protected override bool OnExecute(ServerActionContext context)
{
DateTime scheduledTime = Platform.Time;
if (_exprScheduledTime != null)
{
scheduledTime = Evaluate(_exprScheduledTime, context, scheduledTime);
}
scheduledTime = CalculateOffsetTime(scheduledTime, _offsetTime, _units);
XmlDocument doc = new XmlDocument();
XmlElement element = doc.CreateElement("compress");
doc.AppendChild(element);
XmlAttribute syntaxAttribute = doc.CreateAttribute("syntax");
syntaxAttribute.Value = TransferSyntax.Jpeg2000ImageCompressionLosslessOnlyUid;
element.Attributes.Append(syntaxAttribute);
Platform.Log(LogLevel.Debug, "Jpeg 2000 Lossless Compression Scheduling: This study will be compressed on {0}", scheduledTime);
context.CommandProcessor.AddCommand(
new InsertFilesystemQueueCommand(_queueType, context.FilesystemKey, context.StudyLocationKey,
scheduledTime, doc));
return true;
}
/// <summary>
/// Creates an instance of <see cref="UpdateSeriesCommand"/> to update the existing Series record in the database
/// </summary>
public UpdateSeriesCommand(StudyStorageLocation storageLocation, ServerActionContext sopContext)
: base(String.Concat("Update Series Command"))
{
_storageLocation = storageLocation;
_data = sopContext.Message.DataSet;
_context = sopContext;
}
public ApplyRulesCommand(string directory, string studyInstanceUid, ServerActionContext context) : base("Apply Server Rules", true)
{
_directory = directory;
_studyInstanceUid = studyInstanceUid;
_context = context;
_engine = new ServerRulesEngine(ServerRuleApplyTimeEnum.StudyRestored, _context.ServerPartitionKey);
_engine.Load();
}
public void Apply(ServerRuleApplyTimeEnum applyTime, CommandProcessor theProcessor)
{
try
{
if (_studyRulesEngine == null || !_studyRulesEngine.RuleApplyTime.Equals(applyTime))
{
_studyRulesEngine = new ServerRulesEngine(applyTime, _location.ServerPartitionKey);
_studyRulesEngine.Load();
}
List <string> files = GetFirstInstanceInEachStudySeries();
if (files.Count == 0)
{
string message =
String.Format("Unexpectedly unable to find SOP instances for rules engine in each series in study: {0}",
_location.StudyInstanceUid);
Platform.Log(LogLevel.Error, message);
throw new ApplicationException(message);
}
Platform.Log(LogLevel.Info, "Processing Study Level rules for study {0} on partition {1} at {2} apply time",
_location.StudyInstanceUid, _partition.Description, applyTime.Description);
foreach (string seriesFilePath in files)
{
var theFile = new DicomFile(seriesFilePath);
theFile.Load(DicomReadOptions.Default);
var context =
new ServerActionContext(theFile, _location.FilesystemKey, _partition, _location.Key, theProcessor)
{
RuleEngine = _studyRulesEngine
};
_studyRulesEngine.Execute(context);
ProcessSeriesRules(theFile, theProcessor);
}
if (applyTime.Equals(ServerRuleApplyTimeEnum.StudyProcessed))
{
// This is a bit kludgy, but we had a problem with studies with only 1 image incorectlly
// having archive requests inserted when they were scheduled for deletion. Calling
// this command here so that if a delete is inserted at the study level, we will remove
// the previously inserted archive request for the study. Note also this has to be done
// after the rules engine is executed.
theProcessor.AddCommand(new InsertArchiveQueueCommand(_location.ServerPartitionKey, _location.Key));
}
}
finally
{
if (_studyRulesEngine != null)
{
_studyRulesEngine.Complete(_studyRulesEngine.RulesApplied);
}
}
}
/// <summary>
/// Method for applying rules when a new series has been inserted.
/// </summary>
/// <param name="file">The DICOM file being processed.</param>
/// <param name="processor">The command processor</param>
private void ProcessSeriesRules(DicomFile file, CommandProcessor processor)
{
if (_seriesRulesEngine == null)
{
_seriesRulesEngine = new ServerRulesEngine(ServerRuleApplyTimeEnum.SeriesProcessed, _location.ServerPartitionKey);
_seriesRulesEngine.Load();
}
else
{
_seriesRulesEngine.Statistics.LoadTime.Reset();
_seriesRulesEngine.Statistics.ExecutionTime.Reset();
}
var context = new ServerActionContext(file, _location.FilesystemKey, _partition, _location.Key, processor);
_seriesRulesEngine.Execute(context);
}
private void InsertInstance(DicomFile file, StudyXml stream, WorkQueueUid uid, string deleteFile, SopInstanceProcessorSopType sopType)
{
using (var processor = new ServerCommandProcessor("Processing WorkQueue DICOM file"))
{
EventsHelper.Fire(OnInsertingSop, this, new SopInsertingEventArgs {Processor = processor });
InsertInstanceCommand insertInstanceCommand = null;
InsertStudyXmlCommand insertStudyXmlCommand = null;
String patientsName = file.DataSet[DicomTags.PatientsName].GetString(0, String.Empty);
_modality = file.DataSet[DicomTags.Modality].GetString(0, String.Empty);
if (_context.UpdateCommands.Count > 0)
{
foreach (BaseImageLevelUpdateCommand command in _context.UpdateCommands)
{
command.File = file;
processor.AddCommand(command);
}
}
try
{
// Create a context for applying actions from the rules engine
ServerActionContext context =
new ServerActionContext(file, _context.StorageLocation.FilesystemKey, _context.Partition, _context.StorageLocation.Key);
context.CommandProcessor = processor;
_context.SopCompressionRulesEngine.Execute(context);
String seriesUid = file.DataSet[DicomTags.SeriesInstanceUid].GetString(0, String.Empty);
String sopUid = file.DataSet[DicomTags.SopInstanceUid].GetString(0, String.Empty);
String finalDest = _context.StorageLocation.GetSopInstancePath(seriesUid, sopUid);
if (_context.UpdateCommands.Count > 0)
{
processor.AddCommand(new SaveDicomFileCommand(_context.StorageLocation, file, file.Filename != finalDest));
}
else if (file.Filename != finalDest || processor.CommandCount > 0)
{
// Have to be careful here about failure on exists vs. not failing on exists
// because of the different use cases of the importer.
// save the file in the study folder, or if its been compressed
processor.AddCommand(new SaveDicomFileCommand(finalDest, file, file.Filename != finalDest));
}
// Update the StudyStream object
insertStudyXmlCommand = new InsertStudyXmlCommand(file, stream, _context.StorageLocation);
processor.AddCommand(insertStudyXmlCommand);
// Have the rules applied during the command processor, and add the objects.
processor.AddCommand(new ApplySopRulesCommand(context,_context.SopProcessedRulesEngine));
// If specified, delete the file
if (deleteFile != null)
processor.AddCommand(new FileDeleteCommand(deleteFile, true));
// Insert into the database, but only if its not a duplicate so the counts don't get off
insertInstanceCommand = new InsertInstanceCommand(file, _context.StorageLocation);
processor.AddCommand(insertInstanceCommand);
// Do a check if the StudyStatus value should be changed in the StorageLocation. This
// should only occur if the object has been compressed in the previous steps.
processor.AddCommand(new UpdateStudyStatusCommand(_context.StorageLocation, file));
if (uid!=null)
processor.AddCommand(new DeleteWorkQueueUidCommand(uid));
// Do the actual processing
if (!processor.Execute())
{
Platform.Log(LogLevel.Error, "Failure processing command {0} for SOP: {1}", processor.Description, file.MediaStorageSopInstanceUid);
Platform.Log(LogLevel.Error, "File that failed processing: {0}", file.Filename);
throw new ApplicationException("Unexpected failure (" + processor.FailureReason + ") executing command for SOP: " + file.MediaStorageSopInstanceUid, processor.FailureException);
}
Platform.Log(ServerPlatform.InstanceLogLevel, "Processed SOP: {0} for Patient {1}", file.MediaStorageSopInstanceUid, patientsName);
// Fire NewSopEventArgs or UpdateSopEventArgs Event
// Know its a duplicate if we have to delete the duplicate object
if (sopType == SopInstanceProcessorSopType.NewSop)
EventManager.FireEvent(this, new NewSopEventArgs { File = file, ServerPartitionEntry = _context.Partition, WorkQueueUidEntry = uid, WorkQueueEntry = _context.WorkQueueEntry, FileLength = InstanceStats.FileSize });
else if (sopType == SopInstanceProcessorSopType.UpdatedSop)
EventManager.FireEvent(this, new UpdateSopEventArgs {File = file,ServerPartitionEntry = _context.Partition,WorkQueueUidEntry = uid, WorkQueueEntry = _context.WorkQueueEntry, FileLength = InstanceStats.FileSize});
}
catch (Exception e)
{
Platform.Log(LogLevel.Error, e, "Unexpected exception when {0}. Rolling back operation.",
processor.Description);
processor.Rollback();
if (sopType == SopInstanceProcessorSopType.NewSop)
EventManager.FireEvent(this, new FailedNewSopEventArgs { File = file, ServerPartitionEntry = _context.Partition, WorkQueueUidEntry = uid, WorkQueueEntry = _context.WorkQueueEntry, FileLength = InstanceStats.FileSize, FailureMessage = e.Message });
else
EventManager.FireEvent(this, new FailedUpdateSopEventArgs { File = file, ServerPartitionEntry = _context.Partition, WorkQueueUidEntry = uid, WorkQueueEntry = _context.WorkQueueEntry, FileLength = InstanceStats.FileSize, FailureMessage = e.Message });
throw new ApplicationException("Unexpected exception when processing file.", e);
}
finally
{
if (insertInstanceCommand != null && insertInstanceCommand.Statistics.IsSet)
_instanceStats.InsertDBTime.Add(insertInstanceCommand.Statistics);
if (insertStudyXmlCommand != null && insertStudyXmlCommand.Statistics.IsSet)
_instanceStats.InsertStreamTime.Add(insertStudyXmlCommand.Statistics);
}
}
}
/// <summary>
/// Method for applying rules when a new series has been inserted.
/// </summary>
/// <param name="file">The DICOM file being processed.</param>
/// <param name="processor">The command processor</param>
private void ProcessSeriesRules(DicomFile file, CommandProcessor processor)
{
if (_seriesRulesEngine == null)
{
_seriesRulesEngine = new ServerRulesEngine(ServerRuleApplyTimeEnum.SeriesProcessed, _location.ServerPartitionKey);
_seriesRulesEngine.Load();
}
else
{
_seriesRulesEngine.Statistics.LoadTime.Reset();
_seriesRulesEngine.Statistics.ExecutionTime.Reset();
}
var context = new ServerActionContext(file, _location.FilesystemKey, _partition, _location.Key,processor);
_seriesRulesEngine.Execute(context);
}
public void Apply(ServerRuleApplyTimeEnum applyTime, CommandProcessor theProcessor)
{
try
{
if (_studyRulesEngine == null || !_studyRulesEngine.RuleApplyTime.Equals(applyTime))
{
_studyRulesEngine = new ServerRulesEngine(applyTime, _location.ServerPartitionKey);
_studyRulesEngine.Load();
}
List<string> files = GetFirstInstanceInEachStudySeries();
if (files.Count == 0)
{
string message =
String.Format("Unexpectedly unable to find SOP instances for rules engine in each series in study: {0}",
_location.StudyInstanceUid);
Platform.Log(LogLevel.Error, message);
throw new ApplicationException(message);
}
Platform.Log(LogLevel.Info, "Processing Study Level rules for study {0} on partition {1} at {2} apply time",
_location.StudyInstanceUid, _partition.Description, applyTime.Description);
foreach (string seriesFilePath in files)
{
var theFile = new DicomFile(seriesFilePath);
theFile.Load(DicomReadOptions.Default);
var context =
new ServerActionContext(theFile, _location.FilesystemKey, _partition, _location.Key, theProcessor){ RuleEngine = _studyRulesEngine};
_studyRulesEngine.Execute(context);
ProcessSeriesRules(theFile, theProcessor);
}
if (applyTime.Equals(ServerRuleApplyTimeEnum.StudyProcessed))
{
// This is a bit kludgy, but we had a problem with studies with only 1 image incorectlly
// having archive requests inserted when they were scheduled for deletion. Calling
// this command here so that if a delete is inserted at the study level, we will remove
// the previously inserted archive request for the study. Note also this has to be done
// after the rules engine is executed.
theProcessor.AddCommand(new InsertArchiveQueueCommand(_location.ServerPartitionKey, _location.Key));
}
}
finally
{
if (_studyRulesEngine!=null)
_studyRulesEngine.Complete(_studyRulesEngine.RulesApplied);
}
}
private void RestoreOnlineStudy(RestoreQueue queueItem, string zipFile, string destinationFolder)
{
try
{
using (ServerCommandProcessor processor = new ServerCommandProcessor("NAS Restore Online Study"))
{
using (ZipFile zip = new ZipFile(zipFile))
{
foreach (string file in zip.EntryFileNames)
{
processor.AddCommand(new ExtractZipFileAndReplaceCommand(zipFile, file, destinationFolder));
}
}
// We rebuild the StudyXml, in case any settings or issues have happened since archival
processor.AddCommand(new RebuildStudyXmlCommand(_location.StudyInstanceUid, destinationFolder));
StudyStatusEnum status;
if (_syntax.Encapsulated && _syntax.LosslessCompressed)
status = StudyStatusEnum.OnlineLossless;
else if (_syntax.Encapsulated && _syntax.LossyCompressed)
status = StudyStatusEnum.OnlineLossy;
else
status = StudyStatusEnum.Online;
processor.AddCommand(new UpdateStudyStateCommand(_location, status, _serverSyntax));
// Apply the rules engine.
ServerActionContext context =
new ServerActionContext(null, _location.FilesystemKey, _nasArchive.ServerPartition,
queueItem.StudyStorageKey) {CommandProcessor = processor};
processor.AddCommand(
new ApplyRulesCommand(destinationFolder, _location.StudyInstanceUid, context));
if (!processor.Execute())
{
Platform.Log(LogLevel.Error, "Unexpected error processing restore request for {0} on archive {1}",
_location.StudyInstanceUid, _nasArchive.PartitionArchive.Description);
queueItem.FailureDescription = processor.FailureReason;
_nasArchive.UpdateRestoreQueue(queueItem, RestoreQueueStatusEnum.Failed, Platform.Time);
}
else
{
// Unlock the Queue Entry and set to complete
using (IUpdateContext update = PersistentStoreRegistry.GetDefaultStore().OpenUpdateContext(UpdateContextSyncMode.Flush))
{
_nasArchive.UpdateRestoreQueue(update, queueItem, RestoreQueueStatusEnum.Completed, Platform.Time.AddSeconds(60));
ILockStudy studyLock = update.GetBroker<ILockStudy>();
LockStudyParameters parms = new LockStudyParameters
{
StudyStorageKey = queueItem.StudyStorageKey,
QueueStudyStateEnum = QueueStudyStateEnum.Idle
};
bool retVal = studyLock.Execute(parms);
if (!parms.Successful || !retVal)
{
Platform.Log(LogLevel.Info, "Study {0} on partition {1} failed to unlock.", _location.StudyInstanceUid,
_nasArchive.ServerPartition.Description);
}
update.Commit();
Platform.Log(LogLevel.Info, "Successfully restored study: {0} on archive {1}", _location.StudyInstanceUid,
_nasArchive.PartitionArchive.Description);
OnStudyRestored(_location);
}
}
}
}
catch (Exception e)
{
Platform.Log(LogLevel.Error, e, "Unexpected exception processing restore request for {0} on archive {1}",
_location.StudyInstanceUid, _nasArchive.PartitionArchive.Description);
queueItem.FailureDescription = e.Message;
_nasArchive.UpdateRestoreQueue(queueItem, RestoreQueueStatusEnum.Failed, Platform.Time);
}
}
public void RestoreNearlineStudy(RestoreQueue queueItem, string zipFile, string destinationFolder, string studyFolder)
{
ServerFilesystemInfo fs = _nasArchive.Selector.SelectFilesystem();
if (fs == null)
{
DateTime scheduleTime = Platform.Time.AddMinutes(5);
Platform.Log(LogLevel.Error, "No writeable filesystem for restore, rescheduling restore request to {0}", scheduleTime);
queueItem.FailureDescription = "No writeable filesystem for restore, rescheduling restore request";
_nasArchive.UpdateRestoreQueue(queueItem, RestoreQueueStatusEnum.Pending, scheduleTime);
return;
}
StudyStorageLocation restoredLocation = null;
try
{
using (ServerCommandProcessor processor =
new ServerCommandProcessor("NAS Restore Offline Study"))
{
processor.AddCommand(new CreateDirectoryCommand(destinationFolder));
destinationFolder = Path.Combine(destinationFolder, studyFolder);
processor.AddCommand(new CreateDirectoryCommand(destinationFolder));
destinationFolder = Path.Combine(destinationFolder, _studyStorage.StudyInstanceUid);
processor.AddCommand(new CreateDirectoryCommand(destinationFolder));
processor.AddCommand(new ExtractZipCommand(zipFile, destinationFolder));
// We rebuild the StudyXml, in case any settings or issues have happened since archival
processor.AddCommand(new RebuildStudyXmlCommand(_studyStorage.StudyInstanceUid, destinationFolder));
// Apply the rules engine.
ServerActionContext context =
new ServerActionContext(null, fs.Filesystem.GetKey(), _nasArchive.ServerPartition,
queueItem.StudyStorageKey) {CommandProcessor = processor};
processor.AddCommand(
new ApplyRulesCommand(destinationFolder, _studyStorage.StudyInstanceUid, context));
// Do the actual insert into the DB
InsertFilesystemStudyStorageCommand insertStorageCommand = new InsertFilesystemStudyStorageCommand(
_nasArchive.PartitionArchive.ServerPartitionKey,
_studyStorage.StudyInstanceUid,
studyFolder,
fs.Filesystem.GetKey(), _syntax);
processor.AddCommand(insertStorageCommand);
if (!processor.Execute())
{
Platform.Log(LogLevel.Error, "Unexpected error processing restore request for {0} on archive {1}",
_studyStorage.StudyInstanceUid, _nasArchive.PartitionArchive.Description);
queueItem.FailureDescription = processor.FailureReason;
_nasArchive.UpdateRestoreQueue(queueItem, RestoreQueueStatusEnum.Failed, Platform.Time);
}
else
{
restoredLocation = insertStorageCommand.Location;
// Unlock the Queue Entry
using (
IUpdateContext update = PersistentStoreRegistry.GetDefaultStore().OpenUpdateContext(UpdateContextSyncMode.Flush))
{
bool retVal = _nasArchive.UpdateRestoreQueue(update, queueItem, RestoreQueueStatusEnum.Completed, Platform.Time.AddSeconds(60));
ILockStudy studyLock = update.GetBroker<ILockStudy>();
LockStudyParameters parms = new LockStudyParameters
{
StudyStorageKey = queueItem.StudyStorageKey,
QueueStudyStateEnum = QueueStudyStateEnum.Idle
};
retVal = retVal && studyLock.Execute(parms);
if (!parms.Successful || !retVal)
{
string message =
String.Format("Study {0} on partition {1} failed to unlock.", _studyStorage.StudyInstanceUid,
_nasArchive.ServerPartition.Description);
Platform.Log(LogLevel.Info, message);
throw new ApplicationException(message);
}
update.Commit();
Platform.Log(LogLevel.Info, "Successfully restored study: {0} on archive {1}", _studyStorage.StudyInstanceUid,
_nasArchive.PartitionArchive.Description);
OnStudyRestored(restoredLocation);
}
}
}
}
catch(StudyIntegrityValidationFailure ex)
{
Debug.Assert(restoredLocation != null);
// study has been restored but it seems corrupted. Need to reprocess it.
ReprocessStudy(restoredLocation, ex.Message);
}
catch (Exception e)
{
Platform.Log(LogLevel.Error, e, "Unexpected exception processing restore request for {0} on archive {1}",
_studyStorage.StudyInstanceUid, _nasArchive.PartitionArchive.Description);
_nasArchive.UpdateRestoreQueue(queueItem, RestoreQueueStatusEnum.Failed, Platform.Time);
}
}
private void SaveFile(DicomFile file)
{
String seriesInstanceUid = file.DataSet[DicomTags.SeriesInstanceUid].GetString(0, String.Empty);
String sopInstanceUid = file.DataSet[DicomTags.SopInstanceUid].GetString(0, String.Empty);
String destPath = _oldStudyLocation.FilesystemPath;
using (ServerCommandProcessor filesystemUpdateProcessor = new ServerCommandProcessor("Update Study"))
{
filesystemUpdateProcessor.AddCommand(new CreateDirectoryCommand(destPath));
destPath = Path.Combine(destPath, _partition.PartitionFolder);
filesystemUpdateProcessor.AddCommand(new CreateDirectoryCommand(destPath));
destPath = Path.Combine(destPath, _oldStudyFolder);
filesystemUpdateProcessor.AddCommand(new CreateDirectoryCommand(destPath));
destPath = Path.Combine(destPath, _newStudyInstanceUid);
filesystemUpdateProcessor.AddCommand(new CreateDirectoryCommand(destPath));
destPath = Path.Combine(destPath, seriesInstanceUid);
filesystemUpdateProcessor.AddCommand(new CreateDirectoryCommand(destPath));
destPath = Path.Combine(destPath, sopInstanceUid);
destPath += ServerPlatform.DicomFileExtension;
// Overwrite the prior file
SaveDicomFileCommand saveCommand = new SaveDicomFileCommand(destPath, file, false);
filesystemUpdateProcessor.AddCommand(saveCommand);
if (_rulesEngine != null)
{
ServerActionContext context = new ServerActionContext(file, _oldStudyLocation.FilesystemKey, _partition, _oldStudyLocation.Key, filesystemUpdateProcessor);
_rulesEngine.Execute(context);
}
if (!filesystemUpdateProcessor.Execute())
{
throw new ApplicationException(String.Format("Unable to update image {0} : {1}", file.Filename, filesystemUpdateProcessor.FailureReason));
}
}
}
/// <summary>
/// Reprocess a specific study.
/// </summary>
/// <param name="partition">The ServerPartition the study is on.</param>
/// <param name="location">The storage location of the study to process.</param>
/// <param name="engine">The rules engine to use when processing the study.</param>
/// <param name="postArchivalEngine">The rules engine used for studies that have been archived.</param>
/// <param name="dataAccessEngine">The rules engine strictly used for setting data acess.</param>
protected static void ProcessStudy(ServerPartition partition, StudyStorageLocation location, ServerRulesEngine engine, ServerRulesEngine postArchivalEngine, ServerRulesEngine dataAccessEngine)
{
if (!location.QueueStudyStateEnum.Equals(QueueStudyStateEnum.Idle) || !location.AcquireWriteLock())
{
Platform.Log(LogLevel.Error, "Unable to lock study {0}. The study is being processed. (Queue State: {1})", location.StudyInstanceUid,location.QueueStudyStateEnum.Description);
}
else
{
try
{
DicomFile msg = LoadInstance(location);
if (msg == null)
{
Platform.Log(LogLevel.Error, "Unable to load file for study {0}", location.StudyInstanceUid);
return;
}
bool archiveQueueExists;
bool archiveStudyStorageExists;
bool filesystemDeleteExists;
using (IReadContext read = PersistentStoreRegistry.GetDefaultStore().OpenReadContext())
{
// Check for existing archive queue entries
var archiveQueueBroker = read.GetBroker<IArchiveQueueEntityBroker>();
var archiveQueueCriteria = new ArchiveQueueSelectCriteria();
archiveQueueCriteria.StudyStorageKey.EqualTo(location.Key);
archiveQueueExists = archiveQueueBroker.Count(archiveQueueCriteria) > 0;
var archiveStorageBroker = read.GetBroker<IArchiveStudyStorageEntityBroker>();
var archiveStudyStorageCriteria = new ArchiveStudyStorageSelectCriteria();
archiveStudyStorageCriteria.StudyStorageKey.EqualTo(location.Key);
archiveStudyStorageExists = archiveStorageBroker.Count(archiveStudyStorageCriteria) > 0;
var filesystemQueueBroker = read.GetBroker<IFilesystemQueueEntityBroker>();
var filesystemQueueCriteria = new FilesystemQueueSelectCriteria();
filesystemQueueCriteria.StudyStorageKey.EqualTo(location.Key);
filesystemQueueCriteria.FilesystemQueueTypeEnum.EqualTo(FilesystemQueueTypeEnum.DeleteStudy);
filesystemDeleteExists = filesystemQueueBroker.Count(filesystemQueueCriteria) > 0;
}
using (var commandProcessor = new ServerCommandProcessor("Study Rule Processor"))
{
var context = new ServerActionContext(msg, location.FilesystemKey, partition, location.Key, commandProcessor);
// Check if the Study has been archived
if (archiveStudyStorageExists && !archiveQueueExists && !filesystemDeleteExists)
{
// Add a command to delete the current filesystemQueue entries, so that they can
// be reinserted by the rules engine.
context.CommandProcessor.AddCommand(new DeleteFilesystemQueueCommand(location.Key, ServerRuleApplyTimeEnum.StudyArchived));
// How to deal with exiting FilesystemQueue entries is problematic here. If the study
// has been migrated off tier 1, we probably don't want to modify the tier migration
// entries. Compression entries may have been entered when the Study was initially
// processed, we don't want to delete them, because they might still be valid.
// We just re-run the rules engine at this point, and delete only the StudyPurge entries,
// since those we know at least would only be applied for archived studies.
var studyRulesEngine = new StudyRulesEngine(postArchivalEngine, location, location.ServerPartition, location.LoadStudyXml());
studyRulesEngine.Apply(ServerRuleApplyTimeEnum.StudyArchived, commandProcessor);
// Post Archive doesn't allow data access rules. Force Data Access rules to be reapplied
// to these studies also.
dataAccessEngine.Execute(context);
}
else
{
// Add a command to delete the current filesystemQueue entries, so that they can
// be reinserted by the rules engine.
context.CommandProcessor.AddCommand(new DeleteFilesystemQueueCommand(location.Key,ServerRuleApplyTimeEnum.StudyProcessed));
// Execute the rules engine, insert commands to update the database into the command processor.
// Due to ticket #11673, we create a new rules engine instance for each study, since the Study QC rules
// don't work right now with a single rules engine.
//TODO CR (Jan 2014) - Check if we can go back to caching the rules engine to reduce database hits on the rules
var studyRulesEngine = new StudyRulesEngine(location, location.ServerPartition, location.LoadStudyXml());
studyRulesEngine.Apply(ServerRuleApplyTimeEnum.StudyProcessed, commandProcessor);
}
// Do the actual database updates.
if (false == context.CommandProcessor.Execute())
{
Platform.Log(LogLevel.Error, "Unexpected failure processing Study level rules for study {0}", location.StudyInstanceUid);
}
// Log the FilesystemQueue related entries
location.LogFilesystemQueue();
}
}
finally
{
location.ReleaseWriteLock();
}
}
}
public ApplySopRulesCommand(ServerActionContext context, ServerRulesEngine engine)
: base("Apply SOP Rules Engine and insert Archival Request", false)
{
_context = context;
_engine = engine;
}
protected void ProcessFile(Model.WorkQueue item, WorkQueueUid sop, string path, StudyXml studyXml, IDicomCodecFactory theCodecFactory)
{
DicomFile file;
_instanceStats = new CompressInstanceStatistics();
_instanceStats.ProcessTime.Start();
// Use the command processor for rollback capabilities.
using (ServerCommandProcessor processor = new ServerCommandProcessor("Processing WorkQueue Compress DICOM File"))
{
string modality = String.Empty;
try
{
file = new DicomFile(path);
_instanceStats.FileLoadTime.Start();
file.Load(DicomReadOptions.StorePixelDataReferences | DicomReadOptions.Default);
_instanceStats.FileLoadTime.End();
modality = file.DataSet[DicomTags.Modality].GetString(0, String.Empty);
FileInfo fileInfo = new FileInfo(path);
_instanceStats.FileSize = (ulong)fileInfo.Length;
// Get the Patients Name for processing purposes.
String patientsName = file.DataSet[DicomTags.PatientsName].GetString(0, "");
if (file.TransferSyntax.Equals(theCodecFactory.CodecTransferSyntax))
{
// Delete the WorkQueueUid item
processor.AddCommand(new DeleteWorkQueueUidCommand(sop));
// Do the actual processing
if (!processor.Execute())
{
Platform.Log(LogLevel.Warn, "Failure deleteing WorkQueueUid: {0} for SOP: {1}", processor.Description, file.MediaStorageSopInstanceUid);
Platform.Log(LogLevel.Warn, "Compression file that failed: {0}", file.Filename);
}
else
{
Platform.Log(LogLevel.Warn, "Skip compressing SOP {0}. Its current transfer syntax is {1}",
file.MediaStorageSopInstanceUid, file.TransferSyntax.Name);
}
}
else
{
IDicomCodec codec = theCodecFactory.GetDicomCodec();
// Create a context for applying actions from the rules engine
var context = new ServerActionContext(file, StorageLocation.FilesystemKey, ServerPartition, item.StudyStorageKey);
context.CommandProcessor = processor;
var parms = theCodecFactory.GetCodecParameters(item.Data);
var compressCommand =
new DicomCompressCommand(context.Message, theCodecFactory.CodecTransferSyntax, codec, parms);
processor.AddCommand(compressCommand);
var save = new SaveDicomFileCommand(file.Filename, file, false);
processor.AddCommand(save);
// Update the StudyStream object, must be done after compression
// and after the compressed image has been successfully saved
var insertStudyXmlCommand = new UpdateStudyXmlCommand(file, studyXml, StorageLocation);
processor.AddCommand(insertStudyXmlCommand);
// Delete the WorkQueueUid item
processor.AddCommand(new DeleteWorkQueueUidCommand(sop));
// Do the actual processing
if (!processor.Execute())
{
_instanceStats.CompressTime.Add(compressCommand.CompressTime);
Platform.Log(LogLevel.Error, "Failure compressing command {0} for SOP: {1}", processor.Description, file.MediaStorageSopInstanceUid);
Platform.Log(LogLevel.Error, "Compression file that failed: {0}", file.Filename);
throw new ApplicationException("Unexpected failure (" + processor.FailureReason + ") executing command for SOP: " + file.MediaStorageSopInstanceUid,processor.FailureException);
}
_instanceStats.CompressTime.Add(compressCommand.CompressTime);
Platform.Log(ServerPlatform.InstanceLogLevel, "Compress SOP: {0} for Patient {1}", file.MediaStorageSopInstanceUid,
patientsName);
}
}
catch (Exception e)
{
Platform.Log(LogLevel.Error, e, "Unexpected exception when {0}. Rolling back operation.",
processor.Description);
processor.Rollback();
throw;
}
finally
{
_instanceStats.ProcessTime.End();
_studyStats.AddSubStats(_instanceStats);
_studyStats.StudyInstanceUid = StorageLocation.StudyInstanceUid;
if (String.IsNullOrEmpty(modality) == false)
_studyStats.Modality = modality;
// Update the statistics
_studyStats.NumInstances++;
}
}
}
/// <summary>
/// Overwrites existing copy with the received duplicate. Update the database, study xml and applies any SOP rules.
/// </summary>
/// <param name="dupFile"></param>
/// <param name="uid"></param>
/// <param name="studyXml"></param>
/// <returns></returns>
private ProcessDuplicateResult OverwriteAndUpdateDuplicate(DicomFile dupFile, WorkQueueUid uid, StudyXml studyXml)
{
Platform.Log(LogLevel.Info, "Overwriting duplicate SOP {0}", uid.SopInstanceUid);
var result = new ProcessDuplicateResult();
result.ActionTaken = DuplicateProcessResultAction.Accept;
using (var processor = new ServerCommandProcessor("Overwrite duplicate instance"))
{
var sopContext = new ServerActionContext(dupFile, Context.StorageLocation.FilesystemKey, Context.StorageLocation.ServerPartition, Context.StorageLocation.Key, processor);
var destination = Context.StorageLocation.GetSopInstancePath(uid.SeriesInstanceUid, uid.SopInstanceUid);
processor.AddCommand(new RenameFileCommand(dupFile.Filename, destination, false));
// Do so that the FileSize calculation inInsertStudyXmlCommand works
dupFile.Filename = destination;
// Update the StudyStream object
var insertStudyXmlCommand = new InsertStudyXmlCommand(dupFile, studyXml, Context.StorageLocation);
processor.AddCommand(insertStudyXmlCommand);
// Ideally we don't need to insert the instance into the database since it's a duplicate.
// However, we need to do so to ensure the Study record is recreated if we are dealing with an orphan study.
// For other cases, this will cause the instance count in the DB to be out of sync with the filesystem.
// But it will be corrected at the end of the processing when the study verification is executed.
processor.AddCommand(new UpdateInstanceCommand(Context.StorageLocation.ServerPartition,Context.StorageLocation,dupFile));
processor.AddCommand(new DeleteWorkQueueUidCommand(uid));
processor.AddCommand(new ApplySopRulesCommand(sopContext, Context.SopProcessedRulesEngine));
if (!processor.Execute())
{
EventManager.FireEvent(this, new FailedUpdateSopEventArgs { File = dupFile, ServerPartitionEntry = Context.StorageLocation.ServerPartition, WorkQueueUidEntry = uid, WorkQueueEntry = WorkQueueItem, FileLength = (ulong)insertStudyXmlCommand.FileSize, FailureMessage = processor.FailureReason });
// cause the item to fail
throw new Exception(string.Format("Error occurred when trying to overwrite duplicate in the filesystem."), processor.FailureException);
}
EventManager.FireEvent(this, new UpdateSopEventArgs { File = dupFile, ServerPartitionEntry = Context.StorageLocation.ServerPartition, WorkQueueUidEntry = uid, WorkQueueEntry = WorkQueueItem, FileLength = (ulong)insertStudyXmlCommand.FileSize });
}
return result;
}
void SaveDuplicateReport(WorkQueueUid uid, string sourceFile, string destinationFile, DicomFile dupFile, StudyXml studyXml)
{
using (var processor = new ServerCommandProcessor("Save duplicate report"))
{
var sopContext = new ServerActionContext(dupFile, Context.StorageLocation.FilesystemKey, Context.StorageLocation.ServerPartition, Context.StorageLocation.Key, processor);
processor.AddCommand(new RenameFileCommand(sourceFile, destinationFile, false));
// Update the StudyStream object
processor.AddCommand( new InsertStudyXmlCommand(dupFile, studyXml, Context.StorageLocation));
// Update the series
processor.AddCommand(new UpdateSeriesCommand(Context.StorageLocation, sopContext));
processor.AddCommand(new DeleteWorkQueueUidCommand(uid));
processor.AddCommand(new ApplySopRulesCommand(sopContext, Context.SopProcessedRulesEngine));
processor.Execute();
}
}
