public void Deserialize_SingleRequest()
{
var xml = @"<!DOCTYPE TagElevationRequestCollection
[
<!ELEMENT TagElevationRequestCollection (TagElevationRequest*)>
<!ELEMENT TagElevationRequest (ColumnName,ElevationPathway,Conditional?)>
<!ELEMENT ColumnName (#PCDATA)>
<!ELEMENT ElevationPathway (#PCDATA)>
<!ELEMENT Conditional (ConditionalPathway,ConditionalRegex)>
<!ELEMENT ConditionalPathway (#PCDATA)>
<!ELEMENT ConditionalRegex (#PCDATA)>
]>
<TagElevationRequestCollection>
<TagElevationRequest>
<ColumnName>ContentSequenceDescriptions</ColumnName>
<ElevationPathway>ContentSequence->TextValue</ElevationPathway>
<Conditional>
<ConditionalPathway>.->ConceptNameCodeSequence->CodeMeaning</ConditionalPathway>
<ConditionalRegex>Tr.*[e-a]{2}tment</ConditionalRegex>
</Conditional>
</TagElevationRequest>
</TagElevationRequestCollection>";
var collection = new TagElevationRequestCollection(xml);
Assert.AreEqual(1, collection.Requests.Count);
Assert.AreEqual("ContentSequence->TextValue", collection.Requests[0].ElevationPathway);
Assert.AreEqual("ContentSequenceDescriptions", collection.Requests[0].ColumnName);
Assert.AreEqual(".->ConceptNameCodeSequence->CodeMeaning", collection.Requests[0].ConditionalPathway);
Assert.AreEqual("Tr.*[e-a]{2}tment", collection.Requests[0].ConditionalRegex);
}
private void RunChecks()
{
RagSmiley1.Reset();
try
{
var collection = new TagElevationRequestCollection(queryEditor.Text);
RagSmiley1.OnCheckPerformed(new CheckEventArgs("Succesfully created elevator", CheckResult.Success));
}
catch (Exception ex)
{
RagSmiley1.Fatal(ex);
}
}
/// <summary>
/// Iterates through each DicomItem in the DicomDataset and creates a corresponding column in the DataTable (if it is a novel tag) and then populates
/// the DataTable with the data for the image.
/// </summary>
/// <param name="filename"></param>
/// <param name="ds"></param>
/// <param name="dt"></param>
/// <param name="listener"></param>
/// <param name="otherValuesToStoreInRow"></param>
protected void ProcessDataset(string filename, DicomDataset ds, DataTable dt, IDataLoadEventListener listener, Dictionary <string, string> otherValuesToStoreInRow = null)
{
if (_elevationRequests == null)
{
_elevationRequests = LoadElevationRequestsFile();
}
filename = ApplyArchiveRootToMakeRelativePath(filename);
var rowValues = new Dictionary <string, object>();
foreach (DicomItem item in ds)
{
//get the tag name (human readable)
var entry = item.Tag.DictionaryEntry;
string header = entry.Keyword;
if (ShouldSkip(dt, item.Tag))
{
continue;
}
object value;
switch (InvalidDataHandlingStrategy)
{
case InvalidDataHandling.ThrowException:
//enforce types and leave any Exceptions uncaught
value = DicomTypeTranslater.Flatten(DicomTypeTranslaterReader.GetCSharpValue(ds, item));
break;
case InvalidDataHandling.MarkCorrupt:
try
{
//try to enforce types
value = DicomTypeTranslater.Flatten(DicomTypeTranslaterReader.GetCSharpValue(ds, item));
}
catch (Exception ex)
{
//something went wrong pulling out the value
//mark it as corrupt
MarkCorrupt(ds);
//but make sure to warn people listening
listener.OnNotify(this, new NotifyEventArgs(ProgressEventType.Warning, "Could not GetCSharpValue for DicomItem " + item.Tag + "(" + entry.Keyword + ") for " + GetProblemFileDescription(filename, otherValuesToStoreInRow), ex));
//do not add the row to the table
return;
}
break;
case InvalidDataHandling.ConvertToNullAndWarn:
//try to enforce types
try
{
value = DicomTypeTranslater.Flatten(DicomTypeTranslaterReader.GetCSharpValue(ds, item));
}
catch (Exception ex)
{
//but make sure to warn people listening
listener.OnNotify(this, new NotifyEventArgs(ProgressEventType.Warning, "Could not GetCSharpValue for DicomItem " + item.Tag + "(" + entry.Keyword + ") for " + GetProblemFileDescription(filename, otherValuesToStoreInRow), ex));
if (InvalidDataHandlingStrategy == InvalidDataHandling.MarkCorrupt)
{
MarkCorrupt(ds);
continue;
}
//It went wrong, we couldn't enforce the type so just use null instead
value = DBNull.Value;
}
break;
default:
throw new ArgumentOutOfRangeException();
}
if (value is string && DataTooLongHandlingStrategy != DataTooWideHandling.None)
{
if (!IsValidLength(listener, item.Tag, (string)value))
{
//the string is too long!
switch (DataTooLongHandlingStrategy)
{
case DataTooWideHandling.TruncateAndWarn:
lock (_oDictLock)
{
value = ((string)value).Substring(0, _maxTagLengths[item.Tag]);
}
break;
case DataTooWideHandling.MarkCorrupt:
MarkCorrupt(ds);
continue;
case DataTooWideHandling.ConvertToNullAndWarn:
value = DBNull.Value;
break;
default:
throw new ArgumentOutOfRangeException();
}
}
}
try
{
rowValues.Add(header, value);
}
catch (Exception e)
{
listener.OnNotify(this, new NotifyEventArgs(ProgressEventType.Warning, "Error getting Tag '" + header + "' item.ValueRepresentation is (" + item.ValueRepresentation + ") " + GetProblemFileDescription(filename, otherValuesToStoreInRow), e));
}
}
//now run elevation requests
if (_elevationRequests != null)
{
foreach (TagElevationRequest request in _elevationRequests.Requests)
{
try
{
object value;
switch (InvalidDataHandlingStrategy)
{
case InvalidDataHandling.ThrowException:
value = request.Elevator.GetValue(ds);
break;
case InvalidDataHandling.ConvertToNullAndWarn:
try
{
value = request.Elevator.GetValue(ds);
}
catch (Exception e)
{
if (e is TagNavigationException)
{
throw;
}
listener.OnNotify(this, new NotifyEventArgs(ProgressEventType.Warning, "Error getting Tag for ElevationRequest '" + request.ColumnName + "' for " + GetProblemFileDescription(filename, otherValuesToStoreInRow), e));
value = DBNull.Value;
}
break;
default:
throw new ArgumentOutOfRangeException();
}
rowValues.Add(request.ColumnName, value);
}
catch (TagNavigationException e)
{
listener.OnNotify(this, new NotifyEventArgs(ProgressEventType.Warning, "Rule for column " + request.ColumnName + " failed to resolve GetValue for " + GetProblemFileDescription(filename, otherValuesToStoreInRow), e));
}
}
}
//do not add rows if there is nothing to store
if (!rowValues.Any())
{
return;
}
lock (_oDataTableLock)
{
var row = dt.Rows.Add();
row[FilenameField] = filename;
if (otherValuesToStoreInRow != null)
{
foreach (KeyValuePair <string, string> kvp in otherValuesToStoreInRow)
{
if (!dt.Columns.Contains(kvp.Key))
{
dt.Columns.Add(kvp.Key);
}
row[kvp.Key] = kvp.Value;
}
}
foreach (KeyValuePair <string, object> keyValuePair in rowValues)
{
Add(dt, row, keyValuePair.Key, keyValuePair.Value);
}
}
}
