/**
* Update the indexes for this object. This stage tracks the following data:
*
* <ul>
* <li>Processing date (today)
* <li>PatientID
* <li>StudyInstanceUID
* <li>SeriesInstanceUID
* <li>SOPInstanceUID
* </ul>
*
* It creates table entries for the values in this object. IDs which are not unique may be
* overwritten by subsequent objects (e.g. duplicates). Thus, the tables contain only records of
* unique objects that have been processed.
*
* @param fileObject the object to process.
* @return the same FileObject if the result is true; otherwise null.
*/
public FileObject process(FileObject fileObject) {
lastFileIn = new File(fileObject.getFile().getAbsolutePath());
lastTimeIn = System.currentTimeMillis();
try {
if (fileObject instanceof DicomObject) {
DicomObject dob = (DicomObject) fileObject;
String date = StringUtil.getDate("");
String patientID = dob.getPatientID();
String studyInstanceUID = dob.getStudyInstanceUID();
String seriesInstanceUID = dob.getSeriesInstanceUID();
String sopInstanceUID = dob.getSOPInstanceUID();
index(dateIndex, date, patientID);
index(patientIndex, patientID, studyInstanceUID);
index(studyIndex, studyInstanceUID, seriesInstanceUID);
index(seriesIndex, seriesInstanceUID, sopInstanceUID);
recman.commit();
}
} catch (Exception skip) {
logger.debug("Unable to process " + fileObject.getFile());
}
lastFileOut = new File(fileObject.getFile().getAbsolutePath());
lastTimeOut = System.currentTimeMillis();
return fileObject;
}
/** Update the lookup table and the database. */
public synchronized void update(Document doc) {
LookupTable lut = LookupTable.getInstance(lutFile);
Properties props = lut.getProperties();
Element root = doc.getDocumentElement();
boolean changed = false;
Node child = root.getFirstChild();
while (child != null) {
if (child instanceof Element) {
Element term = (Element) child;
String key = term.getAttribute("key");
String value = term.getAttribute("value");
props.setProperty(key, value);
try {
index.remove(key);
} catch (Exception ignore) {
}
changed = true;
}
child = child.getNextSibling();
}
if (changed) {
try {
recman.commit();
} catch (Exception ignore) {
}
lut.save();
}
}
/**
* Check a DicomObject and record any failing lookups in the database.
*
* @param fileObject the object to process.
* @return the same FileObject if the result is true; otherwise null.
*/
public FileObject process(FileObject fileObject) {
String cmd;
lastFileIn = new File(fileObject.getFile().getAbsolutePath());
lastTimeIn = System.currentTimeMillis();
if (fileObject instanceof DicomObject) {
DicomObject dob = (DicomObject) fileObject;
if (dcmScriptFile != null) {
DAScript daScript = DAScript.getInstance(dcmScriptFile);
scriptTable = new ScriptTable(daScript);
lutProps = LookupTable.getProperties(lutFile);
synchronized (this) {
Dataset ds = dob.getDataset();
charset = ds.getSpecificCharacterSet();
boolean ok = checkDataset(ds);
if (!ok) {
try {
recman.commit();
} catch (Exception unable) {
}
;
if (quarantine != null) quarantine.insert(fileObject);
return null;
}
}
}
}
lastFileOut = new File(fileObject.getFile().getAbsolutePath());
lastTimeOut = System.currentTimeMillis();
return fileObject;
}
/** Stop the stage. */
public void shutdown() {
// Commit and close the database
if (recman != null) {
try {
recman.commit();
recman.close();
} catch (Exception ex) {
logger.warn("Unable to commit and close the database.");
}
}
// Set stop so the isDown method will return the correct value.
stop = true;
}
