public async Task GivenATransactionContextWithNoDicomPropertyValueChange_WhenprocessedForInstancee_ThenDicomPropertyValuesUpdateIsSkippedAsync()
{
DicomDataset dataset = FhirTransactionContextBuilder.CreateDicomDataset();
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(StudyInstanceUid, new List <string>()
{
SeriesInstanceUid
}, new List <string>()
{
SopInstanceUid
}, PatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(dataset);
ImagingStudy.SeriesComponent series = imagingStudy.Series.First();
ImagingStudy.InstanceComponent instance = series.Instance.First();
await _imagingStudyInstancePropertySynchronizer.SynchronizeAsync(context, instance, DefaultCancellationToken);
Assert.Equal(1, instance.Number);
FhirTransactionContext newContext = FhirTransactionContextBuilder.DefaultFhirTransactionContext(dataset);
await _imagingStudyInstancePropertySynchronizer.SynchronizeAsync(newContext, instance, DefaultCancellationToken);
Assert.Equal(1, instance.Number);
}
public async Task GivenATransactionContexAndImagingStudyWithNewAccessionNumber_WhenProcessedForStudy_ThenNewAccessionNumberIsAddedAsync()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
await _imagingStudyPropertySynchronizer.SynchronizeAsync(context, imagingStudy);
Assert.Collection(
imagingStudy.Identifier,
identifier => ValidationUtility.ValidateIdentifier("urn:dicom:uid", $"urn:oid:{DefaultStudyInstanceUid}", identifier), // studyinstanceUid
identifier => ValidationUtility.ValidateAccessionNumber(null, FhirTransactionContextBuilder.DefaultAccessionNumber, identifier)); // accession number
FhirTransactionContext newConText = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset(accessionNumber: NewAccessionNumber));
await _imagingStudyPropertySynchronizer.SynchronizeAsync(newConText, imagingStudy);
Assert.Collection(
imagingStudy.Identifier,
identifier => ValidationUtility.ValidateIdentifier("urn:dicom:uid", $"urn:oid:{DefaultStudyInstanceUid}", identifier), // studyinstanceUid
identifier => ValidationUtility.ValidateAccessionNumber(null, FhirTransactionContextBuilder.DefaultAccessionNumber, identifier), // accession number
identifier => ValidationUtility.ValidateAccessionNumber(null, NewAccessionNumber, identifier)); // new accession number
}
public static ImagingStudy CreateImagingStudy(string acsn, string started, bool active)
{
ImagingStudy study = new ImagingStudy
{
Id = Guid.NewGuid().ToString(),
Identifier =
{
new Identifier {
Type = new CodeableConcept
{
Coding = new List <Coding>
{
new Coding
{
System = "http://terminology.hl7.org/CodeSystem/v2-0203",
Code = "ACSN"
}
}
},
Value = acsn
}
}
};
if (!active)
{
study.Status = ImagingStudy.ImagingStudyStatus.Available;
}
if (null != started)
{
study.Started = started;
}
return(study);
}
public void SynchronizeStudyProperties(FhirTransactionContext context, ImagingStudy imagingStudy)
{
EnsureArg.IsNotNull(context, nameof(context));
EnsureArg.IsNotNull(imagingStudy, nameof(imagingStudy));
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
}
public async Task GivenATransactionContextAndImagingStudyWithExistingEndpointReference_WhenProcessedForStudy_ThenEndpointResourceIsNotAddedAsync()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
Endpoint endpoint = FhirResourceBuilder.CreateEndpointResource();
var endpointResourceId = new ServerResourceId(ResourceType.Endpoint, endpoint.Id);
var endpointReference = endpointResourceId.ToResourceReference();
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
context.Request.Endpoint = FhirTransactionRequestEntryGenerator.GenerateDefaultNoChangeRequestEntry <Endpoint>(endpointResourceId);
imagingStudy.Endpoint.Add(endpointReference);
await _imagingStudyPropertySynchronizer.SynchronizeAsync(context, imagingStudy);
Assert.Collection(
imagingStudy.Endpoint,
endPoint => Assert.Equal(endpointReference, endPoint));
}
public async Task GivenAChangeFeedEntryToDeleteAnInstanceWithinAStudyContainingMoreThanOneSeries_WhenBuilt_ThenCorrectEntryComponentShouldBeCreated()
{
const string studyInstanceUid = "1";
const string seriesInstanceUid = "2";
const string seriesInstanceUid1 = "3";
const string sopInstanceUid = "3";
const string patientResourceId = "p1";
// create a new ImagingStudy
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(studyInstanceUid, new List <string>()
{
seriesInstanceUid, seriesInstanceUid1
}, new List <string>()
{
sopInstanceUid,
}, patientResourceId);
_fhirService.RetrieveImagingStudyAsync(Arg.Any <Identifier>(), Arg.Any <CancellationToken>()).Returns(imagingStudy);
// delete an existing instance within a study
FhirTransactionRequestEntry entry = await BuildImagingStudyEntryComponent(studyInstanceUid, seriesInstanceUid, sopInstanceUid, patientResourceId);
ImagingStudy updatedImagingStudy = ValidationUtility.ValidateImagingStudyUpdate(studyInstanceUid, patientResourceId, entry);
Assert.Equal(ImagingStudy.ImagingStudyStatus.Available, updatedImagingStudy.Status);
Assert.Collection(
updatedImagingStudy.Series,
series =>
{
ValidationUtility.ValidateSeries(series, seriesInstanceUid1, sopInstanceUid);
});
}
public void GivenATransactionContextAndImagingStudyWithExitsingAccessionNumber_WhenProcessedForStudy_ThenAccessionNumberIsNotAdded()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Identifier,
identifier => ValidationUtility.ValidateIdentifier("urn:dicom:uid", $"urn:oid:{DefaultStudyInstanceUid}", identifier),
identifier => ValidationUtility.ValidateAccessionNumber(null, FhirTransactionContextBuilder.DefaultAccessionNumber, identifier));
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Identifier,
identifier => ValidationUtility.ValidateIdentifier("urn:dicom:uid", $"urn:oid:{DefaultStudyInstanceUid}", identifier),
identifier => ValidationUtility.ValidateAccessionNumber(null, FhirTransactionContextBuilder.DefaultAccessionNumber, identifier));
}
public async Task GivenATransactionContexAndImagingStudy_WhenprocessedForInstance_ThenDicomPropertiesAreCorrectlyMappedtoInstanceWithinImagingStudyAsync()
{
DicomDataset dataset = FhirTransactionContextBuilder.CreateDicomDataset();
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(StudyInstanceUid, new List <string>()
{
SeriesInstanceUid
}, new List <string>()
{
SopInstanceUid
}, PatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(dataset);
if (imagingStudy.Series.Count() > 0)
{
System.Console.WriteLine("");
}
ImagingStudy.SeriesComponent series = imagingStudy.Series.First();
ImagingStudy.InstanceComponent instance = series.Instance.First();
await _imagingStudyInstancePropertySynchronizer.SynchronizeAsync(context, instance, DefaultCancellationToken);
Assert.Equal(SopClassUid, instance.SopClass.Code);
Assert.Equal(1, instance.Number);
}
public void GivenATransactionContextWithUpdatedInstanceNumber_WhenprocessedForInstance_ThenDicomPropertyValuesAreUpdatedCorrectly()
{
DicomDataset dataset = FhirTransactionContextBuilder.CreateDicomDataset();
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(studyInstanceUid, new List <string>()
{
seriesInstanceUid
}, new List <string>()
{
sopInstanceUid
}, patientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(dataset);
ImagingStudy.SeriesComponent series = imagingStudy.Series.First();
ImagingStudy.InstanceComponent instance = series.Instance.First();
_imagingStudyInstancePropertySynchronizer.Synchronize(context, instance);
Assert.Equal(1, instance.Number);
FhirTransactionContext newContext = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset(instanceNumber: "2"));
_imagingStudyInstancePropertySynchronizer.Synchronize(newContext, instance);
Assert.Equal(2, instance.Number);
}
public async Task GivenAChangeFeedWithExistingInstanceForAnExistingSeriesAndImagingStudy_WhenBuilt_ThenNoEntryComponentShouldBeReturned()
{
const string studyInstanceUid = "1";
const string seriesInstanceUid = "2";
const string sopInstanceUid = "3";
const string patientResourceId = "p1";
// create a new ImagingStudy
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(studyInstanceUid, new List <string>()
{
seriesInstanceUid
}, new List <string>()
{
sopInstanceUid
}, $"Patient/{patientResourceId}");
_fhirService.RetrieveImagingStudyAsync(Arg.Any <Identifier>(), Arg.Any <CancellationToken>()).Returns(imagingStudy);
// try update an existing ImagingStudy
FhirTransactionRequestEntry entry = await BuildImagingStudyEntryComponent(studyInstanceUid, seriesInstanceUid, sopInstanceUid, patientResourceId, addMetadata : false);
// Validate no entry component is created as there is no update
Assert.NotNull(entry);
Assert.Equal(FhirTransactionRequestMode.None, entry.RequestMode);
Assert.Null(entry.Request);
Assert.IsType <ServerResourceId>(entry.ResourceId);
Assert.True(imagingStudy.IsExactly(entry.Resource));
}
public void GivenATransactionContexAndImagingStudy_WhenProcessedForStudy_ThenDicomPropertiesAreCorrectlyMappedtoImagingStudy()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Endpoint,
reference => string.Equals(reference.Reference, context.Request.Endpoint.Resource.ToString(), StringComparison.Ordinal));
Assert.Collection(
imagingStudy.Modality,
modality => string.Equals(modality.Code, "MODALITY", StringComparison.Ordinal));
Assert.Collection(
imagingStudy.Note,
note => string.Equals(note.Text.ToString(), "Study Description", StringComparison.Ordinal));
Assert.Equal(new FhirDateTime(1974, 7, 10, 7, 10, 24, TimeSpan.Zero), imagingStudy.StartedElement);
}
public void GivenATransactionContexAndImagingStudyWithNewModality_WhenProcessedForStudy_ThenNewModalityIsAdded()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Modality,
modality => string.Equals(modality.Code, "MODALITY", StringComparison.Ordinal));
FhirTransactionContext newConText = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset(modalityInStudy: "NEWMODALITY", modalityInSeries: "NEWMODALITY"));
_imagingStudyPropertySynchronizer.Synchronize(newConText, imagingStudy);
Assert.Collection(
imagingStudy.Modality,
modality => string.Equals(modality.Code, "MODALITY", StringComparison.Ordinal),
modality => string.Equals(modality.Code, "NEWMODALITY", StringComparison.Ordinal));
}
public void GivenATransactionContexAndImagingStudyWithNewStudyDescription_WhenProcessedForStudy_ThenNewNoteIsAdded()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Note,
note => string.Equals(note.Text.ToString(), "Study Description", StringComparison.Ordinal));
// When studyDescription is same, note is not added twice
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Note,
note => string.Equals(note.Text.ToString(), "Study Description", StringComparison.Ordinal));
// When study description is new, new note is added
FhirTransactionContext newConText = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset(studyDescription: "New Study Description"));
_imagingStudyPropertySynchronizer.Synchronize(newConText, imagingStudy);
Assert.Collection(
imagingStudy.Note,
note => string.Equals(note.Text.ToString(), "Study Description", StringComparison.Ordinal),
note => string.Equals(note.Text.ToString(), "New Study Description", StringComparison.Ordinal));
}
public void GivenATransactionContextAndImagingStudyWithNewEndpointReference_WhenProcessedForStudyWithEndpoint_ThenEndpointIsAdded()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
// Simulate the imaging study with an existing endpoint.
Endpoint existingEndpoint = FhirResourceBuilder.CreateEndpointResource(id: "2345", name: "new wado-rs");
var existingEndpointResourceId = new ServerResourceId(ResourceType.Endpoint, existingEndpoint.Id);
var existingEndpointReference = existingEndpointResourceId.ToResourceReference();
imagingStudy.Endpoint.Add(existingEndpointReference);
Endpoint endpoint = FhirResourceBuilder.CreateEndpointResource();
var endpointResourceId = new ServerResourceId(ResourceType.Endpoint, endpoint.Id);
var endpointReference = endpointResourceId.ToResourceReference();
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
context.Request.Endpoint = FhirTransactionRequestEntryGenerator.GenerateDefaultNoChangeRequestEntry <Endpoint>(endpointResourceId);
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Endpoint,
endPoint => Assert.Equal(existingEndpointReference, endPoint),
endPoint => Assert.Equal(endpointReference, endPoint));
}
public async Task GivenAChangeFeedWithNewSeriesAndInstanceForAnExistingImagingStudy_WhenBuilt_ThenCorrectEntryComponentShouldBeCreated()
{
const string studyInstanceUid = "1";
const string seriesInstanceUid = "2";
const string sopInstanceUid = "3";
const string patientResourceId = "p1";
const string newSeriesInstanceUid = "3";
const string newSopInstanceUid = "4";
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(studyInstanceUid, new List <string>()
{
seriesInstanceUid
}, new List <string>()
{
sopInstanceUid
}, patientResourceId);
_fhirService.RetrieveImagingStudyAsync(Arg.Any <Identifier>(), Arg.Any <CancellationToken>()).Returns(imagingStudy);
// Update an existing ImagingStudy
FhirTransactionRequestEntry entry = await BuildImagingStudyEntryComponent(studyInstanceUid, newSeriesInstanceUid, newSopInstanceUid, patientResourceId);
ImagingStudy updatedImagingStudy = ValidationUtility.ValidateImagingStudyUpdate(studyInstanceUid, patientResourceId, entry);
Assert.Collection(
updatedImagingStudy.Series,
series =>
{
ValidationUtility.ValidateSeries(series, seriesInstanceUid, sopInstanceUid);
},
series =>
{
ValidationUtility.ValidateSeries(series, newSeriesInstanceUid, newSopInstanceUid);
});
}
public async Task GivenAChangeFeedWithNewInstanceAndNewSeiresForAnExistingImagingStudy_WhenBuilt_ThenCorrectEtagIsGeneratedd()
{
const string studyInstanceUid = "1";
const string seriesInstanceUid = "2";
const string sopInstanceUid = "3";
const string newSeriesInstanceUid = "3";
const string newSopInstanceUid = "3";
const string patientResourceId = "p1";
// create a new ImagingStudy
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(studyInstanceUid, new List <string>()
{
seriesInstanceUid
}, new List <string>()
{
sopInstanceUid
}, patientResourceId);
_fhirService.RetrieveImagingStudyAsync(Arg.Any <Identifier>(), Arg.Any <CancellationToken>()).Returns(imagingStudy);
// update an existing ImagingStudy
FhirTransactionRequestEntry entry = await BuildImagingStudyEntryComponent(studyInstanceUid, newSeriesInstanceUid, newSopInstanceUid, patientResourceId);
string expectedIfMatchCondition = $"W/\"1\"";
Assert.Equal(expectedIfMatchCondition, entry.Request.IfMatch);
}
private void ValidateDicomFilePropertiesAreCorrectlyMapped(ImagingStudy imagingStudy, ImagingStudy.SeriesComponent series, ImagingStudy.InstanceComponent instance)
{
Assert.Collection(
imagingStudy.Endpoint,
reference => string.Equals(reference.Reference, _fhirTransactionContext.Request.Endpoint.ToString(), StringComparison.Ordinal));
// Assert imaging study properties are mapped correctly
Assert.Collection(
imagingStudy.Modality,
modality => string.Equals(modality.Code, "MODALITY", StringComparison.Ordinal));
Assert.Collection(
imagingStudy.Note,
note => string.Equals(note.Text.ToString(), "Study Description", StringComparison.Ordinal));
Assert.Equal(new FhirDateTime(1974, 7, 10, 7, 10, 24, TimeSpan.Zero), imagingStudy.StartedElement);
// Assert series properties are mapped correctly
Assert.Equal("Series Description", series.Description);
Assert.Equal("MODALITY", series.Modality.Code);
Assert.Equal(1, series.Number);
Assert.Equal(new FhirDateTime(1974, 8, 10, 8, 10, 24, TimeSpan.Zero), series.StartedElement);
// Assert instance properties are mapped correctly
Assert.Equal("4444", instance.SopClass.Code);
Assert.Equal(1, instance.Number);
}
public static Bundle.RequestComponent GenerateDeleteRequest(ImagingStudy imagingStudy)
{
return(new Bundle.RequestComponent()
{
Method = Bundle.HTTPVerb.DELETE,
Url = $"{ResourceType.ImagingStudy.GetLiteral()}/{imagingStudy.Id}",
});
}
/// <inheritdoc/>
public async Task <FhirTransactionRequestEntry> BuildAsync(FhirTransactionContext context, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(context, nameof(context));
EnsureArg.IsNotNull(context.ChangeFeedEntry, nameof(context.ChangeFeedEntry));
EnsureArg.IsNotNull(context.Request, nameof(context.Request));
IResourceId patientId = context.Request.Patient.ResourceId;
ChangeFeedEntry changeFeedEntry = context.ChangeFeedEntry;
Identifier imagingStudyIdentifier = ImagingStudyIdentifierUtility.CreateIdentifier(changeFeedEntry.StudyInstanceUid);
ImagingStudy existingImagingStudy = await _fhirService.RetrieveImagingStudyAsync(imagingStudyIdentifier, cancellationToken);
ImagingStudy imagingStudy = (ImagingStudy)existingImagingStudy?.DeepCopy();
FhirTransactionRequestMode requestMode = FhirTransactionRequestMode.None;
if (existingImagingStudy == null)
{
imagingStudy = new ImagingStudy()
{
Status = ImagingStudy.ImagingStudyStatus.Available,
Subject = patientId.ToResourceReference(),
};
imagingStudy.Identifier.Add(imagingStudyIdentifier);
requestMode = FhirTransactionRequestMode.Create;
}
SynchronizeImagingStudyProperties(context, imagingStudy);
if (requestMode != FhirTransactionRequestMode.Create &&
!existingImagingStudy.IsExactly(imagingStudy))
{
requestMode = FhirTransactionRequestMode.Update;
}
Bundle.RequestComponent request = requestMode switch
{
FhirTransactionRequestMode.Create => ImagingStudyPipelineHelper.GenerateCreateRequest(imagingStudyIdentifier),
FhirTransactionRequestMode.Update => ImagingStudyPipelineHelper.GenerateUpdateRequest(imagingStudy),
_ => null,
};
IResourceId resourceId = requestMode switch
{
FhirTransactionRequestMode.Create => new ClientResourceId(),
_ => existingImagingStudy.ToServerResourceId(),
};
return(new FhirTransactionRequestEntry(
requestMode,
request,
resourceId,
imagingStudy));
}
public static Bundle.RequestComponent GenerateUpdateRequest(ImagingStudy imagingStudy)
{
return(new Bundle.RequestComponent()
{
Method = Bundle.HTTPVerb.PUT,
IfMatch = ImagingStudyPipelineHelper.GenerateEtag(imagingStudy.Meta.VersionId),
Url = $"{ResourceType.ImagingStudy.GetLiteral()}/{imagingStudy.Id}",
});
}
private void AddImagingStudyEndpoint(ImagingStudy imagingStudy, FhirTransactionContext context)
{
var endpointReference = context.Request.Endpoint.ResourceId.ToResourceReference();
if (!imagingStudy.Endpoint.Any(endpoint => endpointReference.IsExactly(endpoint)))
{
imagingStudy.Endpoint.Add(endpointReference);
}
}
public static Bundle.RequestComponent GenerateUpdateRequest(ImagingStudy imagingStudy)
{
EnsureArg.IsNotNull(imagingStudy, nameof(imagingStudy));
return(new Bundle.RequestComponent()
{
Method = Bundle.HTTPVerb.PUT,
IfMatch = GenerateEtag(imagingStudy.Meta.VersionId),
Url = $"{ResourceType.ImagingStudy.GetLiteral()}/{imagingStudy.Id}",
});
}
private void AddModality(ImagingStudy imagingStudy, DicomDataset dataset)
{
string modalityInString = ImagingStudyPipelineHelper.GetModalityInString(dataset);
if (modalityInString != null)
{
Coding modality = ImagingStudyPipelineHelper.GetModality(modalityInString);
List <Coding> existingModalities = imagingStudy.Modality;
if (dataset.TryGetValues(DicomTag.ModalitiesInStudy, out string[] modalitiesInStudy) &&
private void btnApply_Click(object sender, EventArgs e)
{
//create the ImagingStudy json using form data
ImagingStudy study = Common.CreateImagingStudy(txtAddAccession.Text, dtStudy.Value.ToString("yyyy-MM-dd"), rbCurrentStudy.Checked);
var serializer = new FhirJsonSerializer(new SerializerSettings()
{
Pretty = true
});
txtAddStudyJson.Text = serializer.SerializeToString(study);
}
public string GetCachedItemMetaData(LifeImageCloudConnection Connection, RoutedItem routedItem, long taskID)
{
Throw.IfNull(Connection);
var taskInfo = $"conn: {Connection.name} taskID: {taskID}";
RootObject rootObject = new RootObject
{
ImagingStudy = new List <ImagingStudy>()
};
ImagingStudy study = new ImagingStudy
{
accession = new Accession(),
patient = new Patient(),
series = new List <Series>()
};
var cacheItem = LifeImageCloudConnection.cache[routedItem.id].ToList();
var query = cacheItem
.GroupBy(item => new { item.Study, item.Series, item.PatientID, item.AccessionNumber })
.Select(grp => new
{
Study = grp.Key.Study,
Series = grp.Key.Series,
PatientID = grp.Key.PatientID,
Accession = grp.Key.AccessionNumber,
Instances = grp.Count()
});
foreach (var result in query)
{
_logger.Log(LogLevel.Debug, $"{taskInfo} Study:{result.Study} Series:{result.Series} PatientID:{result.PatientID} Accession:{result.Accession} Instances:{result.Instances}");
var series = new Series
{
number = result.Instances,
uid = result.Series
};
study.series.Add(series);
}
study.numberOfInstances = query.Sum(x => x.Instances);
study.numberOfSeries = query.Count();
rootObject.ImagingStudy.Add(study);
var json = JsonSerializer.Serialize(rootObject);
_logger.Log(LogLevel.Debug, $"{taskInfo} Json:{json}");
return(json);
}
/// <inheritdoc/>
public async Task <FhirTransactionRequestEntry> BuildAsync(FhirTransactionContext context, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(context, nameof(context));
EnsureArg.IsNotNull(context.ChangeFeedEntry, nameof(context.ChangeFeedEntry));
ChangeFeedEntry changeFeedEntry = context.ChangeFeedEntry;
Identifier imagingStudyIdentifier = ImagingStudyIdentifierUtility.CreateIdentifier(changeFeedEntry.StudyInstanceUid);
ImagingStudy imagingStudy = await _fhirService.RetrieveImagingStudyAsync(imagingStudyIdentifier, cancellationToken);
// Returns null if imagingStudy does not exists for given studyInstanceUid
if (imagingStudy == null)
{
return(null);
}
string imagingStudySource = imagingStudy.Meta.Source;
ImagingStudy.SeriesComponent series = ImagingStudyPipelineHelper.GetSeriesWithinAStudy(changeFeedEntry.SeriesInstanceUid, imagingStudy.Series);
ImagingStudy.InstanceComponent instance = ImagingStudyPipelineHelper.GetInstanceWithinASeries(changeFeedEntry.SopInstanceUid, series);
// Return null if the given instance is not present in ImagingStudy
if (instance == null)
{
return(null);
}
// Removes instance from series collection
series.Instance.Remove(instance);
// Removes series from ImagingStudy if its instance collection is empty
if (series.Instance.Count == 0)
{
imagingStudy.Series.Remove(series);
}
if (imagingStudy.Series.Count == 0 && _dicomWebEndpoint.Equals(imagingStudySource, System.StringComparison.Ordinal))
{
return(new FhirTransactionRequestEntry(
FhirTransactionRequestMode.Delete,
ImagingStudyPipelineHelper.GenerateDeleteRequest(imagingStudy),
imagingStudy.ToServerResourceId(),
imagingStudy));
}
return(new FhirTransactionRequestEntry(
FhirTransactionRequestMode.Update,
ImagingStudyPipelineHelper.GenerateUpdateRequest(imagingStudy),
imagingStudy.ToServerResourceId(),
imagingStudy));
}
private static void AddNote(ImagingStudy imagingStudy, DicomDataset dataset)
{
if (dataset.TryGetSingleValue(DicomTag.StudyDescription, out string description))
{
if (!imagingStudy.Note.Any(note => string.Equals(note.Text.Value, description, StringComparison.Ordinal)))
{
Annotation annotation = new Annotation()
{
Text = new Markdown(description),
};
imagingStudy.Note.Add(annotation);
}
}
}
public async Task GivenAValidCreateChangeFeed_WhenBuilt_ThenCorrectEntryComponentShouldBeCreated()
{
const string studyInstanceUid = "1";
const string seriesInstanceUid = "2";
const string sopInstanceUid = "3";
const string patientResourceId = "p1";
ChangeFeedEntry changeFeedEntry = ChangeFeedGenerator.Generate(
action: ChangeFeedAction.Create,
studyInstanceUid: studyInstanceUid,
seriesInstanceUid: seriesInstanceUid,
sopInstanceUid: sopInstanceUid);
FhirTransactionRequestEntry entry = await BuildImagingStudyEntryComponent(studyInstanceUid, seriesInstanceUid, sopInstanceUid, patientResourceId);
ValidationUtility.ValidateRequestEntryMinimumRequirementForWithChange(FhirTransactionRequestMode.Create, "ImagingStudy", Bundle.HTTPVerb.POST, entry);
ImagingStudy imagingStudy = Assert.IsType <ImagingStudy>(entry.Resource);
string jsonString;
jsonString = JsonSerializer.Serialize(entry);
Assert.IsType <ClientResourceId>(entry.ResourceId);
Assert.Equal(ImagingStudy.ImagingStudyStatus.Available, imagingStudy.Status);
Assert.Null(entry.Request.IfMatch);
ValidationUtility.ValidateResourceReference("Patient/p1", imagingStudy.Subject);
Assert.Collection(
imagingStudy.Identifier,
identifier => ValidationUtility.ValidateIdentifier("urn:dicom:uid", $"urn:oid:{studyInstanceUid}", identifier),
identifier => ValidationUtility.ValidateAccessionNumber(null, FhirTransactionContextBuilder.DefaultAccessionNumber, identifier));
Assert.Collection(
imagingStudy.Series,
series =>
{
Assert.Equal(seriesInstanceUid, series.Uid);
Assert.Collection(
series.Instance,
instance => Assert.Equal(sopInstanceUid, instance.Uid));
});
ValidateDicomFilePropertiesAreCorrectlyMapped(imagingStudy, series: imagingStudy.Series.First(), instance: imagingStudy.Series.First().Instance.First());
}
public void GivenATransactionContextAndImagingStudyWithNoEndpoint_WhenProcessedForStudy_ThenNewEndpointIsAdded()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
_imagingStudyPropertySynchronizer.Synchronize(context, imagingStudy);
Assert.Collection(
imagingStudy.Endpoint,
endPoint => Assert.Equal(context.Request.Endpoint.ResourceId.ToResourceReference(), endPoint));
}
public async Task SyncPropertiesAsync_PartialValidationEnabledAndPropertyRequired_ThrowsError()
{
ImagingStudy imagingStudy = FhirResourceBuilder.CreateNewImagingStudy(DefaultStudyInstanceUid, new List <string>()
{
DefaultSeriesInstanceUid
}, new List <string>()
{
DefaultSopInstanceUid
}, DefaultPatientResourceId);
FhirTransactionContext context = FhirTransactionContextBuilder.DefaultFhirTransactionContext(FhirTransactionContextBuilder.CreateDicomDataset());
Action <ImagingStudy, FhirTransactionContext> actionSubstitute = Substitute.For <Action <ImagingStudy, FhirTransactionContext> >();
actionSubstitute.When(x => x.Invoke(imagingStudy, context)).Do(x => throw new InvalidDicomTagValueException("invalid tag", "invalid tag"));
await Assert.ThrowsAsync <InvalidDicomTagValueException>(() => ImagingStudyPipelineHelper.SynchronizePropertiesAsync(imagingStudy, context, actionSubstitute, true, true, _exceptionStore));
}
