private void btnShowTestResults_Click(object sender, EventArgs e)
{
// get test results for patient
Bundle results = client.Search <DiagnosticReport>(new string[]
{
$"patient={patient.Id}"
});
foreach (Bundle.EntryComponent entryComponent in results.Entry)
{
// add the DiagnosticReport to the list...
DiagnosticReport report = entryComponent.Resource as DiagnosticReport;
string testReportId = report.Id;
string test =
report.GetExtension("http://wales.nhs.uk/fhir/extensions/DiagnosticReport-WrrsReportTitle").Value.ToString();
string effectiveDate = ((FhirDateTime)report.Effective).ToDateTime().Value.ToString("dd-MMM-yyyy");
string organisation = "";
DiagnosticReport.PerformerComponent firstOrDefault = report.Performer.FirstOrDefault();
if (firstOrDefault != null)
{
organisation = firstOrDefault.Actor.Display;
}
var lvi = new ListViewItem(testReportId);
lvi.SubItems.Add(test);
lvi.SubItems.Add(effectiveDate);
lvi.SubItems.Add(organisation);
lstTestResults.Items.Add(lvi);
}
}
/// <summary>
/// Deserialize JSON into a FHIR DiagnosticReport
/// </summary>
public static void DeserializeJson(this DiagnosticReport current, ref Utf8JsonReader reader, JsonSerializerOptions options)
{
string propertyName;
while (reader.Read())
{
if (reader.TokenType == JsonTokenType.EndObject)
{
return;
}
if (reader.TokenType == JsonTokenType.PropertyName)
{
propertyName = reader.GetString();
if (Hl7.Fhir.Serialization.FhirSerializerOptions.Debug)
{
Console.WriteLine($"DiagnosticReport >>> DiagnosticReport.{propertyName}, depth: {reader.CurrentDepth}, pos: {reader.BytesConsumed}");
}
reader.Read();
current.DeserializeJsonProperty(ref reader, options, propertyName);
}
}
throw new JsonException($"DiagnosticReport: invalid state! depth: {reader.CurrentDepth}, pos: {reader.BytesConsumed}");
}
public void DifferentSectionTitlesGiveDifferentSectionHandles()
{
var sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
var sectionTwoHandle = DiagnosticReport.GetSection(k_SectionTwoTitle);
Assert.AreNotEqual(sectionOneHandle, sectionTwoHandle);
}
public void SameSectionTitleGivesSameSectionHandle()
{
var sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
var sectionOneHandleTwo = DiagnosticReport.GetSection(k_SectionOneTitle);
Assert.AreEqual(sectionOneHandle, sectionOneHandleTwo);
}
private void lstTestResults_SelectedIndexChanged(object sender, EventArgs e)
{
if (lstTestResults.SelectedItems.Count == 1)
{
string diagnosticReportId = lstTestResults.SelectedItems[0].Text;
string fhirRef = $"DiagnosticReport/{diagnosticReportId}";
DiagnosticReport diagnosticReport = client.Read <DiagnosticReport>(fhirRef);
_htmlPanel.Text = diagnosticReport.Text.Div;
//cboObservations.Items.Clear();
Dictionary <string, string> obsDictionary = new Dictionary <string, string>();
foreach (Resource resource in diagnosticReport.Contained)
{
if (resource.TypeName == "Observation")
{
Observation observation = (Observation)resource;
CodeableConcept firstOrDefault = observation.Category.FirstOrDefault();
Coding orDefault = firstOrDefault?.Coding.FirstOrDefault();
if (orDefault != null && (firstOrDefault != null && orDefault.Code == "laboratory"))
{
string observationCode = observation.Code.Coding.FirstOrDefault().Code;
string observationDisplay = observation.Code.Coding.FirstOrDefault().Display;
if (!obsDictionary.ContainsKey(observationCode))
{
obsDictionary.Add(observationCode, observationDisplay);
}
}
}
}
cboObservations.DataSource = new BindingSource(obsDictionary, null);
cboObservations.DisplayMember = "Value";
cboObservations.ValueMember = "Key";
}
}
public async Task <IActionResult> CreateDiagnosticAsync(string patientReference, string practitionerReference)
{
DiagnosticReport diagReport = new DiagnosticReport();
var identifier = new Identifier("UptSystem", "UPTValue");
diagReport.Identifier.Add(identifier);
ResourceReference patientRef = new ResourceReference(patientReference);
diagReport.Subject = patientRef;
PerformerComponent performerComponent = new PerformerComponent();
performerComponent.Actor = new ResourceReference(practitionerReference);
// multiple doctors reference can be added here
diagReport.Performer.Add(performerComponent);
diagReport.Issued = DateTimeOffset.Now;
var response = await _client.CreateAsync(diagReport);
if (response == null)
{
return(BadRequest());
}
return(Created($"{BASEURL}/DiagnosticReport/{response.Id}", "Created with succes!"));
}
public void CheckGeneratedEventsOverTwentyAreReported()
{
const string k_ExpectedOutput = @"==== Last 20 Events ====
Event 11: Event Body 11
Event 12: Event Body 12
Event 13: Event Body 13
Event 14: Event Body 14
Event 15: Event Body 15
Event 16: Event Body 16
Event 17: Event Body 17
Event 18: Event Body 18
Event 19: Event Body 19
Event 20: Event Body 20
Event 21: Event Body 21
Event 22: Event Body 22
Event 23: Event Body 23
Event 24: Event Body 24
Event 25: Event Body 25
Event 26: Event Body 26
Event 27: Event Body 27
Event 28: Event Body 28
Event 29: Event Body 29
Event 30: Event Body 30
";
for (int i = 0; i <= 30; i++)
{
DiagnosticReport.AddEventEntry($"Event {i}", $"Event Body {i}");
}
var report = DiagnosticReport.GenerateReport();
Assert.AreEqual(k_ExpectedOutput, report);
}
public override DiagnosticReport CreateDiagnosticReport(DiagnosticReport report)
{
report.ApplicationInfo = new ApplicationInfo(false);
var attachments = new List <DiagnosticAttachmentInfo>();
foreach (var att in report.Attachments)
{
// User wishes to attach configuration
if (att.FileName == "SanteDB.config")
{
// Compress
using (MemoryStream ms = new MemoryStream())
{
using (GZipStream gz = new GZipStream(ms, CompressionMode.Compress))
ApplicationContext.Current.Configuration.Save(gz);
attachments.Add(new DiagnosticBinaryAttachment()
{
Content = ms.ToArray(),
FileDescription = "Configuration file",
FileName = "SanteDB.config.gz",
Id = "config",
ContentType = "application/x-gzip"
});
}
}
else if (att is DiagnosticBinaryAttachment bin && bin.Content.Length > 0)
{
attachments.Add(att);
}
public static void WriteDiagnosticReport(this TextWriter writer, DiagnosticReport report)
{
foreach (var d in report)
{
writer.WriteDiagnostic(d);
}
}
public DiagnosticReport CreateDiagnosticReport()
{
Hl7.Fhir.Model.Coding coding = new Hl7.Fhir.Model.Coding
{
System = "http://loinc.org",
Code = "51990-0",
Display = "Basic Metabolic Panel"
};
List <Hl7.Fhir.Model.Coding> CodingList = new List <Hl7.Fhir.Model.Coding>
{
coding
};
var code = new CodeableConcept
{
Coding = CodingList
};
ResourceReference reff = new ResourceReference
{
Reference = "Patient/099e7de7-c952-40e2-9b4e-0face78c9d80"
};
DiagnosticReport dr = new DiagnosticReport
{
Code = code,
Status = DiagnosticReport.DiagnosticReportStatus.Final,
Subject = reff,
};
//dr.ResourceType = "DiagnosticReport";
return(dr);
}
void SimpleNarrative()
{
const String prefix = "SimpleNarrativeOnlyReport";
this.DeleteExamples(prefix);
Bundle b;
{
BreastRadiologyDocument doc = this.MakeDoc();
{
BreastRadComposition index = doc.Index;
index.Resource.DateElement = doc.Date;
index.Resource.Status = CompositionStatus.Final;
index.Resource.Title = "Simple Narrative Only Breast Radiology Report";
DiagnosticReport diagnosticReport = new DiagnosticReport
{
Id = "Report"
};
BreastRadReport report = index.Report.Set(new BreastRadReport(doc, diagnosticReport));
DiagnosticReport r = report.Resource;
r.Status = DiagnosticReport.DiagnosticReportStatus.Final;
r.Category.Add(new CodeableConcept("http://terminology.hl7.org/CodeSystem/observation-category",
"imaging"));
r.Code = new CodeableConcept("http://loinc.org", "10193-1");
r.Conclusion = "Report Narrative conclusion.";
report.SetConclusionCode(BiRadsAssessmentCategoriesVS.Code_Category2);
}
b = doc.Write();
String path = this.ExamplePath(prefix, b);
b.SaveJson(path);
this.SplitExampleBundle(b, prefix);
}
}
public void CheckGenerateReportWithMultipleSectionsAndEntries()
{
const string k_ExpectedOutput = @"==== Section One ====
Entry Header: Entry Body
Entry Header 2: Entry Body 2
Entry Header 3: Entry Body 3
==== Section Two ====
Entry Header 4: Entry Body 4
Entry Header 5: Entry Body 5
Entry Header 6: Entry Body 6
==== Last 20 Events ====
";
var sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
DiagnosticReport.AddSectionEntry(sectionOneHandle, "Entry Header", "Entry Body");
DiagnosticReport.AddSectionEntry(sectionOneHandle, "Entry Header 2", "Entry Body 2");
DiagnosticReport.AddSectionEntry(sectionOneHandle, "Entry Header 3", "Entry Body 3");
var sectionTwoHandle = DiagnosticReport.GetSection(k_SectionTwoTitle);
DiagnosticReport.AddSectionEntry(sectionTwoHandle, "Entry Header 4", "Entry Body 4");
DiagnosticReport.AddSectionEntry(sectionTwoHandle, "Entry Header 5", "Entry Body 5");
DiagnosticReport.AddSectionEntry(sectionTwoHandle, "Entry Header 6", "Entry Body 6");
var report = DiagnosticReport.GenerateReport();
Assert.AreEqual(k_ExpectedOutput, report);
}
public void CheckFullReport()
{
const string k_ExpectedOutput = @"==== Section One ====
Section One Entry One: Simple
==== Section Two ====
Section Two Entry One: Simple
Section Two Entry Two: (2)
FOO=BAR
BAZ=100
==== Last 20 Events ====
Event 11: Event Body 11
Event 12: Event Body 12
Event 13: Event Body 13
Event 14: Event Body 14
Event 15: Event Body 15
Event 16: Event Body 16
Event 17: Event Body 17
Event 18: Event Body 18
Event 19: Event Body 19
Event 20: Event Body 20
Event 21: Event Body 21
Event 22: Event Body 22
Event 23: Event Body 23
Event 24: Event Body 24
Event 25: Event Body 25
Event 26: Event Body 26
Event 27: Event Body 27
Event 28: Event Body 28
Event 29: Event Body 29
Event 30: Event Body 30
";
var sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
DiagnosticReport.AddSectionEntry(sectionOneHandle, "Section One Entry One", "Simple");
for (int i = 0; i <= 30; i++)
{
DiagnosticReport.AddEventEntry($"Event {i}", $"Event Body {i}");
}
var sectionTwoHandle = DiagnosticReport.GetSection(k_SectionTwoTitle);
DiagnosticReport.AddSectionEntry(sectionTwoHandle, "Section Two Entry One", "Simple");
DiagnosticReport.AddSectionBreak(sectionTwoHandle);
DiagnosticReport.AddSectionEntry(sectionTwoHandle, "Section Two Entry Two", @"(2)
FOO=BAR
BAZ=100
");
var report = DiagnosticReport.GenerateReport();
Debug.Log(report);
Assert.AreEqual(k_ExpectedOutput, report);
}
public override DiagnosticReport CreateDiagnosticReport(DiagnosticReport report)
{
var persister = ApplicationServiceContext.Current.GetService <IDataPersistenceService <DiagnosticReport> >();
if (persister == null)
{
throw new InvalidOperationException("Cannot find appriopriate persister");
}
return(persister.Insert(report, TransactionMode.Commit, AuthenticationContext.Current.Principal));
}
public void CheckSimpleReportGenerationIsCorrect()
{
const string k_ExpectedOutput = "==== Section One ====\n\n==== Last 20 Events ====\n";
var sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
var report = DiagnosticReport.GenerateReport();
Assert.IsFalse(String.IsNullOrEmpty(report));
Assert.AreEqual(k_ExpectedOutput, report);
}
public void GetDiagnosticReport()
{
bool b = false;
DiagnosticReport report = _decoder.GetDiagnosticReport(_message);
try
{
if (report?.SendingApplication != "cobasIT1000")
{
Assert.Fail();
}
if (report?.PatientInternalId != "0003")
{
Assert.Fail();
}
if (report?.FamilyName != "Fab")
{
Assert.Fail();
}
if (report?.GivenName != "Cesc")
{
Assert.Fail();
}
if (report?.Sex != "M")
{
Assert.Fail();
}
if (report?.DateOfBirth.Value.ToString("yyyyMMdd") != "19890811")
{
Assert.Fail();
}
if (report?.AnalyzerName != "ACI II UU13013667")
{
Assert.Fail();
}
if (report?.AnalyzerDateTime.Value.ToString("yyyyMMddHHmmss") != "20130514114122")
{
Assert.Fail();
}
if (report?.OperatorId != "ROCHE")
{
Assert.Fail();
}
b = true;
}
catch (Exception ex)
{
Debug.WriteLine(ex.Message);
}
Assert.IsTrue(b);
}
public void GetDiagnosticReport()
{
bool b = false;
DiagnosticReport report = _decoder.GetDiagnosticReport(_message);
try
{
if (report?.SendingApplication != "ICU-4 Glucose")
{
Assert.Fail();
}
if (report?.PatientInternalId != "PT222-55-7777")
{
Assert.Fail();
}
if (report?.FamilyName != "Patient")
{
Assert.Fail();
}
if (report?.GivenName != "Janet")
{
Assert.Fail();
}
if (report?.Sex != "F")
{
Assert.Fail();
}
if (report?.DateOfBirth.Value.ToString("yyyy-MM-dd") != "1960-08-29")
{
Assert.Fail();
}
if (report?.AnalyzerName != "ICU-4 Glucose")
{
Assert.Fail();
}
if (report?.AnalyzerDateTime.Value.ToString("yyyy-MM-dd") != "2001-11-01")
{
Assert.Fail();
}
if (report?.OperatorId != "OP777-88-9999")
{
Assert.Fail();
}
b = true;
}
catch (Exception ex)
{
Debug.WriteLine(ex.Message);
}
Assert.IsTrue(b);
}
public BoundProgram(ImmutableArray <VariableSymbol> globalVariables, FunctionSymbol?globalFunction, FunctionSymbol?mainFunction, ImmutableDictionary <FunctionSymbol, BoundBlockStatement> functions, AssemblyDefinition mainAssembly, ImmutableArray <AssemblyDefinition> referencAssemblies, ImmutableDictionary <TypeSymbol, TypeReference> resolvedTypes, DiagnosticReport diagnostics, bool isValid) : base(isValid)
{
GlobalVariables = globalVariables;
GlobalFunction = globalFunction;
MainFunction = mainFunction;
Functions = functions;
MainAssembly = mainAssembly;
ReferencAssemblies = referencAssemblies;
ResolvedTypes = resolvedTypes;
Diagnostics = diagnostics;
}
/// <summary>
/// Display method
/// </summary>
/// <author>ALVES Quentin</author>
/// <note>Display a diagnostic report on console</note>
/// <param name="report" >Query diagnostic report to display</param>
public void Display(DiagnosticReport report)
{
if (report != null && report.HasDiagnostics)
{
this.Display(this.Style.Text, $"Report emitted from {report.Emitter} :\n");
foreach (var diag in report.Diagnostics)
{
this.Display(diag);
}
}
}
public void CheckGeneratedEventsAreReported()
{
const string k_ExpectedOutput = @"==== Last 20 Events ====
Event One: Event Body One
";
DiagnosticReport.AddEventEntry("Event One", "Event Body One");
var report = DiagnosticReport.GenerateReport();
Assert.AreEqual(k_ExpectedOutput, report);
}
public DiagnosticReportModel(DiagnosticReport report)
{
DiagnosticReportId = report.Id;
CodeDisplay = report.Code.Coding.FirstOrDefault()?.Display;
if (report.Effective?.TypeName == "dateTime")
{
var effectiveInstant = (FhirDateTime)report.Effective;
EffectiveDate = effectiveInstant.ToDateTimeOffset();
}
PerformerDisplay = report.Performer.Display;
Status = report.Status.ToString();
}
public void SectionReportsStayInCreatedOrder()
{
var sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
var sectionTwoHandle = DiagnosticReport.GetSection(k_SectionTwoTitle);
var reportOne = DiagnosticReport.GenerateReport();
DiagnosticReport.StartReport();
sectionTwoHandle = DiagnosticReport.GetSection(k_SectionTwoTitle);
sectionOneHandle = DiagnosticReport.GetSection(k_SectionOneTitle);
var reportTwo = DiagnosticReport.GenerateReport();
Assert.AreNotEqual(reportOne, reportTwo);
}
/// <summary>
/// Init object.
/// </summary>
public override void Init(BreastRadiologyDocument doc, Base baseResource = null)
{
DiagnosticReport resource = (DiagnosticReport)baseResource;
if (resource == null)
{
resource = new DiagnosticReport();
}
base.Init(doc, resource);
//+ Constructor
this.Resource.Code = FixedValue_DiagnosticReportCode(); // DefineBase.cs:177
SetProfileUrl("http://hl7.org/fhir/us/breast-radiology/StructureDefinition/BreastRadReport"); // DefineBase.cs:238
//- Constructor
}
public void ParseLargeComposite()
{
XmlReader xr = XmlReader.Create(new StreamReader(@"..\..\..\..\..\publish\diagnosticreport-example.xml"));
ErrorList errors = new ErrorList();
DiagnosticReport rep = (DiagnosticReport)FhirParser.ParseResource(xr, errors);
validateDiagReportAttributes(errors, rep);
JsonTextReader jr = new JsonTextReader(new StreamReader(@"..\..\..\..\..\publish\diagnosticreport-example.json"));
errors.Clear();
rep = (DiagnosticReport)FhirParser.ParseResource(jr, errors);
validateDiagReportAttributes(errors, rep);
}
public void When_generating_drives_report_with_flag()
{
var report = DiagnosticReport.Generate(DiagnosticReportType.Drives);
report.ShouldNotBeNull();
report.Length.ShouldBeGreaterThan(100);
report.ShouldStartWith("/\r\n|Diagnostic Report generated at:");
report.ShouldNotContain("\r\n|\r\n|System|...");
report.ShouldNotContain("\r\n|\r\n|Process|...");
report.ShouldContain("\r\n|\r\n|Drives|...");
report.ShouldNotContain("\r\n|\r\n|Assemblies|...");
report.ShouldNotContain("\r\n|\r\n|Networking|...");
report.ShouldNotContain("|\r\n|\t. Windows IP Configuration\r\n|");
report.ShouldEndWith("\\");
}
public override DiagnosticReport GetServerDiagnosticReport()
{
var retVal = new DiagnosticReport();
retVal.ApplicationInfo = new DiagnosticApplicationInfo(Assembly.GetEntryAssembly());
retVal.CreatedByKey = Guid.Parse(AuthenticationContext.SystemUserSid);
retVal.Threads = new List <DiagnosticThreadInfo>();
try
{
if (Process.GetCurrentProcess()?.Threads == null)
{
this.m_traceSource.TraceEvent(EventLevel.Warning, "Threading information is not available for this instance");
}
else
{
foreach (ProcessThread thd in Process.GetCurrentProcess().Threads.OfType <ProcessThread>().Where(o => o != null))
{
retVal.Threads.Add(new DiagnosticThreadInfo()
{
Name = thd.Id.ToString(),
CpuTime = thd.UserProcessorTime,
WaitReason = null,
State = thd.ThreadState.ToString(),
TaskInfo = thd.ThreadState == ThreadState.Wait ? thd.WaitReason.ToString() : "N/A"
});
}
}
}
catch (Exception e)
{
this.m_traceSource.TraceEvent(EventLevel.Error, "Error gathering thread information: {0}", e);
}
retVal.ApplicationInfo.Assemblies = AppDomain.CurrentDomain.GetAssemblies().Select(o => new DiagnosticVersionInfo(o)).ToList();
retVal.ApplicationInfo.EnvironmentInfo = new DiagnosticEnvironmentInfo()
{
Is64Bit = Environment.Is64BitOperatingSystem && Environment.Is64BitProcess,
OSVersion = String.Format("{0} v{1}", System.Environment.OSVersion.Platform, System.Environment.OSVersion.Version),
ProcessorCount = Environment.ProcessorCount,
UsedMemory = GC.GetTotalMemory(false),
Version = Environment.Version.ToString(),
};
retVal.ApplicationInfo.Applets = ApplicationServiceContext.Current.GetService <IAppletManagerService>().Applets.Select(o => o.Info).ToList();
retVal.ApplicationInfo.ServiceInfo = ApplicationServiceContext.Current.GetService <IServiceManager>().GetAllTypes().Where(o => o.GetInterfaces().Any(i => i.FullName == typeof(IServiceImplementation).FullName) && !o.IsGenericTypeDefinition && !o.IsAbstract && !o.IsInterface).Select(o => new DiagnosticServiceInfo(o)).ToList();
return(retVal);
}
public void ValidateResourceWithIncorrectChildElement()
{
FhirDateTime dt = new FhirDateTime();
dt.Value = "Ewout Kramer";
Observation o = new Observation {
Applies = dt
};
DiagnosticReport rep = new DiagnosticReport();
rep.Contained = new List <Resource> {
o
};
validateErrorOrFail(rep);
}
public void When_generating_full_report_with_flag()
{
// ReSharper disable once RedundantArgumentDefaultValue
var report = DiagnosticReport.Generate(DiagnosticReportType.Full);
report.ShouldNotBeNull();
report.Length.ShouldBeGreaterThan(1000);
report.ShouldStartWith("/\r\n|Diagnostic Report generated at:");
report.ShouldContain("\r\n|\r\n|System|...");
report.ShouldContain("\r\n|\r\n|Process|...");
report.ShouldContain("\r\n|\r\n|Drives|...");
report.ShouldContain("\r\n|\r\n|Assemblies|...");
report.ShouldContain("\r\n|\r\n|Networking|...");
report.ShouldContain("|\r\n|\t. Windows IP Configuration\r\n|");
report.ShouldEndWith("\\");
}
private void OnDiagnosticsReported(ImpinjReader reader, DiagnosticReport report)
{
uint[] reportMetricsList = report.Metrics.ToArray();
// Warning!!! Accessing diagnostic codes will not be supported in future releases.
if (reportMetricsList[0] == 100) // End of Cycle
{
Console.WriteLine("xArray=" + reader.Address + " CycleTime=" + (int)reportMetricsList[1] / 1000 + "ms");
// Store latest Cycle time
if (CycleLengths.ContainsKey(reader.Address))
{
CycleLengths[reader.Address] = (int)reportMetricsList[1];
}
else
{
CycleLengths.Add(reader.Address, (int)reportMetricsList[1]);
}
}
}
public void ValidateResourceWithIncorrectElement()
{
FhirDateTime dt = new FhirDateTime();
dt.Value = "Ewout Kramer";
Observation o = new Observation {
Applies = dt
};
DiagnosticReport rep = new DiagnosticReport();
rep.Contained = new List <Resource> {
o
};
var errors = dt.Validate();
Assert.IsTrue(errors.Count == 1);
}
