/// <summary>
/// Searches for Studies in the local path, specified by the user in the <see cref="Configuration"/>,
/// and indexed by the DICOMDIR database.
/// Implements a local C-FIND at STUDY level command of the DICOM standard
/// </summary>
/// <param name="configuration">Info on the path and hierarchy used to store the DICOM files.</param>
public static List <Study> CFINDLocalStudies(Configuration configuration)
{
string dicomDirPath = Path.Combine(configuration.fileDestination, "DICOMDIR");
// prepare to receive data
var localStudyResponses = new List <Study>();
using (var fileStream = new FileStream(dicomDirPath, FileMode.OpenOrCreate, FileAccess.ReadWrite, FileShare.None))
{
var dicomDir = DicomDirectory.Open(fileStream);
if (dicomDir != null)
{
foreach (var patientRecord in dicomDir.RootDirectoryRecordCollection)
{
foreach (var studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
studyRecord.Add(DicomTag.PatientName, patientRecord.GetSingleValue <string>(DicomTag.PatientName));
studyRecord.Add(DicomTag.PatientID, patientRecord.GetSingleValue <string>(DicomTag.PatientID));
Study myStudy = new Study(studyRecord, configuration.studyTemplate);
localStudyResponses.Add(myStudy);
}
}
}
}
return(localStudyResponses);
}
/// <summary>
/// Searches for the Series matching a given <see cref="Study"/>, in the local path specified by the user in the <see cref="Configuration"/>, and indexed by the DICOMDIR database.
/// Implements a local C-FIND at SERIES level command of the DICOM standard.
/// Implements
/// </summary>
/// <param name="configuration">Info on the path and hierarchy used to store the DICOM files.</param>
public static List <Series> CFINDLocalSeries(Configuration configuration, Study study)
{
string dicomDirPath = Path.Combine(configuration.fileDestination, "DICOMDIR");
// prepare to receive data
var localSeriesResponses = new List <Series>();
using (var fileStream = new FileStream(dicomDirPath, FileMode.OpenOrCreate, FileAccess.ReadWrite, FileShare.None))
{
var dicomDir = DicomDirectory.Open(fileStream);
if (dicomDir != null)
{
foreach (var patientRecord in dicomDir.RootDirectoryRecordCollection)
{
foreach (var studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
if (studyRecord.GetSingleValue <string>(DicomTag.StudyInstanceUID) ==
study.getStudyInstanceUID())
{
foreach (var seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
seriesRecord.Add(DicomTag.StudyInstanceUID,
studyRecord.GetSingleValue <string>(DicomTag.StudyInstanceUID));
seriesRecord.Add(DicomTag.StudyDate,
studyRecord.GetSingleValue <string>(DicomTag.StudyDate));
Series mySeries = new Series(seriesRecord, configuration.seriesTemplate);
localSeriesResponses.Add(mySeries);
}
}
}
}
}
}
return(localSeriesResponses);
}
public void AddFile_AnonymizedSeries_AllFilesAddedToSameStudySeriesNode()
{
var dicomFiles = GetDicomFilesFromZip(TestData.Resolve("abd1.zip"));
// Anonymize all files
var anonymizer = new DicomAnonymizer();
foreach (var dicomFile in dicomFiles)
{
anonymizer.AnonymizeInPlace(dicomFile);
}
// Create DICOM directory
var dicomDir = new DicomDirectory();
foreach (var dicomFile in dicomFiles)
{
var entry = dicomDir.AddFile(dicomFile);
Assert.Equal(dicomFile.Dataset.GetSingleValue <string>(DicomTag.SOPInstanceUID), entry.InstanceRecord.GetSingleValue <string>(DicomTag.ReferencedSOPInstanceUIDInFile));
Assert.Equal(dicomFile.Dataset.GetSingleValue <string>(DicomTag.SeriesInstanceUID), entry.SeriesRecord.GetSingleValue <string>(DicomTag.SeriesInstanceUID));
Assert.Equal(dicomFile.Dataset.GetSingleValue <string>(DicomTag.StudyInstanceUID), entry.StudyRecord.GetSingleValue <string>(DicomTag.StudyInstanceUID));
}
var imageNodes = dicomDir.RootDirectoryRecord.LowerLevelDirectoryRecord.LowerLevelDirectoryRecord
.LowerLevelDirectoryRecordCollection;
Assert.Equal(dicomFiles.Count, imageNodes.Count());
}
/// <summary>
/// Load a DICOMDIR
/// </summary>
/// <param name="filename"></param>
public void Load(string filename)
{
try
{
_dir = new DicomDirectory(_aeTitle);
_dir.Load(filename);
// Show a simple traversal
foreach (DirectoryRecordSequenceItem patientRecord in _dir.RootDirectoryRecordCollection)
{
PatientRecords++;
foreach (DirectoryRecordSequenceItem studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
StudyRecords++;
foreach (DirectoryRecordSequenceItem seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
SeriesRecords++;
foreach (DirectoryRecordSequenceItem instanceRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
InstanceRecords++;
}
}
}
}
Platform.Log(LogLevel.Info, "Loaded DICOMDIR with {0} Patient Records, {1} Study Records, {2} Series Records, and {3} Image Records",
PatientRecords, StudyRecords, SeriesRecords, InstanceRecords);
}
catch (Exception e)
{
Platform.Log(LogLevel.Error, e, "Unexpected exception reading DICOMDIR: {0}", filename);
}
}
private static void ReadMedia(string fileName)
{
var dicomDirectory = DicomDirectory.Open(fileName);
foreach (var patientRecord in dicomDirectory.RootDirectoryRecordCollection)
{
Console.WriteLine(
"Patient: {0} ({1})",
patientRecord.GetSingleValue<string>(DicomTag.PatientName),
patientRecord.GetSingleValue<string>(DicomTag.PatientID));
foreach (var studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
Console.WriteLine("\tStudy: {0}", studyRecord.GetSingleValue<string>(DicomTag.StudyInstanceUID));
foreach (var seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
Console.WriteLine("\t\tSeries: {0}", seriesRecord.GetSingleValue<string>(DicomTag.SeriesInstanceUID));
foreach (var imageRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
Console.WriteLine(
"\t\t\tImage: {0} [{1}]",
imageRecord.GetSingleValue<string>(DicomTag.ReferencedSOPInstanceUIDInFile),
imageRecord.GetSingleValue<string>(DicomTag.ReferencedFileID));
}
}
}
}
}
public void AddFile_AnonymizedSeries_AllFilesAddedToDifferentPatientNodes()
{
var dicomFiles = GetDicomFilesFromZip(TestData.Resolve("abd1.zip"));
// Anonymize all files
var patname = "Pat^Name";
var patname2 = "Pat^^Name^^";
var patname3 = "PAT Name";
var patname4 = "Name^Pat";
var anonymizer = new DicomAnonymizer();
foreach (var dicomFile in dicomFiles)
{
anonymizer.AnonymizeInPlace(dicomFile);
dicomFile.Dataset.AddOrUpdate(DicomTag.PatientName, patname);
}
// the name of the first image is slightly different
dicomFiles.First().Dataset.AddOrUpdate(DicomTag.PatientName, patname2);
dicomFiles.ElementAt(1).Dataset.AddOrUpdate(DicomTag.PatientName, patname3);
dicomFiles.ElementAt(2).Dataset.AddOrUpdate(DicomTag.PatientName, patname4);
// Create DICOM directory
var dicomDir = new DicomDirectory();
foreach (var dicomFile in dicomFiles)
{
var entry = dicomDir.AddFile(dicomFile);
Assert.Equal(dicomFile.Dataset.GetSingleValue <string>(DicomTag.SOPInstanceUID), entry.InstanceRecord.GetSingleValue <string>(DicomTag.ReferencedSOPInstanceUIDInFile));
Assert.Equal(dicomFile.Dataset.GetSingleValue <string>(DicomTag.SeriesInstanceUID), entry.SeriesRecord.GetSingleValue <string>(DicomTag.SeriesInstanceUID));
Assert.Equal(dicomFile.Dataset.GetSingleValue <string>(DicomTag.StudyInstanceUID), entry.StudyRecord.GetSingleValue <string>(DicomTag.StudyInstanceUID));
}
// there shall be only one patient record
Assert.Equal(4, dicomDir.RootDirectoryRecordCollection.Count());
}
public void Open_MediaStorageSOPInstanceUID_ShouldBeConsistent()
{
var dir = DicomDirectory.Open(TestData.Resolve("DICOMDIR"));
var expected = dir.FileMetaInfo.GetSingleValue <DicomUID>(DicomTag.MediaStorageSOPInstanceUID).UID;
var actual = dir.MediaStorageSOPInstanceUID.UID;
Assert.Equal(expected, actual);
}
public async Task OpenAsync_DicomDirFile_Succeeds()
{
var dir = await DicomDirectory.OpenAsync(TestData.Resolve("DICOMDIR"));
var expected = DicomUID.MediaStorageDirectoryStorage.UID;
var actual = dir.FileMetaInfo.MediaStorageSOPClassUID.UID;
Assert.Equal(expected, actual);
}
public void Open_DicomDirStream_Succeeds()
{
using var stream = File.OpenRead(TestData.Resolve("DICOMDIR"));
var dir = DicomDirectory.Open(stream);
var expected = DicomUID.MediaStorageDirectoryStorage.UID;
var actual = dir.FileMetaInfo.MediaStorageSOPClassUID.UID;
Assert.Equal(expected, actual);
}
void cmd_DataSetStored(object sender, DataSetStoredEventArgs e)
{
if (DicomDirectory != null)
{
DicomDirectory.InsertDataSet(e.DataSet, e.ReferencedFileName);
}
#if DEBUG
Console.WriteLine(e.ReferencedFileName);
#endif
}
public void ShowDicomDirectoryMetaInformation(DicomDirectory dicomDirectory)
{
_log($"Dicom Directory Information:");
var fileMetaInfo = dicomDirectory.FileMetaInfo;
_log($"Media Storage SOP Class UID: '{fileMetaInfo.MediaStorageSOPClassUID}'");
_log($"Media Storage SOP Instance UID: '{fileMetaInfo.MediaStorageSOPInstanceUID}'");
_log($"Transfer Syntax: '{fileMetaInfo.TransferSyntax}'");
_log($"Implementation Class UID: '{fileMetaInfo.ImplementationClassUID}'");
_log($"Implementation Version Name: '{fileMetaInfo.ImplementationVersionName}'");
_log($"Source Application Entity Title: '{fileMetaInfo.SourceApplicationEntityTitle}'");
}
/// <summary>
/// Scan files and write to <see cref="DicomDirectory"/>.
/// </summary>
/// <param name="path"></param>
/// <returns></returns>
private static DicomDirectory WriteMedia(string path)
{
var dirInfo = new DirectoryInfo(path);
var dicomDir = new DicomDirectory();
foreach (var file in dirInfo.GetFiles("*.*", SearchOption.AllDirectories))
{
var dicomFile = DicomFile.Open(file.FullName);
dicomDir.AddFile(dicomFile, string.Format(@"00001\{0}", file.Name));
}
return(dicomDir);
}
public void AddFile_LongFilename_WithGlobalValidationSupression()
{
string filename = "TestPattern_Palette_16.dcm";
var dicomFile = DicomFile.Open(TestData.Resolve(filename));
var dicomDir = new DicomDirectory()
{
AutoValidate = false
};
Assert.Null(Record.Exception(()
=> dicomDir.AddFile(dicomFile, filename)));
Assert.Single(dicomDir.RootDirectoryRecordCollection);
}
static void WriteMedia(string path)
{
var dicomDirPath = Path.Combine("D:\\", "DICOMDIR.dcm");
var dirInfo = new DirectoryInfo(path);
var dicomDir = new DicomDirectory();
foreach (var file in dirInfo.GetFiles("*.*", SearchOption.AllDirectories))
{
var dicomFile = DicomFile.Open(file.FullName);
dicomDir.AddFile(dicomFile, file.FullName);
}
dicomDir.Save(dicomDirPath);
}
public void AddFile_LongFilename()
{
string filename = "TestPattern_Palette_16.dcm";
var dicomFile = DicomFile.Open(TestData.Resolve(filename));
var dicomDir = new DicomDirectory();
Assert.True(dicomDir.ValidateItems);
Assert.Throws <DicomValidationException>(()
=> dicomDir.AddFile(dicomFile, filename));
dicomDir.AutoValidate = false;
dicomDir.AddFile(dicomFile, filename);
Assert.Single(dicomDir.RootDirectoryRecordCollection);
}
private static void WriteMedia(string path)
{
var dicomDirPath = Path.Combine(path, "DICOMDIR");
var dirInfo = new DirectoryInfo(path);
var dicomDir = new DicomDirectory();
foreach (var file in dirInfo.GetFiles("*.*", SearchOption.AllDirectories))
{
var dicomFile = DicomFile.Open(file.FullName);
dicomDir.AddFile(dicomFile, string.Format(@"000001\{0}", file.Name));
}
dicomDir.Save(dicomDirPath);
}
public void CreateDicomdirTest()
{
DicomFile file = new DicomFile("CreateFileTest.dcm");
SetupMR(file.DataSet);
SetupMetaInfo(file);
DicomDirectory writer = new DicomDirectory("");
int fileCount = 1;
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("CreateXaFileTest.dcm");
SetupMultiframeXA(file.DataSet, 256, 256, 10);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
DicomFile newfile = new DicomFile("test2.dcm");
SetupKoForImage(newfile.DataSet, file.DataSet);
SetupMetaInfo(newfile);
writer.AddFile(newfile, String.Format("DICOM\\FILE{0}", fileCount++));
IList <DicomAttributeCollection> seriesList = SetupMRSeries(2, 2, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
fileCount++;
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DIR001\\FILE{0}", fileCount));
}
writer.FileSetId = "TestDicomdir";
writer.Save("DICOMDIR");
DicomDirectory reader = new DicomDirectory("");
reader.Load("DICOMDIR");
string failureReason;
Assert.IsTrue(Compare(writer.RootDirectoryRecord, reader.RootDirectoryRecord, out failureReason), failureReason);
}
static void Main(string[] args)
{
LogToDebugConsole("Performing Dicom directory dump:");
try
{
var dicomDirectory = DicomDirectory.Open(PathToDicomDirectoryFile);
LogToDebugConsole(dicomDirectory.WriteToString());
LogToDebugConsole("Dicom directory dump operation was successful");
}
catch (Exception ex)
{
LogToDebugConsole($"Error occured during Dicom directory dump. Error:{ex.Message}");
}
}
private void pictureBox1_Click(object sender, EventArgs e)
{
FolderBrowserDialog dialog = new FolderBrowserDialog();
dialog.Description = "请选择文件路径";
if (dialog.ShowDialog() == DialogResult.OK)
{
var studyDir = new DirectoryInfo(dialog.SelectedPath);
var dicomDir = new DicomDirectory();
foreach (var file in studyDir.GetFiles("*.*", SearchOption.AllDirectories))
{
string dicomFile = file.FullName;
AddFile(dicomFile);
}
UpdateIcon();
}
}
private static void updateDatabase()
{
var configuration = new Configuration();
string fileDestination = configuration.fileDestination;
string dicomDirPath = Path.Combine(fileDestination, "DICOMDIR");
using (var fileStream = new FileStream(dicomDirPath, FileMode.OpenOrCreate, FileAccess.ReadWrite, FileShare.None))
{
var dicomDir = new DicomDirectory();
int i = 0;
foreach (string file in Directory.EnumerateFiles(fileDestination, "*.dcm*", SearchOption.AllDirectories))
{
var dicomFile = DicomFile.Open(file);
dicomDir.AddFile(dicomFile, i.ToString()); i++;
}
dicomDir.Save(fileStream);
}
}
public void Add(DicomDirectory dir)
{
_treeViewDicomdir.BeginUpdate();
_treeViewDicomdir.TopNode = new TreeNode();
TreeNode topNode = new TreeNode("DICOMDIR: " + dir.FileSetId);
_treeViewDicomdir.Nodes.Add(topNode);
foreach (DirectoryRecordSequenceItem patientRecord in dir.RootDirectoryRecordCollection)
{
TreeNode patientNode = new TreeNode(patientRecord.ToString());
topNode.Nodes.Add(patientNode);
AddTagNodes(patientNode, patientRecord);
foreach (DirectoryRecordSequenceItem studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
TreeNode studyNode = new TreeNode(studyRecord.ToString());
patientNode.Nodes.Add(studyNode);
AddTagNodes(studyNode, studyRecord);
foreach (DirectoryRecordSequenceItem seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
TreeNode seriesNode = new TreeNode(seriesRecord.ToString());
studyNode.Nodes.Add(seriesNode);
AddTagNodes(seriesNode, seriesRecord);
foreach (DirectoryRecordSequenceItem instanceRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
TreeNode instanceNode = new TreeNode(instanceRecord.ToString());
seriesNode.Nodes.Add(instanceNode);
AddTagNodes(instanceNode, instanceRecord);
}
}
}
}
_treeViewDicomdir.EndUpdate();
}
public void Add(DicomDirectory dir)
{
_treeViewDicomdir.BeginUpdate();
_treeViewDicomdir.TopNode = new TreeNode();
TreeNode topNode = new TreeNode("DICOMDIR: " + dir.FileSetId);
_treeViewDicomdir.Nodes.Add( topNode);
foreach (DirectoryRecordSequenceItem patientRecord in dir.RootDirectoryRecordCollection)
{
TreeNode patientNode = new TreeNode(patientRecord.ToString());
topNode.Nodes.Add(patientNode);
AddTagNodes(patientNode, patientRecord);
foreach (DirectoryRecordSequenceItem studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
TreeNode studyNode = new TreeNode(studyRecord.ToString());
patientNode.Nodes.Add(studyNode);
AddTagNodes(studyNode, studyRecord);
foreach (DirectoryRecordSequenceItem seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
TreeNode seriesNode = new TreeNode(seriesRecord.ToString());
studyNode.Nodes.Add(seriesNode);
AddTagNodes(seriesNode, seriesRecord);
foreach (DirectoryRecordSequenceItem instanceRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
TreeNode instanceNode = new TreeNode(instanceRecord.ToString());
seriesNode.Nodes.Add(instanceNode);
AddTagNodes(instanceNode, instanceRecord);
}
}
}
}
_treeViewDicomdir.EndUpdate();
}
private void CreateDirFile(string fileRootPath)
{
var path = Directory.GetParent(Environment.CurrentDirectory).Parent.FullName + "\\dicomviewer";
var dirInfo = new DirectoryInfo(fileRootPath);
var dicomDir = new DicomDirectory();
foreach (var file in dirInfo.GetFiles("*.*", SearchOption.AllDirectories))
{
var dicomFile = Dicom.DicomFile.Open(file.FullName);
if (file.Length > (1024 * 10))
{
dicomDir.AddFile(dicomFile, String.Format(@"DICOMOBJ\{0}", file.Name));
}
}
var dicomDirPath = Path.Combine(path, "DICOMDIR");
dicomDir.Save(dicomDirPath);
}
static void Main(string[] args)
{
LogToDebugConsole("Creating Dicom directory...");
try
{
//location where we will create the DICOMDIR file from the images
var pathToOutputDicomDirectoryFile = Path.Combine(PathToDicomImages, "DICOMDIR");
if (File.Exists(pathToOutputDicomDirectoryFile))
{
LogToDebugConsole($"Dicom directory file already exists at '{pathToOutputDicomDirectoryFile}'. Deleting...");
File.Delete(pathToOutputDicomDirectoryFile);
}
var directoryInfoForDicomImagesFolder = new DirectoryInfo(PathToDicomImages);
var dicomDir = new DicomDirectory();
foreach (var file in directoryInfoForDicomImagesFolder.GetFiles("*.*", SearchOption.AllDirectories))
{
var dicomFile = Dicom.DicomFile.Open(file.FullName);
dicomDir.AddFile(dicomFile, $@"000001\{file.Name}");
}
dicomDir.Save(pathToOutputDicomDirectoryFile);
LogToDebugConsole($"Dicom directory creation was successful. DICOMDIR file created at '{pathToOutputDicomDirectoryFile}'");
var dicomDirectory = DicomDirectory.Open(pathToOutputDicomDirectoryFile);
LogToDebugConsole("Outputing the newly created DICOM directory information to console");
LogToDebugConsole(dicomDirectory.WriteToString());
}
catch (Exception ex)
{
LogToDebugConsole($"Error occured during Dicom directory dump. Error:{ex.Message}");
}
}
public static DicomDirFileSet Load(string filename)
{
var dicomDirectory = new DicomDirectory(String.Empty);
dicomDirectory.Load(filename);
var directoryName = Path.GetDirectoryName(filename);
DicomDirFileSet tmp = new DicomDirFileSet(dicomDirectory.FileSetId);
foreach (var item in dicomDirectory.RootDirectoryRecordCollection)
{
if (item.DirectoryRecordType != DirectoryRecordType.Patient)
{
throw new InvalidOperationException();
}
foreach (var subItem in item.LowerLevelDirectoryRecordCollection)
{
if (subItem.DirectoryRecordType == DirectoryRecordType.Study)
{
try
{
tmp.Studies.Add(new LocalStudy(subItem, tmp, directoryName));
}
catch (Exception)
{
// TODO
Platform.Log(LogLevel.Warn, "invaild data when load dicom dir");
}
}
else
{
throw new InvalidOperationException();
}
}
}
return(tmp);
}
static void Main(string[] args)
{
LogToDebugConsole("Performing Dicom directory dump:");
try
{
var dicomDirectory = DicomDirectory.Open(PathToDicomDirectoryFile);
var dicomDirectoryHelper = new OurDicomDirectoryHelper(LogToDebugConsole);
dicomDirectoryHelper.ShowDicomDirectoryMetaInformation(dicomDirectory);
foreach (var patientRecord in dicomDirectory.RootDirectoryRecordCollection)
{
dicomDirectoryHelper.Display(patientRecord);
foreach (var studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
dicomDirectoryHelper.Display(studyRecord);
foreach (var seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
dicomDirectoryHelper.Display(seriesRecord);
foreach (var imageRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
dicomDirectoryHelper.Display(imageRecord);
}
}
}
}
LogToDebugConsole("Dicom directory dump operation was successful");
}
catch (Exception ex)
{
LogToDebugConsole($"Error occured during Dicom directory dump. Error:{ex.Message}");
}
}
public void AddFile_InvalidUIDInExistingFileShouldNotThrow()
{
// first create a file with invalid UIDs
string filename = "TestPattern_Palette_16.dcm";
var dicomFile = DicomFile.Open(TestData.Resolve(filename));
var invalidDs = dicomFile.Dataset.NotValidated();
invalidDs.AddOrUpdate(DicomTag.SOPInstanceUID, "1.2.4.100000.94849.4239.32.00121");
invalidDs.AddOrUpdate(DicomTag.SeriesInstanceUID, "1.2.4.100000.94849.4239.32.00122");
invalidDs.AddOrUpdate(DicomTag.StudyInstanceUID, "1.2.4.100000.94849.4239.32.00123");
var invalidFile = new DicomFile(invalidDs);
var ex = Record.Exception(() =>
{
var dicomDir = new DicomDirectory();
dicomDir.AddFile(invalidFile, "FILE1");
});
Assert.Null(ex);
}
private static List <DicomStudy> ReadMedia(DicomDirectory dicomDirectory)
{
List <DicomStudy> studies = new List <DicomStudy>();
foreach (var patientRecord in dicomDirectory.RootDirectoryRecordCollection)
{
var patient = ToPatient(patientRecord);
// Get studies.
foreach (var studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
var study = ToStudy(studyRecord);
study.Paitent = patient;
// Get series.
foreach (var seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
var series = ToSeries(seriesRecord);
// Get images.
foreach (var imageRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
var image = ToImage(imageRecord);
// series.ImageCollection.Add(image);
Console.WriteLine($"Read image {image.ImageNumber}");
}
// study.SeriesCollection.Add(series);
}
studies.Add(study);
}
}
return(studies);
}
/// <summary>
/// Load a DICOMDIR
/// </summary>
/// <param name="filename"></param>
public void Load(string filename)
{
try
{
_dir = new DicomDirectory(_aeTitle);
_dir.Load(filename);
// Show a simple traversal
foreach (DirectoryRecordSequenceItem patientRecord in _dir.RootDirectoryRecordCollection)
{
PatientRecords++;
foreach (DirectoryRecordSequenceItem studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
StudyRecords++;
foreach (DirectoryRecordSequenceItem seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
SeriesRecords++;
foreach (DirectoryRecordSequenceItem instanceRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
InstanceRecords++;
}
}
}
}
Logger.LogInfo("Loaded DICOMDIR with {0} Patient Records, {1} Study Records, {2} Series Records, and {3} Image Records",
PatientRecords,StudyRecords,SeriesRecords,InstanceRecords);
}
catch (Exception e)
{
Logger.LogErrorException(e, "Unexpected exception reading DICOMDIR: {0}", filename);
}
}
protected override void OnDoWork(DoWorkEventArgs e)
{
int count = 0;
int imagesToExportCount = 0;
InstanceCStoreCommand cmd = null;
MatchingParameterCollection matchingParamCollection;
MatchingParameterList matchingParamList;
if (this.CancellationPending)
{
e.Cancel = true;
return;
}
ExportDicomWorkerArgs args = e.Argument as ExportDicomWorkerArgs;
if (args == null)
{
throw new ArgumentException("Invalid ExportDicom argument");
}
if (args.CreateDicomDir)
{
DicomDirectory = new DicomDir(args.OutputFolder);
}
if (args.Anonymize)
{
Anonymizer.BeginBatch();
}
try
{
ViewGenerator.ViewDataRow[] exportRows = (args.Rows);
imagesToExportCount = exportRows.Length;
foreach (ViewGenerator.ViewDataRow exportRow in exportRows)
{
try
{
string rowKeyValue;
string rowKeyName;
string viewName;
if (this.CancellationPending)
{
e.Cancel = true;
return;
}
DataRow originalRow = exportRow.OriginalRow;
matchingParamCollection = new MatchingParameterCollection( );
matchingParamList = new MatchingParameterList( );
matchingParamCollection.Add(matchingParamList);
if (string.Compare(originalRow.Table.TableName, DataTableHelper.InstanceTableName) == 0)
{
string sSopInstanceUid = RegisteredDataRows.InstanceInfo.GetElementValue(originalRow, DicomTag.SOPInstanceUID);
ICatalogEntity imageInstance = RegisteredEntities.GetInstanceEntity(sSopInstanceUid);
rowKeyValue = sSopInstanceUid;
rowKeyName = "SOPInstanceUID";
viewName = "Images";
matchingParamList.Add(imageInstance);
}
else if (string.Compare(originalRow.Table.TableName, DataTableHelper.SeriesTableName) == 0)
{
string sSeriesInstanceUid = RegisteredDataRows.SeriesInfo.GetElementValue(originalRow, DicomTag.SeriesInstanceUID);
ICatalogEntity seriesEntity = RegisteredEntities.GetSeriesEntity(sSeriesInstanceUid);
rowKeyValue = sSeriesInstanceUid;
rowKeyName = "SeriesInstanceUID";
viewName = "Series";
matchingParamList.Add(seriesEntity);
}
else if (string.Compare(originalRow.Table.TableName, DataTableHelper.StudyTableName) == 0)
{
string sStudyInstanceUid = RegisteredDataRows.StudyInfo.GetElementValue(originalRow, DicomTag.StudyInstanceUID);
ICatalogEntity studyEntity = RegisteredEntities.GetStudyEntity(sStudyInstanceUid);
rowKeyValue = sStudyInstanceUid;
rowKeyName = "StudyInstanceUID";
viewName = "Studies";
matchingParamList.Add(studyEntity);
}
else if (string.Compare(originalRow.Table.TableName, DataTableHelper.PatientTableName) == 0)
{
string sPatientId = RegisteredDataRows.PatientInfo.GetElementValue(originalRow, DicomTag.PatientID);
ICatalogEntity patientEntity = RegisteredEntities.GetPatientEntity(sPatientId);
rowKeyValue = sPatientId;
rowKeyName = "PatientId";
viewName = "Patients";
matchingParamList.Add(patientEntity);
}
else if (string.Compare(originalRow.Table.TableName, DataTableHelper.HangingProtocolTableName) == 0)
{
string sSopInstanceUid = RegisteredDataRows.InstanceInfo.GetElementValue(originalRow, DicomTag.SOPInstanceUID);
ICatalogEntity hangingProtocolInstance = RegisteredEntities.GetHangingProtocolEntity(sSopInstanceUid);
rowKeyValue = sSopInstanceUid;
rowKeyName = "SOPInstanceUID";
viewName = "Hanging Protocol";
matchingParamList.Add(hangingProtocolInstance);
}
else
{
throw new ApplicationException("Deleted row is not a valid DICOM format.");
}
DataSet exportDataSet = null;
DataRow[] rows = null;
if (string.Compare(originalRow.Table.TableName, DataTableHelper.HangingProtocolTableName) == 0 && _dataAccessAgent3 != null)
{
exportDataSet = _dataAccessAgent3.QueryHangingProtocol(matchingParamCollection);
rows = exportDataSet.Tables[DataTableHelper.HangingProtocolTableName].Select();
}
else
{
exportDataSet = _dataAccessAgent.QueryCompositeInstances(matchingParamCollection);
rows = exportDataSet.Tables[DataTableHelper.InstanceTableName].Select();
}
foreach (DataRow row in rows)
{
DicomDataSet dicomDataSet = RegisteredDataRows.InstanceInfo.LoadDicomDataSet(row);
if (args.Anonymize)
{
Anonymizer.Anonymize(dicomDataSet);
}
AddDicomBackgroundWorker.StoreClientSessionProxy proxy = new AddDicomBackgroundWorker.StoreClientSessionProxy();
proxy.AffectedSOPInstance = dicomDataSet.GetValue <string>(DicomTag.SOPInstanceUID, string.Empty);
proxy.AbstractClass = dicomDataSet.GetValue <string>(DicomTag.SOPClassUID, string.Empty);
try
{
cmd = new InstanceCStoreCommand(proxy, dicomDataSet, _dataAccessAgent);
OnStoreCommandCreated(this, new StoreCommandEventArgs(cmd));
cmd.Configuration.DataSetStorageLocation = args.OutputFolder;
#if (LEADTOOLS_V19_OR_LATER)
cmd.Configuration.HangingProtocolLocation = args.OutputFolder;
#endif
string fileLocation = CStoreCommand.GetStorageFullPath(cmd.Configuration, dicomDataSet);
if (args.Overwrite || !File.Exists(fileLocation))
{
// Only exporting, so do not validate SopInstance and do not add to database
cmd.DoValidateSopInstance = false;
cmd.DoUpdateDatabase = false;
cmd.DoUseExternalStoreSettings = false;
cmd.DataSetStored += cmd_DataSetStored;
cmd.Execute();
}
else
{
// File already exists -- it is not overwritten
DataSetStoredEventArgs storedArgs = new DataSetStoredEventArgs(dicomDataSet, string.Empty, string.Empty, fileLocation);
cmd_DataSetStored(this, storedArgs);
}
}
finally
{
if (cmd != null)
{
cmd.DataSetStored -= cmd_DataSetStored;
}
}
}
count++;
ExportDicomWorkerProgressState state = new ExportDicomWorkerProgressState( );
state.Error = null;
state.CurrentCount = count;
state.ExportRow = exportRow;
state.ExportedImagesCount = 1;
state.TotalCount = imagesToExportCount;
state.RowKeyValue = rowKeyValue;
state.RowKeyName = rowKeyName;
state.ViewName = viewName;
ReportProgress((count * 100) / exportRows.Length, state);
}
catch (Exception exception)
{
ExportDicomWorkerProgressState state = new ExportDicomWorkerProgressState( );
count++;
state.Error = exception;
state.CurrentCount = count;
state.ExportRow = exportRow;
state.TotalCount = imagesToExportCount;
state.ExportedImagesCount = 0;
ReportProgress((count * 100) / exportRows.Length, state);
}
}
}
finally
{
e.Result = imagesToExportCount;
if (DicomDirectory != null)
{
DicomDirectory.Save();
DicomDirectory = null;
}
if (Anonymizer != null)
{
Anonymizer.EndBatch();
Anonymizer = null;
}
}
}
public void CreateDicomdirTest()
{
DicomFile file = new DicomFile("CreateFileTest.dcm");
SetupMR(file.DataSet);
SetupMetaInfo(file);
DicomDirectory writer = new DicomDirectory("");
int fileCount = 1;
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("CreateXaFileTest.dcm");
SetupMultiframeXA(file.DataSet, 256, 256, 10);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
DicomFile newfile = new DicomFile("test2.dcm");
SetupKoForImage(newfile.DataSet, file.DataSet);
SetupMetaInfo(newfile);
writer.AddFile(newfile, String.Format("DICOM\\FILE{0}", fileCount++));
IList<DicomAttributeCollection> seriesList = SetupMRSeries(2, 2, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
fileCount++;
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DIR001\\FILE{0}", fileCount));
}
writer.FileSetId = "TestDicomdir";
writer.Save("DICOMDIR");
DicomDirectory reader = new DicomDirectory("");
reader.Load("DICOMDIR");
string failureReason;
Assert.IsTrue(Compare(writer.RootDirectoryRecord, reader.RootDirectoryRecord, out failureReason), failureReason);
}
/// <summary>
/// 刻录
/// </summary>
private void Writing()
{
List <IBurnMediaData> data = new List <IBurnMediaData>();
MediaFileSet mediaFileSet = new MediaFileSet();
mediaFileSet.Id = "Gold";
List <MediaFileSetStudy> fileSetStudies = new List <MediaFileSetStudy>();
string RootPath = "CD";
string studysPath = "IMAGES";
string studyitemPath = "Study{0}";
string seriesitemPath = "Series{0}";
string filename = "IM{0}";
string xmlSavePath = "studies";
string XmlName = "Study{0}.xml";
int study = -1;
int series = -1;
int Sopcount = -1;
string studyIndexName = "index.xml";
string xmlPath = Path.Combine(this.StagingFolderPath, xmlSavePath);
if (Directory.Exists(xmlPath))
{
Directory.Delete(xmlPath, true);
}
Directory.CreateDirectory(xmlPath);
if (MediaWriterSettings.Default.PortablePath == null || !Directory.Exists(MediaWriterSettings.Default.PortablePath))
{
this.Host.ShowMessageBox("指定光盘浏览器目录不存在", MessageBoxActions.Ok);
return;
}
FileDirectoryUtility.CopyFiles(MediaWriterSettings.Default.PortablePath, this.StagingFolderPath, true, true);
RootPath = Path.Combine(this.StagingFolderPath, studysPath);
DicomDirectory dicomDirectory = new DicomDirectory(VolumeName);
dicomDirectory.SourceApplicationEntityTitle = VolumeName;
dicomDirectory.FileSetId = "File Set Desc";
try
{
foreach (IStudyTreeItem item in Tree.Items)
{
StudyTreeItem treeitem = (StudyTreeItem)item;
if (!treeitem.Ischecked)
{
continue;
}
study++;
MediaFileSetStudy fileSet = new MediaFileSetStudy();
string tempstudypath = Path.Combine(RootPath, string.Format(studyitemPath, study));
StudyXml studyXml = new StudyXml();
foreach (ISeriesTreeItem seriss in treeitem.Tree.Items)
{
SeriesTreeItem seriesitem = (SeriesTreeItem)seriss;
if (!seriesitem.Ischecked)
{
continue;
}
series++;
string tempseriespath = Path.Combine(tempstudypath, string.Format(seriesitemPath, series));
if (Directory.Exists(tempseriespath))
{
Directory.Delete(tempseriespath, true);
}
Directory.CreateDirectory(tempseriespath);
foreach (var sop in seriesitem.Series.GetSopInstances())
{
if (LoadImageWorker.CancellationPending == true)
{
break;
}
if (File.Exists(sop.FilePath))
{
Sopcount++;
string temp = Path.Combine(tempseriespath, string.Format(filename, Sopcount));
File.Copy(sop.FilePath, temp);
int start = temp.IndexOf(studysPath);
string dirFilePath = temp.Substring(start);
dicomDirectory.AddFile(temp, dirFilePath);
string fileName = string.Format("..\\{0}", dirFilePath);
DicomFile file = new DicomFile(temp);
file.Load();
file.Filename = fileName;
studyXml.AddFile(file);
fileSet.UID = sop.StudyInstanceUid;
}
}
}
//保存studyXml
string xmlFileName = string.Format(XmlName, study);
string path = Path.Combine(xmlPath, xmlFileName);
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludeSourceFileName = true;
XmlDocument document = studyXml.GetMemento(settings);
// Create an XML declaration.
XmlDeclaration xmldecl;
xmldecl = document.CreateXmlDeclaration("1.0", null, null);
xmldecl.Encoding = "UTF-8";
document.Save(path);
fileSet.Value = Path.Combine(xmlSavePath, xmlFileName);;
fileSetStudies.Add(fileSet);
}
if (!Directory.Exists(RootPath))
{
throw new Exception(string.Format("复制检查图像到{0}目录出错", StagingFolderPath));
}
IBurnMediaData info = new BurnMediaData();
info.Type = MediaType.Dir;
info.Path = RootPath;
data.Add(info);
IBurnMediaData xml = new BurnMediaData();
xml.Path = xmlPath;
xml.Type = MediaType.Dir;
data.Add(xml);
string studyindexfilename = Path.Combine(this.StagingFolderPath, studyIndexName);
if (File.Exists(studyindexfilename))
{
File.Delete(studyindexfilename);
}
Stream stream = File.Open(studyindexfilename, FileMode.Create);
mediaFileSet.StudyIndex = fileSetStudies.ToArray();
XmlSerializer serializer = new XmlSerializer(typeof(MediaFileSet));
serializer.Serialize(stream, mediaFileSet);
IBurnMediaData studyindex = new BurnMediaData();
studyindex.Path = studyindexfilename;
studyindex.Type = MediaType.File;
data.Add(studyindex);
string dirfilename = Path.Combine(this.StagingFolderPath, "DICOMDIR");
dicomDirectory.Save(dirfilename);
info = new BurnMediaData();
info.Type = MediaType.File;
info.Path = dirfilename;
data.Add(info);
DoBurn(data);
}
catch (COMException ex)
{
this.Host.ShowMessageBox(ImapiReturnValues.GetName(ex.ErrorCode), MessageBoxActions.Ok);
}
catch (Exception e)
{
this.Host.ShowMessageBox(e.Message, MessageBoxActions.Ok);
}
finally
{
this.IsWriting = false;
}
}
public static IEnumerable <Series> ExtractSeriesFromDicomDir(string path, bool generateMissingThumbnails)
{
var result = new List <DicomSeries>();
if (!DicomFile.HasValidHeader(path))
{
return(result);
}
try
{
var dicomDirectory = DicomDirectory.Open(path);
foreach (var patientRecord in dicomDirectory.RootDirectoryRecordCollection)
{
foreach (var studyRecord in patientRecord.LowerLevelDirectoryRecordCollection)
{
foreach (var seriesRecord in studyRecord.LowerLevelDirectoryRecordCollection)
{
var seriesRecordType = seriesRecord.GetSingleValueOrDefault(DicomTag.DirectoryRecordType, string.Empty);
if (seriesRecordType != "SERIES")
{
continue;
}
var series = new DicomSeries
{
SeriesInstanceUid = seriesRecord.GetSingleValueOrDefault(DicomTag.SeriesInstanceUID, ""),
Number = seriesRecord.GetSingleValueOrDefault(DicomTag.SeriesNumber, ""),
};
DicomSequence iconImageSequence;
if (seriesRecord.TryGetSequence(DicomTag.IconImageSequence, out iconImageSequence))
{
var iconImage = iconImageSequence.FirstOrDefault();
if (iconImage != null)
{
DicomImage image = new DicomImage(iconImage);
series.Thumbnail = image.RenderImage().AsWriteableBitmap();
}
}
foreach (var imageRecord in seriesRecord.LowerLevelDirectoryRecordCollection)
{
var imageRecordType = imageRecord.GetSingleValueOrDefault(DicomTag.DirectoryRecordType, string.Empty);
if (imageRecordType != "IMAGE")
{
continue;
}
var values = imageRecord.GetValues <string>(DicomTag.ReferencedFileID);
var relativePath = string.Join(@"\", values);
series.SopClassUid = imageRecord.GetSingleValueOrDefault(DicomTag.ReferencedSOPClassUIDInFile, "");
series.NumberOfImages += Math.Max(1, imageRecord.GetSingleValueOrDefault(DicomTag.NumberOfFrames, 1));
var absolutePath = Path.GetDirectoryName(path) + @"\\" + relativePath;
series.FileNames.Add(absolutePath);
}
if (generateMissingThumbnails && series.Thumbnail == null && series.FileNames.Count > 0)
{
GenerateThumbnail(series);
}
if (series.NumberOfImages > 0)
{
result.Add(series);
}
}
}
}
}
catch (Exception e)
{
logger.LogWarning(e, $"Could not read DICOMDIR file '{e.Message}' {e.StackTrace}");
}
return(result);
}
public void ComparisonTest()
{
DicomDirectory writer = new DicomDirectory("DICOMDIR");
int fileCount = 1;
DicomFile file = new DicomFile("CreateFileTest.dcm");
SetupMR(file.DataSet);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("CreateFileTest.dcm");
SetupMR(file.DataSet);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
DicomFile newfile = new DicomFile("test2.dcm");
SetupKoForImage(newfile.DataSet, file.DataSet);
SetupMetaInfo(newfile);
writer.AddFile(newfile, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("CreateXaFileTest.dcm");
SetupMultiframeXA(file.DataSet, 128, 128, 4);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
newfile = new DicomFile("test2.dcm");
SetupKoForImage(newfile.DataSet, file.DataSet);
SetupMetaInfo(newfile);
writer.AddFile(newfile, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("CreateXaFileTest.dcm");
SetupMultiframeXA(file.DataSet, 64, 64, 4);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
newfile = new DicomFile("test2.dcm");
SetupKoForImage(newfile.DataSet, file.DataSet);
SetupMetaInfo(newfile);
writer.AddFile(newfile, String.Format("DICOM\\FILE{0}", fileCount++));
IList<DicomAttributeCollection> seriesList = SetupMRSeries(3, 1, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
}
seriesList = SetupMRSeries(4, 4, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("test2.dcm");
SetupKoForImage(file.DataSet, collection);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
}
seriesList = SetupMRSeries(10, 1, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("test2.dcm");
SetupKoForImage(file.DataSet, collection);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
}
seriesList = SetupMRSeries(4, 3, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
SetupMetaInfo(file);
writer.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
}
writer.FileSetId = "TestDicomdir";
writer.Save("DICOMDIR");
DicomDirectory reader = new DicomDirectory("DICOMDIR");
reader.Load("DICOMDIR");
string failureReason;
Assert.IsTrue(Compare(writer.RootDirectoryRecord, reader.RootDirectoryRecord, out failureReason), failureReason);
// Test Append
// Add a few more files to the file read in, then rewrite and read and compare
seriesList = SetupMRSeries(4, 4, DicomUid.GenerateUid().UID);
foreach (DicomAttributeCollection collection in seriesList)
{
file = new DicomFile("test.dcm", new DicomAttributeCollection(), collection);
SetupMetaInfo(file);
reader.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
file = new DicomFile("test2.dcm");
SetupKoForImage(file.DataSet, collection);
SetupMetaInfo(file);
reader.AddFile(file, String.Format("DICOM\\FILE{0}", fileCount++));
}
reader.FileSetId = "TestDicomdir";
reader.Save("DICOMDIR");
DicomDirectory reader2 = new DicomDirectory("DICOMDIR");
reader2.Load("DICOMDIR");
Assert.IsTrue(Compare(reader.RootDirectoryRecord, reader2.RootDirectoryRecord, out failureReason), failureReason);
}
