public void TestBaseInstanceExclusionAfterSerialization()
{
foreach (string[] testSet in _overlappingTagTestSets)
{
List <DicomFile> images = SetupImages(testSet.Length);
SetTestAttribute(images, testSet);
StudyXml xml = new StudyXml();
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
xml = new StudyXml();
xml.AddFile(images[0]);
xml.AddFile(images[1]);
XmlDocument doc = xml.GetMemento(settings);
settings.MaxTagLength = 1024;
xml.AddFile(images[2]); //re-add
doc = xml.GetMemento(settings);
xml = new StudyXml();
xml.SetMemento(doc);
doc = xml.GetMemento(settings);
xml.AddFile(images[2]); //re-add
doc = xml.GetMemento(settings);
xml = new StudyXml();
xml.SetMemento(doc);
xml.AddFile(images[1]); //re-add
doc = xml.GetMemento(settings);
}
}
public void TestTransferSyntax()
{
List <DicomFile> images = SetupImages(4);
string seriesUid = images[0].DataSet[DicomTags.SeriesInstanceUid].ToString();
images[0].TransferSyntax = TransferSyntax.Jpeg2000ImageCompression;
images[1].TransferSyntax = TransferSyntax.ExplicitVrLittleEndian;
images[2].TransferSyntax = TransferSyntax.ExplicitVrBigEndian;
images[3].TransferSyntax = TransferSyntax.Jpeg2000ImageCompressionLosslessOnly;
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
xml.AddFile(file);
}
XmlDocument doc = xml.GetMemento(new StudyXmlOutputSettings());
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompression);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrLittleEndian);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrBigEndian);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompressionLosslessOnly);
xml = new StudyXml();
xml.SetMemento(doc);
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompression);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrLittleEndian);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrBigEndian);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompressionLosslessOnly);
}
public void TestExclusionsImmediatelyAfterSerialization()
{
//NOTE: previously, this test failed because the excluded tags were not added to the
//xml collection until after it had been deserialized at least once from the xml.
foreach (string[] testSet in _overlappingTagTestSets)
{
List <DicomFile> images = SetupImages(testSet.Length);
SetTestAttribute(images, testSet);
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.MaxTagLength = 1024;
XmlDocument doc = xml.GetMemento(settings);
List <InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
ValidateSimpleDataSets(testSet, dataSets, settings);
//do a little extra validation, what the hay.
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
ValidateSimpleDataSets(testSet, dataSets, settings);
}
}
private void _buttonGenerateXml_Click(object sender, EventArgs e)
{
saveFileDialog.DefaultExt = "xml";
saveFileDialog.ShowDialog();
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludeSourceFileName = false;
XmlDocument doc = _theStream.GetMemento(settings);
Stream fileStream = saveFileDialog.OpenFile();
StudyXmlIo.Write(doc, fileStream);
fileStream.Close();
}
public void TestSopClass()
{
List<DicomFile> images = SetupImages(4);
string seriesUid = images[0].DataSet[DicomTags.SeriesInstanceUid].ToString();
images[0].MediaStorageSopClassUid = SopClass.EnhancedCtImageStorageUid;
images[1].MediaStorageSopClassUid = SopClass.EnhancedMrImageStorageUid;
images[2].MediaStorageSopClassUid = SopClass.EnhancedSrStorageUid;
images[3].MediaStorageSopClassUid = SopClass.EnhancedXaImageStorageUid;
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
xml.AddFile(file);
XmlDocument doc = xml.GetMemento(new StudyXmlOutputSettings());
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedCtImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedMrImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedSrStorageUid);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedXaImageStorageUid);
xml = new StudyXml();
xml.SetMemento(doc);
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedCtImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedMrImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedSrStorageUid);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedXaImageStorageUid);
}
public void TestMultipleSerializations()
{
List <DicomFile> images = SetupImages(4);
XmlDocument doc = null;
StudyXml xml;
int i;
for (i = 0; i < images.Count; ++i)
{
xml = new StudyXml();
if (doc != null)
{
xml.SetMemento(doc);
}
xml.AddFile(images[i]);
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
doc = xml.GetMemento(settings);
}
xml = new StudyXml();
xml.SetMemento(doc);
List <InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
i = 0;
foreach (DicomFile file in images)
{
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
}
public void TestSopClass()
{
List <DicomFile> images = SetupImages(4);
string seriesUid = images[0].DataSet[DicomTags.SeriesInstanceUid].ToString();
images[0].MediaStorageSopClassUid = SopClass.EnhancedCtImageStorageUid;
images[1].MediaStorageSopClassUid = SopClass.EnhancedMrImageStorageUid;
images[2].MediaStorageSopClassUid = SopClass.EnhancedSrStorageUid;
images[3].MediaStorageSopClassUid = SopClass.EnhancedXaImageStorageUid;
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
xml.AddFile(file);
}
XmlDocument doc = xml.GetMemento(new StudyXmlOutputSettings());
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedCtImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedMrImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedSrStorageUid);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedXaImageStorageUid);
xml = new StudyXml();
xml.SetMemento(doc);
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedCtImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedMrImageStorageUid);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedSrStorageUid);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].SopClass.Uid, SopClass.EnhancedXaImageStorageUid);
}
public void TestExcludePrivateTags()
{
List <DicomFile> images = SetupImages(2);
StudyXml xml = new StudyXml();
DicomTag privateTag =
new DicomTag(0x00210010, "Private Tag", "Private Tag", DicomVr.LTvr, false, 1, uint.MaxValue, false);
foreach (DicomFile file in images)
{
file.DataSet[privateTag].SetStringValue("My Private Tag");
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
XmlDocument doc = xml.GetMemento(settings);
List <InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
{
Assert.IsFalse(dataSet.Contains(privateTag));
}
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
{
Assert.IsFalse(dataSet.Contains(privateTag));
}
}
private void WriteStudyStream(string streamFile, string gzStreamFile, StudyXml theStream)
{
XmlDocument doc = theStream.GetMemento(_outputSettings);
// allocate the random number generator here, in case we need it below
var rand = new Random();
string tmpStreamFile = streamFile + "_tmp";
string tmpGzStreamFile = gzStreamFile + "_tmp";
for (int i = 0; ; i++)
{
try
{
if (File.Exists(tmpStreamFile))
{
FileUtils.Delete(tmpStreamFile);
}
if (File.Exists(tmpGzStreamFile))
{
FileUtils.Delete(tmpGzStreamFile);
}
_fileSaved = true;
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(tmpStreamFile, FileMode.CreateNew),
gzipStream = FileStreamOpener.OpenForSoleUpdate(tmpGzStreamFile, FileMode.CreateNew))
{
StudyXmlIo.WriteXmlAndGzip(doc, xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
if (File.Exists(streamFile))
{
FileUtils.Delete(streamFile);
}
File.Move(tmpStreamFile, streamFile);
if (File.Exists(_gzPath))
{
FileUtils.Delete(_gzPath);
}
File.Move(tmpGzStreamFile, _gzPath);
return;
}
catch (IOException)
{
if (i < 5)
{
Thread.Sleep(rand.Next(5, 50)); // Sleep 5-50 milliseconds
continue;
}
throw;
}
}
}
private void SaveStudyXml(StudyXml studyXml)
{
XmlDocument doc = studyXml.GetMemento(new StudyXmlOutputSettings());
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(StorageLocation.GetStudyXmlPath(), FileMode.Create),
gzipStream = FileStreamOpener.OpenForSoleUpdate(StorageLocation.GetCompressedStudyXmlPath(), FileMode.Create))
{
StudyXmlIo.WriteXmlAndGzip(doc, xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
}
/// <summary>
/// Save the <see cref="StudyXml"/> file for a study.
/// </summary>
/// <param name="studyXml">The <see cref="StudyXml"/> file to save.</param>
/// <param name="fileCreated">flag set to true if the file was created</param>
public void SaveStudyXml(StudyXml studyXml, out bool fileCreated)
{
var settings = new StudyXmlOutputSettings
{
IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag,
IncludeUnknownTags = StudyXmlTagInclusion.IgnoreTag,
IncludeLargeTags = StudyXmlTagInclusion.IncludeTagExclusion,
MaxTagLength = 2048,
IncludeSourceFileName = true
};
var doc = studyXml.GetMemento(settings);
string streamFile = GetStudyXmlPath();
// allocate the random number generator here, in case we need it below
var rand = new Random();
string tmpStreamFile = streamFile + "_tmp";
for (int i = 0; ; i++)
{
try
{
if (File.Exists(tmpStreamFile))
{
FileUtils.Delete(tmpStreamFile);
}
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(tmpStreamFile, FileMode.CreateNew))
{
StudyXmlIo.Write(doc, xmlStream);
xmlStream.Close();
}
File.Copy(tmpStreamFile, streamFile, true);
fileCreated = true;
FileUtils.Delete(tmpStreamFile);
return;
}
catch (IOException)
{
if (i < 5)
{
Thread.Sleep(rand.Next(5, 50)); // Sleep 5-50 milliseconds
continue;
}
throw;
}
}
}
public void TestExcludeBinaryTags()
{
List <DicomFile> images = SetupImages(3);
images[2].DataSet[DicomTags.SpectroscopyData].Values = new float[6];
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
file.DataSet[DicomTags.RedPaletteColorLookupTableData].Values = new byte[256];
file.DataSet[DicomTags.GreenPaletteColorLookupTableData].Values = new byte[256];
file.DataSet[DicomTags.BluePaletteColorLookupTableData].Values = new byte[256];
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.MaxTagLength = 100;
XmlDocument doc = xml.GetMemento(settings);
//SaveStudyXml(doc, @"C:\stewart\testxml.xml");
List <InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
{
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.RedPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.GreenPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.BluePaletteColorLookupTableData));
}
//This attribute has a short value, so it should not be excluded.
Assert.IsFalse(dataSets[2].IsTagExcluded(DicomTags.SpectroscopyData));
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
{
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.RedPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.GreenPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.BluePaletteColorLookupTableData));
}
//This attribute has a short value, so it should not be excluded.
Assert.IsFalse(dataSets[2].IsTagExcluded(DicomTags.SpectroscopyData));
}
private void WriteStudyStream(string streamFile, StudyXml theStream)
{
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludeSourceFileName = false;
XmlDocument doc = theStream.GetMemento(settings);
if (File.Exists(streamFile))
File.Delete(streamFile);
using (Stream fileStream = new FileStream(streamFile, FileMode.CreateNew))
{
StudyXmlIo.Write(doc, fileStream);
fileStream.Close();
}
return;
}
private static void WriteStudyStream(string streamFile, string gzStreamFile, StudyXml theStream)
{
XmlDocument doc = theStream.GetMemento(_outputSettings);
// allocate the random number generator here, in case we need it below
Random rand = new Random();
string tmpStreamFile = streamFile + "_tmp";
string tmpGzStreamFile = gzStreamFile + "_tmp";
for (int i = 0; ; i++)
try
{
if (File.Exists(tmpStreamFile))
FileUtils.Delete(tmpStreamFile);
if (File.Exists(tmpGzStreamFile))
FileUtils.Delete(tmpGzStreamFile);
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(tmpStreamFile, FileMode.CreateNew),
gzipStream = FileStreamOpener.OpenForSoleUpdate(tmpGzStreamFile, FileMode.CreateNew))
{
StudyXmlIo.WriteXmlAndGzip(doc, xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
if (File.Exists(streamFile))
FileUtils.Delete(streamFile);
File.Move(tmpStreamFile, streamFile);
if (File.Exists(gzStreamFile))
FileUtils.Delete(gzStreamFile);
File.Move(tmpGzStreamFile,gzStreamFile);
return;
}
catch (IOException)
{
if (i < 5)
{
Thread.Sleep(rand.Next(5, 50)); // Sleep 5-50 milliseconds
continue;
}
throw;
}
}
public void Create()
{
SelectFolderDialogCreationArgs args = new SelectFolderDialogCreationArgs();
args.Path = _lastFolder ?? Environment.GetFolderPath(Environment.SpecialFolder.DesktopDirectory);
FileDialogResult result = base.Context.DesktopWindow.ShowSelectFolderDialogBox(args);
if (result.Action == DialogBoxAction.Ok)
{
_lastFolder = result.FileName;
StudyLoaderExtensionPoint xp = new StudyLoaderExtensionPoint();
IStudyLoader loader = (IStudyLoader)CollectionUtils.SelectFirst(xp.CreateExtensions(),
delegate(object extension) { return(((IStudyLoader)extension).Name == "DICOM_LOCAL"); });
var selected = base.Context.SelectedStudy;
loader.Start(new StudyLoaderArgs(selected.StudyInstanceUid, selected.Server, StudyLoaderOptions.Default));
StudyXml xml = new StudyXml();
Sop sop;
while (null != (sop = loader.LoadNextSop()))
{
xml.AddFile(((ILocalSopDataSource)sop.DataSource).File);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag;
settings.IncludeUnknownTags = StudyXmlTagInclusion.IgnoreTag;
settings.MaxTagLength = 100 * 1024;
settings.IncludeSourceFileName = true;
XmlDocument doc = xml.GetMemento(settings);
string fileName = System.IO.Path.Combine(result.FileName, "studyxml.xml");
XmlTextWriter writer = new XmlTextWriter(fileName, Encoding.UTF8);
writer.Formatting = Formatting.Indented;
writer.Indentation = 5;
doc.Save(writer);
}
}
public void Create()
{
SelectFolderDialogCreationArgs args = new SelectFolderDialogCreationArgs();
args.Path = _lastFolder ?? Environment.GetFolderPath(Environment.SpecialFolder.DesktopDirectory);
FileDialogResult result = base.Context.DesktopWindow.ShowSelectFolderDialogBox(args);
if (result.Action == DialogBoxAction.Ok)
{
_lastFolder = result.FileName;
StudyLoaderExtensionPoint xp = new StudyLoaderExtensionPoint();
IStudyLoader loader = (IStudyLoader)CollectionUtils.SelectFirst(xp.CreateExtensions(),
delegate(object extension) { return ((IStudyLoader) extension).Name == "DICOM_LOCAL";});
var selected = base.Context.SelectedStudy;
loader.Start(new StudyLoaderArgs(selected.StudyInstanceUid, selected.Server));
StudyXml xml = new StudyXml();
Sop sop;
while (null != (sop = loader.LoadNextSop()))
{
xml.AddFile(((ILocalSopDataSource) sop.DataSource).File);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag;
settings.IncludeUnknownTags = StudyXmlTagInclusion.IgnoreTag;
settings.MaxTagLength = 100 * 1024;
settings.IncludeSourceFileName = true;
XmlDocument doc = xml.GetMemento(settings);
string fileName = System.IO.Path.Combine(result.FileName, "studyxml.xml");
XmlTextWriter writer = new XmlTextWriter(fileName, Encoding.UTF8);
writer.Formatting = Formatting.Indented;
writer.Indentation = 5;
doc.Save(writer);
}
}
private InstanceXml GetInstanceXml(StudyXmlOutputSettings outputSettings, out DicomFile real)
{
var xml = new StudyXml();
real = new DicomFile();
SetupMR(real.DataSet);
real.MediaStorageSopClassUid = real.DataSet[DicomTags.SopClassUid].ToString();
real.MetaInfo[DicomTags.SopClassUid].SetString(0, real.DataSet[DicomTags.SopClassUid].ToString());
var bytes = new Byte[2048];
real.DataSet[DicomTags.RedPaletteColorLookupTableData].Values = bytes;
var privateTag = new DicomTag(0x00111301, "Private Tag", "PrivateTag", DicomVr.CSvr, false, 1, 1, false);
real.DataSet[privateTag].SetString(0, "Private");
var sequences = (DicomSequenceItem[])real.DataSet[DicomTags.RequestAttributesSequence].Values;
var firstItem = sequences.First();
firstItem[DicomTags.RedPaletteColorLookupTableData].Values = bytes;
var attr = real.DataSet[DicomTags.ReferencedStudySequence];
var sequenceItem = new DicomSequenceItem();
attr.AddSequenceItem(sequenceItem);
sequenceItem[privateTag].SetString(0, "Private");
xml.AddFile(real);
var memento = xml.GetMemento(outputSettings ?? new StudyXmlOutputSettings
{
IncludeLargeTags = StudyXmlTagInclusion.IncludeTagExclusion,
IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag,
MaxTagLength = 1024
});
xml = new StudyXml();
xml.SetMemento(memento);
return(xml.First().First());
}
private static List <InstanceXmlDicomAttributeCollection> GetInstanceXmlDataSets(IEnumerable <DicomFile> images, out StudyXml newStudyXml, StudyXmlOutputSettings settings)
{
StudyXml xml = new StudyXml();
foreach (DicomFile image in images)
{
xml.AddFile(image);
}
XmlDocument doc = xml.GetMemento(settings);
//SaveStudyXml(doc, @"c:\stewart\LastStudyXml.xml");
newStudyXml = new StudyXml();
newStudyXml.SetMemento(doc);
doc = newStudyXml.GetMemento(settings);
//SaveStudyXml(doc, @"c:\stewart\LastStudyXml2.xml");
return(GetInstanceXmlDataSets(newStudyXml));
}
private void WriteStudyStream(string streamFile, StudyXml theStream)
{
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludeSourceFileName = false;
XmlDocument doc = theStream.GetMemento(settings);
if (File.Exists(streamFile))
{
File.Delete(streamFile);
}
using (Stream fileStream = new FileStream(streamFile, FileMode.CreateNew))
{
StudyXmlIo.Write(doc, fileStream);
fileStream.Close();
}
return;
}
internal void Flush()
{
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag;
settings.IncludeUnknownTags = StudyXmlTagInclusion.IgnoreTag;
settings.IncludeLargeTags = StudyXmlTagInclusion.IncludeTagExclusion;
settings.MaxTagLength = 2048;
settings.IncludeSourceFileName = true;
//Ensure the existing stuff is loaded.
LoadStudyXml(false);
XmlDocument doc = _studyXml.GetMemento(settings);
using (FileStream stream = GetFileStream(FileMode.Create, FileAccess.Write))
{
StudyXmlIo.Write(doc, stream);
stream.Close();
}
}
public void TestEqualAfterSerialization()
{
foreach (string[] testSet in _overlappingTagTestSets)
{
List <DicomFile> images = SetupImages(testSet.Length);
SetTestAttribute(images, testSet);
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.MaxTagLength = 1024;
XmlDocument doc = xml.GetMemento(settings);
List <InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
int i = 0;
foreach (DicomFile file in images)
{
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
i = 0;
foreach (DicomFile file in images)
{
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
}
}
private InstanceXml GetInstanceXml(StudyXmlOutputSettings outputSettings, out DicomFile real)
{
var xml = new StudyXml();
real = new DicomFile();
SetupMR(real.DataSet);
real.MediaStorageSopClassUid = real.DataSet[DicomTags.SopClassUid].ToString();
real.MetaInfo[DicomTags.SopClassUid].SetString(0, real.DataSet[DicomTags.SopClassUid].ToString());
var bytes = new Byte[2048];
real.DataSet[DicomTags.RedPaletteColorLookupTableData].Values = bytes;
var privateTag = new DicomTag(0x00111301, "Private Tag", "PrivateTag", DicomVr.CSvr, false, 1, 1, false);
real.DataSet[privateTag].SetString(0, "Private");
var sequences = (DicomSequenceItem[])real.DataSet[DicomTags.RequestAttributesSequence].Values;
var firstItem = sequences.First();
firstItem[DicomTags.RedPaletteColorLookupTableData].Values = bytes;
var attr = real.DataSet[DicomTags.ReferencedStudySequence];
var sequenceItem = new DicomSequenceItem();
attr.AddSequenceItem(sequenceItem);
sequenceItem[privateTag].SetString(0, "Private");
xml.AddFile(real);
var memento = xml.GetMemento(outputSettings ?? new StudyXmlOutputSettings
{
IncludeLargeTags = StudyXmlTagInclusion.IncludeTagExclusion,
IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag,
MaxTagLength = 1024
});
xml = new StudyXml();
xml.SetMemento(memento);
return xml.First().First();
}
public void TestTransferSyntax()
{
List<DicomFile> images = SetupImages(4);
string seriesUid = images[0].DataSet[DicomTags.SeriesInstanceUid].ToString();
images[0].TransferSyntax = TransferSyntax.Jpeg2000ImageCompression;
images[1].TransferSyntax = TransferSyntax.ExplicitVrLittleEndian;
images[2].TransferSyntax = TransferSyntax.ExplicitVrBigEndian;
images[3].TransferSyntax = TransferSyntax.Jpeg2000ImageCompressionLosslessOnly;
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
xml.AddFile(file);
XmlDocument doc = xml.GetMemento(new StudyXmlOutputSettings());
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompression);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrLittleEndian);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrBigEndian);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompressionLosslessOnly);
xml = new StudyXml();
xml.SetMemento(doc);
Assert.AreEqual(xml[seriesUid][images[0].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompression);
Assert.AreEqual(xml[seriesUid][images[1].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrLittleEndian);
Assert.AreEqual(xml[seriesUid][images[2].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.ExplicitVrBigEndian);
Assert.AreEqual(xml[seriesUid][images[3].DataSet[DicomTags.SopInstanceUid]].TransferSyntax, TransferSyntax.Jpeg2000ImageCompressionLosslessOnly);
}
private static List<InstanceXmlDicomAttributeCollection> GetInstanceXmlDataSets(IEnumerable<DicomFile> images, out StudyXml newStudyXml, StudyXmlOutputSettings settings)
{
StudyXml xml = new StudyXml();
foreach (DicomFile image in images)
xml.AddFile(image);
XmlDocument doc = xml.GetMemento(settings);
//SaveStudyXml(doc, @"c:\stewart\LastStudyXml.xml");
newStudyXml = new StudyXml();
newStudyXml.SetMemento(doc);
doc = newStudyXml.GetMemento(settings);
//SaveStudyXml(doc, @"c:\stewart\LastStudyXml2.xml");
return GetInstanceXmlDataSets(newStudyXml);
}
public void TestBaseInstanceExclusionAfterSerialization()
{
foreach (string[] testSet in _overlappingTagTestSets)
{
List<DicomFile> images = SetupImages(testSet.Length);
SetTestAttribute(images, testSet);
StudyXml xml = new StudyXml();
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
xml = new StudyXml();
xml.AddFile(images[0]);
xml.AddFile(images[1]);
XmlDocument doc = xml.GetMemento(settings);
settings.MaxTagLength = 1024;
xml.AddFile(images[2]); //re-add
doc = xml.GetMemento(settings);
xml = new StudyXml();
xml.SetMemento(doc);
doc = xml.GetMemento(settings);
xml.AddFile(images[2]); //re-add
doc = xml.GetMemento(settings);
xml = new StudyXml();
xml.SetMemento(doc);
xml.AddFile(images[1]); //re-add
doc = xml.GetMemento(settings);
}
}
/// <summary>
/// Save the <see cref="StudyXml"/> file for a study.
/// </summary>
/// <param name="studyXml">The <see cref="StudyXml"/> file to save.</param>
/// <param name="fileCreated">flag set to true if the file was created</param>
public void SaveStudyXml(StudyXml studyXml, out bool fileCreated)
{
var settings = new StudyXmlOutputSettings
{
IncludePrivateValues = StudyXmlTagInclusion.IgnoreTag,
IncludeUnknownTags = StudyXmlTagInclusion.IgnoreTag,
IncludeLargeTags = StudyXmlTagInclusion.IncludeTagExclusion,
MaxTagLength = 2048,
IncludeSourceFileName = true
};
var doc = studyXml.GetMemento(settings);
string streamFile = GetStudyXmlPath();
// allocate the random number generator here, in case we need it below
var rand = new Random();
string tmpStreamFile = streamFile + "_tmp";
for (int i = 0; ; i++)
try
{
if (File.Exists(tmpStreamFile))
FileUtils.Delete(tmpStreamFile);
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(tmpStreamFile, FileMode.CreateNew))
{
StudyXmlIo.Write(doc, xmlStream);
xmlStream.Close();
}
File.Copy(tmpStreamFile, streamFile, true);
fileCreated = true;
FileUtils.Delete(tmpStreamFile);
return;
}
catch (IOException)
{
if (i < 5)
{
Thread.Sleep(rand.Next(5, 50)); // Sleep 5-50 milliseconds
continue;
}
throw;
}
}
public void TestMultipleSerializations()
{
List<DicomFile> images = SetupImages(4);
XmlDocument doc = null;
StudyXml xml;
int i;
for(i = 0; i < images.Count; ++i)
{
xml = new StudyXml();
if (doc != null)
xml.SetMemento(doc);
xml.AddFile(images[i]);
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
doc = xml.GetMemento(settings);
}
xml = new StudyXml();
xml.SetMemento(doc);
List<InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
i = 0;
foreach (DicomFile file in images)
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
public void TestExcludeBinaryTags()
{
List<DicomFile> images = SetupImages(3);
images[2].DataSet[DicomTags.SpectroscopyData].Values = new float[6];
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
file.DataSet[DicomTags.RedPaletteColorLookupTableData].Values = new byte[256];
file.DataSet[DicomTags.GreenPaletteColorLookupTableData].Values = new byte[256];
file.DataSet[DicomTags.BluePaletteColorLookupTableData].Values = new byte[256];
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.MaxTagLength = 100;
XmlDocument doc = xml.GetMemento(settings);
//SaveStudyXml(doc, @"C:\stewart\testxml.xml");
List<InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
{
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.RedPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.GreenPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.BluePaletteColorLookupTableData));
}
//This attribute has a short value, so it should not be excluded.
Assert.IsFalse(dataSets[2].IsTagExcluded(DicomTags.SpectroscopyData));
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
{
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.RedPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.GreenPaletteColorLookupTableData));
Assert.IsTrue(dataSet.IsTagExcluded(DicomTags.BluePaletteColorLookupTableData));
}
//This attribute has a short value, so it should not be excluded.
Assert.IsFalse(dataSets[2].IsTagExcluded(DicomTags.SpectroscopyData));
}
public void TestBaseInstanceTagsPastEnd()
{
//NOTE: previously, this test failed because, during xml serialization, only the
//instance's own attributes were iterated over; if there were tags in the base instance
//that went past the end of the individual instances, no 'EmptyAttributes' got added
//to the xml and there would be extra attributes in the instances on deserialization.
List<DicomFile> images = SetupImages(2);
DicomFile smallFile = new DicomFile(null);
images.Add(smallFile);
base.SetupMetaInfo(smallFile);
DicomAttributeCollection theSet = smallFile.DataSet;
theSet[DicomTags.SpecificCharacterSet].SetStringValue("ISO_IR 100");
theSet[DicomTags.ImageType].SetStringValue("ORIGINAL\\PRIMARY\\OTHER\\M\\FFE");
theSet[DicomTags.InstanceCreationDate].SetStringValue("20070618");
theSet[DicomTags.InstanceCreationTime].SetStringValue("133600");
theSet[DicomTags.SopClassUid].SetStringValue(SopClass.MrImageStorageUid);
theSet[DicomTags.SopInstanceUid].SetStringValue(DicomUid.GenerateUid().UID);
theSet[DicomTags.StudyDate].SetStringValue("20070618");
theSet[DicomTags.StudyTime].SetStringValue("133600");
theSet[DicomTags.SeriesDate].SetStringValue("20070618");
theSet[DicomTags.SeriesTime].SetStringValue("133700");
theSet[DicomTags.AccessionNumber].SetStringValue("A1234");
theSet[DicomTags.Modality].SetStringValue("MR");
theSet[DicomTags.Manufacturer].SetStringValue("ClearCanvas");
theSet[DicomTags.ManufacturersModelName].SetNullValue();
theSet[DicomTags.InstitutionName].SetStringValue("Mount Sinai Hospital");
theSet[DicomTags.ReferringPhysiciansName].SetStringValue("Last^First");
theSet[DicomTags.StudyDescription].SetStringValue("HEART");
theSet[DicomTags.SeriesDescription].SetStringValue("Heart 2D EPI BH TRA");
theSet[DicomTags.StudyInstanceUid].SetStringValue(images[0].DataSet[DicomTags.StudyInstanceUid].ToString());
theSet[DicomTags.SeriesInstanceUid].SetStringValue(images[0].DataSet[DicomTags.SeriesInstanceUid].ToString());
theSet[DicomTags.SopInstanceUid].SetStringValue(DicomUid.GenerateUid().ToString());
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
xml.AddFile(file);
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
XmlDocument doc = xml.GetMemento(settings);
List<InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
int i = 0;
foreach (DicomFile file in images)
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
i = 0;
foreach (DicomFile file in images)
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
public void TestExclusionsImmediatelyAfterSerialization()
{
//NOTE: previously, this test failed because the excluded tags were not added to the
//xml collection until after it had been deserialized at least once from the xml.
foreach (string[] testSet in _overlappingTagTestSets)
{
List<DicomFile> images = SetupImages(testSet.Length);
SetTestAttribute(images, testSet);
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
xml.AddFile(file);
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.MaxTagLength = 1024;
XmlDocument doc = xml.GetMemento(settings);
List<InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
ValidateSimpleDataSets(testSet, dataSets, settings);
//do a little extra validation, what the hay.
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
ValidateSimpleDataSets(testSet, dataSets, settings);
}
}
public void TestEqualAfterSerialization()
{
foreach (string[] testSet in _overlappingTagTestSets)
{
List<DicomFile> images = SetupImages(testSet.Length);
SetTestAttribute(images, testSet);
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
xml.AddFile(file);
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
settings.MaxTagLength = 1024;
XmlDocument doc = xml.GetMemento(settings);
List<InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
int i = 0;
foreach (DicomFile file in images)
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
i = 0;
foreach (DicomFile file in images)
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
}
private void UpdateFilesystem()
{
Platform.Log(LogLevel.Info, "Updating filesystem...");
StudyXml studyXml = _oldStudyLocation.LoadStudyXml();
StudyXmlOutputSettings outputSettings = ImageServerCommonConfiguration.DefaultStudyXmlOutputSettings;
StudyXml newStudyXml = new StudyXml();
foreach (SeriesXml seriesXml in studyXml)
{
foreach (InstanceXml instanceXml in seriesXml)
{
string path = Path.Combine(_oldStudyPath, seriesXml.SeriesInstanceUid);
path = Path.Combine(path, instanceXml.SopInstanceUid);
path += ServerPlatform.DicomFileExtension;
if (!File.Exists(path))
{
Platform.Log(LogLevel.Info, "SOP {0} is referenced in study xml but does not exist. It will be removed");
continue; // file was removed but xml was not updated?
}
try
{
DicomFile file = new DicomFile(path);
file.Load();
InstanceInfo instance = new InstanceInfo
{
SeriesInstanceUid = file.DataSet[DicomTags.SeriesInstanceUid].GetString(0, String.Empty),
SopInstanceUid = file.DataSet[DicomTags.SopInstanceUid].GetString(0, String.Empty)
};
UpdateDicomFile(file);
// Add into the temporary study xml
long fileSize = 0;
if (File.Exists(file.Filename))
{
FileInfo finfo = new FileInfo(file.Filename);
fileSize = finfo.Length;
}
newStudyXml.AddFile(file, fileSize, outputSettings);
_updatedSopList.Add(instance);
Platform.Log(ServerPlatform.InstanceLogLevel, "SOP {0} has been updated [{1} of {2}].", instance.SopInstanceUid, _updatedSopList.Count, _totalSopCount);
EventManager.FireEvent(this, new UpdateSopEventArgs { File = file, ServerPartitionEntry = _partition, WorkQueueUidEntry = null, WorkQueueEntry = _workQueue, FileLength = (ulong)fileSize });
}
catch (Exception)
{
File.Delete(Path.Combine(_backupDir, instanceXml.SopInstanceUid) + ".bak"); //dont' need to restore this file
throw;
}
}
}
// Log any study-level warnings
if (_updatedSopList.Count != _totalSopCount)
{
Platform.Log(LogLevel.Warn, "Inconsistent data: expected {0} instances to be updated / Found {1}.", _totalSopCount, _updatedSopList.Count);
}
// update the header
Platform.Log(LogLevel.Info, "Generating new study header...");
string newStudyXmlPath = Path.Combine(NewStudyPath, _newStudyInstanceUid + ".xml");
string gzipStudyXmlPath = Path.Combine(NewStudyPath, _newStudyInstanceUid + ".xml.gz");
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(newStudyXmlPath, FileMode.Create),
gzipStream = FileStreamOpener.OpenForSoleUpdate(gzipStudyXmlPath, FileMode.Create))
{
StudyXmlIo.WriteXmlAndGzip(newStudyXml.GetMemento(outputSettings), xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
}
/// <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;
}
}
private void UpdateFilesystem()
{
Platform.Log(LogLevel.Info, "Updating filesystem...");
StudyXml studyXml = _oldStudyLocation.LoadStudyXml();
StudyXmlOutputSettings outputSettings = ImageServerCommonConfiguration.DefaultStudyXmlOutputSettings;
StudyXml newStudyXml = new StudyXml();
foreach (SeriesXml seriesXml in studyXml)
{
foreach (InstanceXml instanceXml in seriesXml)
{
string path = Path.Combine(_oldStudyPath, seriesXml.SeriesInstanceUid);
path = Path.Combine(path, instanceXml.SopInstanceUid);
path += ServerPlatform.DicomFileExtension;
if (!File.Exists(path))
{
Platform.Log(LogLevel.Info, "SOP {0} is referenced in study xml but does not exist. It will be removed");
continue; // file was removed but xml was not updated?
}
try
{
DicomFile file = new DicomFile(path);
file.Load();
InstanceInfo instance = new InstanceInfo
{
SeriesInstanceUid = file.DataSet[DicomTags.SeriesInstanceUid].GetString(0, String.Empty),
SopInstanceUid = file.DataSet[DicomTags.SopInstanceUid].GetString(0, String.Empty)
};
UpdateDicomFile(file);
// Add into the temporary study xml
long fileSize = 0;
if (File.Exists(file.Filename))
{
FileInfo finfo = new FileInfo(file.Filename);
fileSize = finfo.Length;
}
newStudyXml.AddFile(file, fileSize, outputSettings);
_updatedSopList.Add(instance);
Platform.Log(ServerPlatform.InstanceLogLevel, "SOP {0} has been updated [{1} of {2}].", instance.SopInstanceUid, _updatedSopList.Count, _totalSopCount);
}
catch (Exception)
{
File.Delete(Path.Combine(_backupDir, instanceXml.SopInstanceUid) + ".bak"); //dont' need to restore this file
throw;
}
}
}
// Log any study-level warnings
if (_updatedSopList.Count != _totalSopCount)
{
Platform.Log(LogLevel.Warn, "Inconsistent data: expected {0} instances to be updated / Found {1}.", _totalSopCount, _updatedSopList.Count);
}
// update the header
Platform.Log(LogLevel.Info, "Generating new study header...");
string newStudyXmlPath = Path.Combine(NewStudyPath, _newStudyInstanceUid + ".xml");
string gzipStudyXmlPath = Path.Combine(NewStudyPath, _newStudyInstanceUid + ".xml.gz");
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(newStudyXmlPath, FileMode.Create),
gzipStream = FileStreamOpener.OpenForSoleUpdate(gzipStudyXmlPath, FileMode.Create))
{
StudyXmlIo.WriteXmlAndGzip(newStudyXml.GetMemento(outputSettings), xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
}
private void WriteStudyStream(string streamFile, string gzStreamFile, StudyXml theStream)
{
var theMemento = theStream.GetMemento(_outputSettings);
// allocate the random number generator here, in case we need it below
var rand = new Random();
string tmpStreamFile = streamFile + "_tmp";
string tmpGzStreamFile = gzStreamFile + "_tmp";
for (int i = 0; ; i++)
try
{
//FileUtils.Delete checks for existence
FileUtils.Delete(tmpStreamFile);
FileUtils.Delete(tmpGzStreamFile);
_fileSaved = true;
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(tmpStreamFile, FileMode.CreateNew),
gzipStream = FileStreamOpener.OpenForSoleUpdate(tmpGzStreamFile, FileMode.CreateNew))
{
StudyXmlIo.WriteXmlAndGzip(theMemento, xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
//FileUtils.Delete checks for existence
FileUtils.Delete(streamFile);
File.Move(tmpStreamFile, streamFile);
//FileUtils.Delete checks for existence
FileUtils.Delete(_gzPath);
File.Move(tmpGzStreamFile, _gzPath);
return;
}
catch (IOException)
{
if (i < 5)
{
Thread.Sleep(rand.Next(5, 50)); // Sleep 5-50 milliseconds
continue;
}
throw;
}
}
public void TestExcludePrivateTags()
{
List<DicomFile> images = SetupImages(2);
StudyXml xml = new StudyXml();
DicomTag privateTag =
new DicomTag(0x00210010, "Private Tag", "Private Tag", DicomVr.LTvr, false, 1, uint.MaxValue, false);
foreach (DicomFile file in images)
{
file.DataSet[privateTag].SetStringValue("My Private Tag");
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
XmlDocument doc = xml.GetMemento(settings);
List<InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
Assert.IsFalse(dataSet.Contains(privateTag));
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
foreach (InstanceXmlDicomAttributeCollection dataSet in dataSets)
Assert.IsFalse(dataSet.Contains(privateTag));
}
private void SaveStudyXml(StudyXml studyXml)
{
XmlDocument doc = studyXml.GetMemento(new StudyXmlOutputSettings());
using (FileStream xmlStream = FileStreamOpener.OpenForSoleUpdate(StorageLocation.GetStudyXmlPath(), FileMode.Create),
gzipStream = FileStreamOpener.OpenForSoleUpdate(StorageLocation.GetCompressedStudyXmlPath(), FileMode.Create))
{
StudyXmlIo.WriteXmlAndGzip(doc, xmlStream, gzipStream);
xmlStream.Close();
gzipStream.Close();
}
}
public void TestBaseInstanceTagsPastEnd()
{
//NOTE: previously, this test failed because, during xml serialization, only the
//instance's own attributes were iterated over; if there were tags in the base instance
//that went past the end of the individual instances, no 'EmptyAttributes' got added
//to the xml and there would be extra attributes in the instances on deserialization.
List <DicomFile> images = SetupImages(2);
DicomFile smallFile = new DicomFile(null);
images.Add(smallFile);
base.SetupMetaInfo(smallFile);
DicomAttributeCollection theSet = smallFile.DataSet;
theSet[DicomTags.SpecificCharacterSet].SetStringValue("ISO_IR 100");
theSet[DicomTags.ImageType].SetStringValue("ORIGINAL\\PRIMARY\\OTHER\\M\\FFE");
theSet[DicomTags.InstanceCreationDate].SetStringValue("20070618");
theSet[DicomTags.InstanceCreationTime].SetStringValue("133600");
theSet[DicomTags.SopClassUid].SetStringValue(SopClass.MrImageStorageUid);
theSet[DicomTags.SopInstanceUid].SetStringValue(DicomUid.GenerateUid().UID);
theSet[DicomTags.StudyDate].SetStringValue("20070618");
theSet[DicomTags.StudyTime].SetStringValue("133600");
theSet[DicomTags.SeriesDate].SetStringValue("20070618");
theSet[DicomTags.SeriesTime].SetStringValue("133700");
theSet[DicomTags.AccessionNumber].SetStringValue("A1234");
theSet[DicomTags.Modality].SetStringValue("MR");
theSet[DicomTags.Manufacturer].SetStringValue("ClearCanvas");
theSet[DicomTags.ManufacturersModelName].SetNullValue();
theSet[DicomTags.InstitutionName].SetStringValue("Mount Sinai Hospital");
theSet[DicomTags.ReferringPhysiciansName].SetStringValue("Last^First");
theSet[DicomTags.StudyDescription].SetStringValue("HEART");
theSet[DicomTags.SeriesDescription].SetStringValue("Heart 2D EPI BH TRA");
theSet[DicomTags.StudyInstanceUid].SetStringValue(images[0].DataSet[DicomTags.StudyInstanceUid].ToString());
theSet[DicomTags.SeriesInstanceUid].SetStringValue(images[0].DataSet[DicomTags.SeriesInstanceUid].ToString());
theSet[DicomTags.SopInstanceUid].SetStringValue(DicomUid.GenerateUid().ToString());
StudyXml xml = new StudyXml();
foreach (DicomFile file in images)
{
xml.AddFile(file);
}
StudyXmlOutputSettings settings = new StudyXmlOutputSettings();
XmlDocument doc = xml.GetMemento(settings);
List <InstanceXmlDicomAttributeCollection> dataSets = GetInstanceXmlDataSets(xml);
int i = 0;
foreach (DicomFile file in images)
{
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
xml = new StudyXml();
xml.SetMemento(doc);
dataSets = GetInstanceXmlDataSets(xml);
i = 0;
foreach (DicomFile file in images)
{
ValidateEqualExceptExclusions(file.DataSet, dataSets[i++], DicomTags.ImageComments, DicomTags.PixelData);
}
}