private void RetrievingFilesFromDirectory()
{
try
{
String indexFileName = initialDirectory + @"/index1.htm";
StringBuilder indexContent = new StringBuilder();
indexContent.Append("<center><font size='5' color='#0000ff'>");
if (utility.AnonymizationType)
{
indexContent.Append("Anonymized DCM files (Basic)</font></center>");
}
else
{
indexContent.Append("Anonymized DCM files (Complete)</font></center>");
}
indexContent.Append("<left><font color='black' size = '4'><br></br> Input Directory: " + inputDirectory);
indexContent.Append("</font>");
indexContent.Append("</left>");
indexContent.Append("<br></br>");
indexContent.Append("<font size='3'>");
HLI.DataSet srcDataset = null;
DicomFile dcmFile = null;
allDCMFilesTemp = new ArrayList();
FileInfo mediaInputFileInfo = null;
string mediaFileDir = inputDirectory;
DirectoryInfo theDirectoryInfo = new DirectoryInfo(mediaFileDir);
allDCMFilesTemp = utility.GetFilesRecursively(theDirectoryInfo);
foreach (string fileName in allDCMFilesTemp)
{
mediaInputFileInfo = new FileInfo(fileName);
counter++;
dcmFile = new DicomFile();
dcmFile.Read(fileName, mainThread);
// Get the Data set from the selected DCM file
srcDataset = dcmFile.DataSet;
indexContent.Append("<li><a href='" + mediaInputFileInfo.Name + "_" + counter.ToString() + ".html'>" + fileName.Substring(inputDirectory.Length) + "</a></li>");
HLI.DataSet annonymizedDataset = srcDataset.Clone();
utility.PatientAttributes(annonymizedDataset);
for (int number = 0; number < annonymizedDataset.Count; number++)
{
HLI.Attribute attribute = annonymizedDataset[number];
if (attribute.VR == VR.SQ)
{
utility.SequenceAttribute_recursive(attribute);
}
else
{
utility.CacheAndRepairIdentifyingAttribute(attribute);
utility.UpdateAnonymizedAttributes(attribute);
}
}
//Save annonymized data to selected directory
string savedFileName = "";
if (mediaInputFileInfo.Extension != "")
{
string srcFileNameWithoutExtn = mediaInputFileInfo.Name.Substring(0, (mediaInputFileInfo.Name.Length - 4));
savedFileName = outputDirectory + "\\" + srcFileNameWithoutExtn + "_an";
}
else
{
savedFileName = outputDirectory + "\\" + mediaInputFileInfo.Name + "_an";
}
dcmFile.DataSet = annonymizedDataset;
dcmFile.Write(savedFileName);
datasets = new AttributeCollections();
datasets.Add(srcDataset);
datasets.Add(annonymizedDataset);
//Cleanup temp file
utility.cleanup();
resultFileName = mediaInputFileInfo.Name;
CreateTableWithoutNav();
}
StreamWriter writer = new StreamWriter(indexFileName);
indexContent.Append("</font>");
indexContent.Append("<left><font color='black' size = '4'><br></br> Output Directory: " + outputDirectory);
indexContent.Append("</font>");
indexContent.Append("</left>");
writer.Write(indexContent.ToString());
writer.Close();
dvtkWebBrowser.Navigate(indexFileName);
}
catch (Exception e)
{
MessageBox.Show(e.Message, "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
}
}
protected override void Execute()
{
try
{
WriteHtmlInformation("<br />");
WriteInformation(string.Format("Reading reference media file from {0}", DCMCompareForm.firstDCMFile));
WriteHtmlInformation("<br />");
// Read the DCM File
DicomFile dcmFile = new DicomFile();
DataSet refDataset = new DataSet();
if ((DCMCompareForm.firstDCMFile.ToLower().IndexOf("dicomdir")) != -1)
{
// Read the DICOMDIR dataset
refDataset.DvtkDataDataSet = Dvtk.DvtkDataHelper.ReadDataSetFromFile(DCMCompareForm.firstDCMFile);
}
else
{
dcmFile.Read(DCMCompareForm.firstDCMFile, this);
refDataset = dcmFile.DataSet;
}
refDataset.UnVrDefinitionLookUpWhenReading = false;
FileMetaInformation refFMI = dcmFile.FileMetaInformation;
WriteInformation(string.Format("Reading source media file from {0}", DCMCompareForm.secondDCMFile));
WriteHtmlInformation("<br />");
DataSet srcDataset = new DataSet();
if ((DCMCompareForm.secondDCMFile.ToLower().IndexOf("dicomdir")) != -1)
{
// Read the DICOMDIR dataset
srcDataset.DvtkDataDataSet = Dvtk.DvtkDataHelper.ReadDataSetFromFile(DCMCompareForm.secondDCMFile);
}
else
{
dcmFile.Read(DCMCompareForm.secondDCMFile, this);
srcDataset = dcmFile.DataSet;
}
srcDataset.UnVrDefinitionLookUpWhenReading = false;
FileMetaInformation srcFMI = dcmFile.FileMetaInformation;
// Now get the list of filtered attribute
if (DCMCompareForm.attributesTagList.Count != 0)
{
foreach (string filterAttr in DCMCompareForm.attributesTagList)
{
try
{
if (srcDataset.Exists(filterAttr))
{
srcDataset.Delete(filterAttr);
}
if (refDataset.Exists(filterAttr))
{
refDataset.Delete(filterAttr);
}
}
catch (Exception exception)
{
MessageBox.Show(exception.Message, "Warning", MessageBoxButtons.OK, MessageBoxIcon.Warning);
}
}
DCMCompareForm.attributesTagList.Clear();
}
WriteInformation(string.Format("Comparing the Media files - {0} and {1}", DCMCompareForm.firstDCMFile, DCMCompareForm.secondDCMFile));
WriteHtmlInformation("<br />");
StaticDicomCompare staticDicomCompare = new StaticDicomCompare();
//Determine the VR display based on Transfer syntax
string srcTransferSyntax = "";
string refTransferSyntax = "";
if ((srcFMI != null) && srcFMI.Exists("0x00020010"))
{
// Get the Transfer syntax
DvtkHighLevelInterface.Dicom.Other.Attribute tranferSyntaxAttr = srcFMI["0x00020010"];
srcTransferSyntax = tranferSyntaxAttr.Values[0];
}
else
{
WriteHtmlInformation(string.Format("Couldn't retrieve the Transfer syntax from DCM File {0}", DCMCompareForm.secondDCMFile));
WriteHtmlInformation("<br />");
}
if ((refFMI != null) && refFMI.Exists("0x00020010"))
{
// Get the Transfer syntax
DvtkHighLevelInterface.Dicom.Other.Attribute tranferSyntaxAttr = refFMI["0x00020010"];
refTransferSyntax = tranferSyntaxAttr.Values[0];
}
else
{
WriteHtmlInformation(string.Format("Couldn't retrieve the Transfer syntax from DCM File {0}", DCMCompareForm.firstDCMFile));
WriteHtmlInformation("<br />");
}
FlagsDicomAttribute flags = FlagsDicomAttribute.Compare_values | FlagsDicomAttribute.Compare_present | FlagsDicomAttribute.Include_sequence_items;
if ((srcTransferSyntax == "1.2.840.10008.1.2") ||
(refTransferSyntax == "1.2.840.10008.1.2"))
{
staticDicomCompare.DisplayAttributeVR = false;
}
else
{
flags |= FlagsDicomAttribute.Compare_VR;
}
//Check for group length attributes option
if (DCMCompareForm.filterGroupLengthAttributes)
{
/*for( int i=0; i < srcDataset.Count; i++ )
* {
* HLI.Attribute attribute = srcDataset[i];
* if(attribute.ElementNumber == 0x0000)
* srcDataset.Delete(DCMCompareForm.TagString(attribute.GroupNumber,attribute.ElementNumber));
* }
*
* for( int i=0; i < refDataset.Count; i++ )
* {
* HLI.Attribute attribute = refDataset[i];
* if(attribute.ElementNumber == 0x0000)
* refDataset.Delete(DCMCompareForm.TagString(attribute.GroupNumber,attribute.ElementNumber));
* }*/
staticDicomCompare.DisplayGroupLength = false;
}
int differences = 0;
if ((refFMI != null) && (srcFMI != null))
{
AttributeCollections fmis = new AttributeCollections();
fmis.Add(refFMI);
fmis.Add(srcFMI);
StringCollection fmiDescriptions = new StringCollection();
fmiDescriptions.Add("Ref FMI");
fmiDescriptions.Add("Src FMI");
HLIStaticCompare.CompareResults fmiCompareResults = staticDicomCompare.CompareAttributeSets("FMI compare results", fmis, fmiDescriptions, flags);
WriteHtmlInformation(fmiCompareResults.Table.ConvertToHtml());
differences += fmiCompareResults.DifferencesCount;
NrOfValidationErrors += (uint)fmiCompareResults.DifferencesCount;
}
AttributeCollections datasets = new AttributeCollections();
datasets.Add(refDataset);
datasets.Add(srcDataset);
StringCollection dsDescriptions = new StringCollection();
dsDescriptions.Add("Ref Dataset");
dsDescriptions.Add("Src Dataset");
HLIStaticCompare.CompareResults dsCompareResults = staticDicomCompare.CompareAttributeSets("DataSet compare results", datasets, dsDescriptions, flags);
WriteHtmlInformation(dsCompareResults.Table.ConvertToHtml());
differences += dsCompareResults.DifferencesCount;
WriteHtmlInformation("<b>");
WriteInformation("Differences found: " + differences.ToString());
WriteHtmlInformation("</b><br />");
NrOfValidationErrors += (uint)dsCompareResults.DifferencesCount;
}
catch (Exception exception)
{
MessageBox.Show(exception.Message, "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
}
private void AnonymizeDCMFile()
{
try
{
utility.AnonymizationType = anonymizationMode;
CreateDICOMDIR.Enabled = true;
OpenFileDialog fileDialog = new OpenFileDialog();
fileDialog.Multiselect = false;
fileDialog.ReadOnlyChecked = true;
fileDialog.Title = "Select DCM File";
fileDialog.Filter = "DCM files (*.dcm) |*.dcm|All files (*.*)|*.*";
// Show the file dialog.
// If the user pressed the OK button...
if (fileDialog.ShowDialog() == DialogResult.OK)
{
DicomFile dcmFile = new DicomFile();
dcmFile.Read(fileDialog.FileName, mainThread);
// Get the Data set from the selected DCM file
HLI.DataSet srcDataset = dcmFile.DataSet;
SaveFileDialog saveDialog = new SaveFileDialog();
FileInfo saveFileInfo = null;
saveDialog.Filter = "DCM files (*.dcm) |*.dcm|All files (*.*)|*.*";
if (saveDialog.ShowDialog() == DialogResult.OK)
{
HLI.DataSet annonymizedDataset = srcDataset.Clone();
utility.PatientAttributes(annonymizedDataset);
for (int number = 0; number < annonymizedDataset.Count; number++)
{
HLI.Attribute attribute = annonymizedDataset[number];
if (attribute.VR == VR.SQ)
{
utility.SequenceAttribute_recursive(attribute);
}
else
{
utility.CacheAndRepairIdentifyingAttribute(attribute);
utility.UpdateAnonymizedAttributes(attribute);
}
}
datasets = new AttributeCollections();
datasets.Add(srcDataset);
datasets.Add(annonymizedDataset);
//Save annonymized data to selected file
saveFileInfo = new FileInfo(saveDialog.FileName);
dcmFile.DataSet = annonymizedDataset;
dcmFile.Write(saveFileInfo.FullName);
//Cleanup temp file
utility.cleanup();
}
else
{
return;
}
string htmlFileName = initialDirectory + "\\" + saveFileInfo.Name + ".html";
XmlTextWriter writer = new XmlTextWriter(htmlFileName, System.Text.Encoding.UTF8);
writer.WriteStartElement("b");
writer.WriteRaw(@"<b><font size='3' color='#ff0000'>DCM File Anonymization Started...</font></b>");
writer.WriteEndElement();
writer.Close();
resultFileName = htmlFileName;
System.Threading.Thread t = new System.Threading.Thread(new ThreadStart(CreateTable));
dvtkWebBrowser.Navigate(htmlFileName);
t.Start();
}
}
catch (Exception ex)
{
MessageBox.Show(ex.Message, "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
}
}
/// <summary>
/// Compare the DICOM files in the two directories based on there being corresponding
/// files in each directory with the same attribute value for the matching Tag.
/// </summary>
/// <param name="directory1">Full directory name of first directory.</param>
/// <param name="directory2">Full directory name of second directory.</param>
/// <param name="matchingTag">DICOM Tag value to match in a file in each directory.</param>
/// <returns>Total number of differences between compared files.</returns>
public int Compare(String directory1, String directory2, DvtkData.Dimse.Tag matchingTag)
{
int totalDifferences = 0;
StreamWriter htmlOutput = null;
try
{
// create the output file writer if necessary
if (_htmlOutputFilename != String.Empty)
{
htmlOutput = new StreamWriter(_htmlOutputFilename);
}
// compare all files in directory 1 with corresponding files in directory 2
// - the files compared is based on them having the same attribute value for the
// Tag given.
DirectoryInfo directoryInfo = new DirectoryInfo(directory1);
FileInfo[] fileInfo = directoryInfo.GetFiles();
for (int i = 0; i < fileInfo.Length; i++)
{
DataSet dataset1 = new DataSet();
String filename1 = fileInfo[i].FullName;
dataset1.DvtkDataDataSet = Dvtk.DvtkDataHelper.ReadDataSetFromFile(filename1);
// get the attribute value for the matching tag from this dataset
String valueToMatch = GetAttributeValueFromDataset(dataset1, matchingTag);
if (valueToMatch != String.Empty)
{
// try to find a dataset (file) containing the same value in directory 2
String filename2 = String.Empty;
DataSet dataset2 = GetMatchingDatasetFromStoreDataDirectory(directory2, matchingTag, valueToMatch, out filename2);
// if a dataset is returned that contains the matching attribute value go on to compare all the attributes
// in both datasets with eachother
if (dataset2 != null)
{
// get a new compare instance and set the comparison flags
StaticDicomCompare staticDicomCompare = new StaticDicomCompare();
FlagsDicomAttribute flags = FlagsDicomAttribute.Compare_values | FlagsDicomAttribute.Compare_present | FlagsDicomAttribute.Include_sequence_items;
if (_compareVr == false)
{
staticDicomCompare.DisplayAttributeVR = false;
}
else
{
flags |= FlagsDicomAttribute.Compare_VR;
}
staticDicomCompare.DisplayGroupLength = _displayGroupLength;
dataset1.UnVrDefinitionLookUpWhenReading = _unVrDefinitionLookUpWhenReading;
dataset2.UnVrDefinitionLookUpWhenReading = _unVrDefinitionLookUpWhenReading;
AttributeCollections datasets = new AttributeCollections();
datasets.Add(dataset1);
datasets.Add(dataset2);
StringCollection datasetDescriptions = new StringCollection();
datasetDescriptions.Add(filename1);
datasetDescriptions.Add(filename2);
String title = String.Format("Comparison Results with matching using Tag with {0}", matchingTag.ToString());
DvtkHighLevelInterface.Common.Compare.CompareResults datasetCompareResults = staticDicomCompare.CompareAttributeSets(title, datasets, datasetDescriptions, flags);
if (htmlOutput != null)
{
if (_includeDetailedResults == true)
{
htmlOutput.WriteLine(datasetCompareResults.Table.ConvertToHtml());
}
else
{
htmlOutput.WriteLine("<br />");
String message = String.Format("Compared {0} with {1} - number of differences: {2}", filename1, filename2, datasetCompareResults.DifferencesCount);
htmlOutput.WriteLine(message);
htmlOutput.WriteLine("<br />");
}
}
// update the total differences counter
totalDifferences += datasetCompareResults.DifferencesCount;
}
}
}
}
catch (System.Exception)
{
}
if (htmlOutput != null)
{
htmlOutput.Flush();
htmlOutput.Close();
}
return(totalDifferences);
}
