// This is not an operation or history, so it must be a resource type
string resourceType = uri.LocalPath.Substring(1);
if (resourceType.Contains("/"))
{
resourceType = resourceType.Substring(0, resourceType.IndexOf("/"));
}
var rs = _facade.GetResourceService(requestDetails, resourceType);
if (rs == null)
{
System.Diagnostics.Trace.WriteLine($"Error: resource type not handled {resourceType}");
base.StatusCode = (int)HttpStatusCode.BadRequest;
// base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings() { Pretty = true }).SerializeToBytes(fe.Outcome));
// base.MimeType = "application/fhir+json";
callback.Continue();
return(CefReturnValue.Continue);
}
// GET for a specific resource
ResourceIdentity ri = new ResourceIdentity(uri);
if (ri.IsRestResourceIdentity())
{
rs.Get(ri.Id, ri.VersionId, SummaryType.False).ContinueWith(r =>
{
if (r.Exception != null)
{
System.Diagnostics.Trace.WriteLine($"Error: {r.Exception.Message}");
if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
{
base.StatusCode = (int)fe.Status;
if (fe.Outcome != null)
{
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(fe.Outcome));
base.MimeType = "application/fhir+json";
}
callback.Continue();
System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
return(null);
}
}
if (r.Result.HasAnnotation <HttpStatusCode>())
{
base.StatusCode = (int)r.Result.Annotation <HttpStatusCode>();
}
else
{
base.StatusCode = 200;
}
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(r.Result));
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = "application/fhir+json";
callback.Continue();
return(r.Result);
});
return(CefReturnValue.ContinueAsync);
}
// Search for the resource type
var parameters = TupledParameters(uri, SearchQueryParameterNames);
int?pagesize = GetIntParameter(uri, FhirParameter.COUNT);
var summary = GetSummaryParameter(uri);
rs.Search(parameters, pagesize, summary).ContinueWith(r =>
{
if (r.Exception != null)
{
System.Diagnostics.Trace.WriteLine($"Error: {r.Exception.Message}");
if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
{
base.StatusCode = (int)fe.Status;
if (fe.Outcome != null)
{
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(fe.Outcome));
base.MimeType = "application/fhir+json";
}
callback.Continue();
System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
return(null);
}
}
if (r.Result.HasAnnotation <HttpStatusCode>())
{
base.StatusCode = (int)r.Result.Annotation <HttpStatusCode>();
}
else
{
base.StatusCode = 200;
}
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(r.Result));
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = "application/fhir+json";
callback.Continue();
return(r.Result);
});
return(CefReturnValue.ContinueAsync);
}
System.Threading.Tasks.Task <Hl7.Fhir.Model.Resource> t = server.GetAsync(redirectedUrl).ContinueWith <Hl7.Fhir.Model.Resource>(r =>
{
if (r.Exception != null)
{
System.Diagnostics.Trace.WriteLine($"Error: {r.Exception.Message}");
if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
{
base.StatusCode = (int)fe.Status;
if (fe.Outcome != null)
{
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(fe.Outcome));
base.MimeType = "application/fhir+json";
}
callback.Continue();
System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
return(null);
}
}
base.StatusCode = 200;
if (r.Result is Hl7.Fhir.Model.CapabilityStatement cs)
{
// As per the documentation http://hl7.org/fhir/smart-app-launch/conformance/index.html
// Update the security node with our internal security node
if (cs.Rest[0].Security == null)
{
cs.Rest[0].Security = new Hl7.Fhir.Model.CapabilityStatement.SecurityComponent();
}
Hl7.Fhir.Model.CapabilityStatement.SecurityComponent security = cs.Rest[0].Security;
if (!security.Service.Any(cc => cc.Coding.Any(c => c.System == "http://hl7.org/fhir/restful-security-service" && c.Code == "SMART-on-FHIR")))
{
security.Service.Add(new Hl7.Fhir.Model.CodeableConcept("http://hl7.org/fhir/restful-security-service", "SMART-on-FHIR"));
}
var extension = security.GetExtension("http://fhir-registry.smarthealthit.org/StructureDefinition/oauth-uris");
if (extension == null)
{
extension = new Extension()
{
Url = "http://fhir-registry.smarthealthit.org/StructureDefinition/oauth-uris"
};
security.Extension.Add(extension);
}
// remove the existing authentications, and put in our own
extension.Extension.Clear();
extension.AddExtension("token", new FhirUri($"https://{AuthProtocolSchemeHandlerFactory.AuthAddress(_launchContext)}/token"));
extension.AddExtension("authorize", new FhirUri($"https://{AuthProtocolSchemeHandlerFactory.AuthAddress(_launchContext)}/authorize"));
}
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(r.Result));
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = "application/fhir+json";
callback.Continue();
return(r.Result);
});
}
if (request.Method == "POST")
{
if (uri.LocalPath == "/")
{
Bundle b = null;
if (request.PostData != null)
{
var data = request.PostData.Elements.FirstOrDefault();
var body = data.GetBody();
if (request.GetHeaderByName("Content-Type").Contains("xml"))
{
b = new Hl7.Fhir.Serialization.FhirXmlParser().Parse <Bundle>(body);
}
else
{
b = new Hl7.Fhir.Serialization.FhirJsonParser().Parse <Bundle>(body);
}
}
_facade.ProcessBatch(requestDetails, b).ContinueWith(r =>
{
if (r.Exception != null)
{
System.Diagnostics.Trace.WriteLine($"Error: {r.Exception.Message}");
if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
{
base.StatusCode = (int)fe.Status;
if (fe.Outcome != null)
{
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(fe.Outcome));
base.MimeType = "application/fhir+json";
}
callback.Continue();
System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
return(null);
}
}
if (r.Result.HasAnnotation <HttpStatusCode>())
{
base.StatusCode = (int)r.Result.Annotation <HttpStatusCode>();
}
else
{
base.StatusCode = 200;
}
base.Stream = new MemoryStream(new Hl7.Fhir.Serialization.FhirJsonSerializer(new Hl7.Fhir.Serialization.SerializerSettings()
{
Pretty = true
}).SerializeToBytes(r.Result));
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = "application/fhir+json";
callback.Continue();
return(r.Result);
});
return(CefReturnValue.ContinueAsync);
}
System.Net.Http.HttpClient client = new System.Net.Http.HttpClient();
client.DefaultRequestHeaders.Add("Accept", request.GetHeaderByName("Accept"));
// client.DefaultRequestHeaders.Add("Content-Type", request.GetHeaderByName("Content-Type"));
HttpContent content = null;
if (request.PostData != null)
{
var data = request.PostData.Elements.FirstOrDefault();
var body = data.GetBody();
content = new System.Net.Http.StringContent(body, System.Text.Encoding.UTF8, request.GetHeaderByName("Content-Type"));
}
else
{
content = new System.Net.Http.StreamContent(null);
}
client.PostAsync(redirectedUrl, content).ContinueWith((System.Threading.Tasks.Task <HttpResponseMessage> r) =>
{
if (r.Exception != null)
{
Console.WriteLine($"Error: {r.Exception.Message}");
//if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
//{
// base.StatusCode = (int)fe.Status;
// if (fe.Outcome != null)
// base.Stream = new MemoryStream(r.Result.Content.ReadAsStringAsync().GetAwaiter().GetResult());
// callback.Continue();
// System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
// return;
//}
}
base.StatusCode = (int)r.Result.StatusCode;
base.Stream = r.Result.Content.ReadAsStreamAsync().GetAwaiter().GetResult();
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = r.Result.Content.Headers.ContentType.MediaType;
callback.Continue();
return;
});
}
if (request.Method == "PUT")
{
System.Net.Http.HttpClient client = new System.Net.Http.HttpClient();
client.DefaultRequestHeaders.Add("Accept", request.GetHeaderByName("Accept"));
// client.DefaultRequestHeaders.Add("Content-Type", request.GetHeaderByName("Content-Type"));
HttpContent content = null;
if (request.PostData != null)
{
var data = request.PostData.Elements.FirstOrDefault();
var body = data.GetBody();
content = new System.Net.Http.StringContent(body, System.Text.Encoding.UTF8, request.GetHeaderByName("Content-Type"));
}
else
{
content = new System.Net.Http.StreamContent(null);
}
client.PutAsync(redirectedUrl, content).ContinueWith((System.Threading.Tasks.Task <HttpResponseMessage> r) =>
{
if (r.Exception != null)
{
Console.WriteLine($"Error: {r.Exception.Message}");
//if (r.Exception.InnerException is Hl7.Fhir.Rest.FhirOperationException fe)
//{
// base.StatusCode = (int)fe.Status;
// if (fe.Outcome != null)
// base.Stream = new MemoryStream(r.Result.Content.ReadAsStringAsync().GetAwaiter().GetResult());
// callback.Continue();
// System.Diagnostics.Trace.WriteLine($"Error (inner): {fe.Message}");
// return;
//}
}
base.StatusCode = (int)r.Result.StatusCode;
base.Stream = r.Result.Content.ReadAsStreamAsync().GetAwaiter().GetResult();
Console.WriteLine($"Success: {base.Stream.Length}");
base.MimeType = r.Result.Content.Headers.ContentType.MediaType;
callback.Continue();
return;
});
}
return(CefReturnValue.ContinueAsync);
}
catch (Exception ex)
{
Console.WriteLine($"{ex.Message}");
callback.Dispose();
return(CefReturnValue.Cancel);
}
}
