@Deprecated
private ArrayList<FSFile> getFileList(AlgorithmDTO algorithm, List<FSFile> subFiles) {
ArrayList<FSFile> retFiles = new ArrayList<FSFile>();
String needExtentions = "";
if (algorithm.getType() == null) {
needExtentions = ".hea.dat.xyz";
} else {
switch (algorithm.getType()) {
case ANN2RR:
case NGUESS:
case PNNLIST:
case TACH:
needExtentions = ".atr.qrs.wqrs.hea.dat.xyz";
break;
case SQRS:
case WQRS:
case RDSAMP:
case SIGAAMP:
case CHESNOKOV:
case SQRS4IHR:
case WQRS4IHR:
case SQRS4PNNLIST:
case WQRS4PNNLIST:
needExtentions = ".hea.dat.xyz";
break;
case WRSAMP:
needExtentions = ".txt";
break;
default:
needExtentions = ".hea.dat.xyz";
break;
}
}
for (FSFile file : subFiles) {
if (needExtentions.contains(file.getExtension())) {
retFiles.add(file);
}
}
return retFiles;
}
/**
* Initialize the analysis thread group
*
* @param selectedNodes Selected documents to be analyzed
* @param userId Logged user ID
* @param selectedAlgorithms Selected algorithms
* @return
*/
public boolean performAnalysis(
List<DocumentDragVO> selectedNodes, long userId, AlgorithmDTO[] selectedAlgorithms) {
try {
Connection dbUtility = ConnectionFactory.createConnection();
Set<AnalysisThread> threadSet = new HashSet<AnalysisThread>();
ThreadGroup analysisGroup = ThreadController.createSubGroup("AnalysisGroup");
String[] args = {
String.valueOf(ResourceUtility.getCurrentGroupId()),
String.valueOf(ResourceUtility.getCurrentUserId()),
String.valueOf(ResourceUtility.getCurrentCompanyId())
};
FileStorer fileStorer =
FileStoreFactory.returnFileStore(ResourceUtility.getFileStorageType(), args);
for (DocumentDragVO node : selectedNodes) {
List<FileInfoDTO> files =
dbUtility.getAllFilesByDocumentRecordId(node.getDocumentRecord().getDocumentRecordId());
FSFile headerFile = fileStorer.getFile(files.get(0).getFileEntryId(), true);
FileType originalFileType = node.getDocumentRecord().getOriginalFormat();
long docId = node.getDocumentRecord().getDocumentRecordId();
String timeseriesId = node.getDocumentRecord().getTimeSeriesId();
String name = node.getDocumentRecord().getRecordName();
String age = node.getDocumentRecord().getAge().toString();
String sex = node.getDocumentRecord().getGender();
String channels = String.valueOf(node.getDocumentRecord().getLeadCount());
String scalingFactor = String.valueOf(node.getDocumentRecord().getAduGain());
String samplesPerChannel = String.valueOf(node.getDocumentRecord().getSamplesPerChannel());
String samplingRate = String.valueOf(node.getDocumentRecord().getSamplingRate());
ThreadGroup fileGroup = new ThreadGroup(analysisGroup, docId + "Group");
List<Long> analysisIds = new ArrayList<Long>();
for (AlgorithmDTO algorithm : selectedAlgorithms) {
Map<String, Object> parameterMap = new HashMap<String, Object>();
parameterMap.put("userID", String.valueOf(userId));
parameterMap.put("groupID", String.valueOf(ResourceUtility.getCurrentGroupId()));
parameterMap.put("folderID", String.valueOf(headerFile.getParentId()));
parameterMap.put("subjectID", node.getDocumentRecord().getSubjectId());
parameterMap.put("durationSec", node.getDocumentRecord().getDurationSec());
parameterMap.put("channels", channels);
parameterMap.put("leadNames", node.getDocumentRecord().getLeadNames());
parameterMap.put("scalingFactor", scalingFactor);
parameterMap.put("samplesPerChannel", samplesPerChannel);
parameterMap.put("samplingRate", samplingRate);
parameterMap.put("timeseriesId", timeseriesId);
LinkedHashMap<String, String> parameterlistMap = new LinkedHashMap<String, String>();
if ((originalFileType.getLabel().equals("Schiller"))
&& (algorithm.getDisplayShortName().contentEquals("QRS-Score"))) {
List<AnnotationDTO> magellanAnnot =
getMagellanLeadAnnotationList(userId, docId, "Schiller Upload", "ECGT");
List<AnnotationDTO> magellanRecAnnot =
getMagellanRecordAnnotationList(userId, docId, "Schiller Upload", "ECGT");
String qrsd = null, qrsax = null;
if (magellanRecAnnot.get(0) != null) {
qrsd = magellanRecAnnot.get(0).getValue();
}
if (magellanRecAnnot.get(1) != null) {
qrsax = magellanRecAnnot.get(1).getValue();
}
parameterlistMap =
buildQRS_ScoreParameterListMap(docId, name, age, sex, qrsd, qrsax, magellanAnnot);
}
parameterMap.put("parameterlist", parameterlistMap);
parameterMap.put("method", algorithm.getServiceMethod());
parameterMap.put("serviceName", algorithm.getServiceName());
parameterMap.put("URL", algorithm.getAnalysisServiceURL());
parameterMap.put("openTsdbHost", ResourceUtility.getOpenTsdbHost());
parameterMap.put("openTsdbStrategy", ResourceUtility.getOpenTsdStrategy());
AnalysisJobDTO analysisJobDTO =
dbUtility.storeAnalysisJob(
node.getFileNode().getDocumentRecordId(),
0,
0,
algorithm.getAnalysisServiceURL(),
algorithm.getServiceName(),
algorithm.getServiceMethod(),
new Date(),
ResourceUtility.getCurrentUserId());
String jobID = "job_" + analysisJobDTO.getAnalysisJobId();
parameterMap.put("jobID", jobID);
AnalysisThread t =
new AnalysisThread(
parameterMap,
node.getDocumentRecord(),
ResourceUtility.getCurrentUserId(),
dbUtility,
fileGroup,
fileStorer,
algorithm.getResultType());
threadSet.add(t);
analysisIds.add(analysisJobDTO.getAnalysisJobId());
}
AnalysisStatusDTO dto =
new AnalysisStatusDTO(
node.getDocumentRecord().getDocumentRecordId(),
node.getDocumentRecord().getRecordName(),
analysisIds.size(),
0,
0);
dto.setAnalysisIds(analysisIds);
this.addToBackgroundQueue(dto);
}
tController = new ThreadController(threadSet);
tController.start();
return true;
} catch (FSException e) {
e.printStackTrace();
} catch (DataStorageException e) {
e.printStackTrace();
}
return false;
}