Java Code Examples for java.util.Collections#synchronizedSortedSet()

/**
 * java.util.Collections#synchronizedSortedSet(java.util.SortedSet)
 */
public void test_synchronizedSortedSetLjava_util_SortedSet() {
    try {
        // Regression for HARMONY-93
        Collections.synchronizedSortedSet(null);
        fail("Assert 0: synchronizedSortedSet(null) must throw NPE");
    } catch (NullPointerException e) {
        // expected
    }
}
 

private void start()
{
	this.handledMessages = Collections.synchronizedSortedSet(new TreeSet<String>());
	
	//START ConnectionCreator THREAD
	creator = new ConnectionCreator(this);
	creator.start();
	
	//START ConnectionAcceptor THREAD
	acceptor = new ConnectionAcceptor(this);
	acceptor.start();
}
 

public QoSRtpFlow(CodecDictionary dico) {
       this.dico = dico;
	missingSequenceNumber = Collections.synchronizedSortedSet(new TreeSet<Integer>());//use this encapsulation to automatically synchronized the treeset access
	receivedSequenceNumber = Collections.synchronizedSortedSet(new TreeSet<Integer>());
	unexpectedPackets = Collections.synchronizedSortedSet(new TreeSet<Integer>());
       deltaList = new LinkedList<Float>();
       packetSpacingList = new LinkedList<Float>();
       jitterList = new LinkedList<Float>();
       eModele = new EModele();
}
 

/**
 * Get the list of dates
 *
 * @param unique true for unique list
 * @return the list of dates
 */
protected List<String> makeDateList(boolean unique) {
  Key date = dateTimeKeys.get(0);
  Key time = dateTimeKeys.get(1);
  List<int[]> toCheck;
  if (date.type.equals(ROW)) {
    toCheck = headers.rowHeaders;
  } else {
    toCheck = headers.colHeaders;
  }
  List<String> fileDates = new ArrayList<>();
  for (int[] header : toCheck) {
    if (header[0] != IMISSD) {
      // convert to GEMPAK date/time
      int idate = header[date.loc + 1];
      int itime = header[time.loc + 1];
      // TODO: Add in the century
      String dateTime = GempakUtil.TI_CDTM(idate, itime);
      fileDates.add(dateTime);
    }
  }
  if (unique && !fileDates.isEmpty()) {
    SortedSet<String> uniqueTimes = Collections.synchronizedSortedSet(new TreeSet<>());
    uniqueTimes.addAll(fileDates);
    fileDates.clear();
    fileDates.addAll(uniqueTimes);
  }

  return fileDates;
}
 

protected SortedSet<String> getAnotherObject() {
    SortedSet<String> set = new TreeSet<String>();
    return Collections.synchronizedSortedSet(set);
}
 

protected SortedSet<String> getObject() {
    SortedSet<String> set = new TreeSet<String>();
    set.add("string");
    return Collections.synchronizedSortedSet(set);
}
 

public Stage(Step sequence) {
    this.sequence = sequence;
    this.references = sequence.isOrdered() ? Collections
            .synchronizedSortedSet(new TreeSet<IDeferredReference>()) : Collections
            .synchronizedList(new LinkedList<IDeferredReference>());
}
 

protected SortedSet<String> getObject() {
    SortedSet<String> set = new TreeSet<String>();
    set.add("string");
    return Collections.synchronizedSortedSet(set);
}
 

protected SortedSet<String> getObject() {
    SortedSet<String> set = new TreeSet<String>();
    set.add("string");
    return Collections.synchronizedSortedSet(set);
}
 

protected SortedSet<String> getAnotherObject() {
    SortedSet<String> set = new TreeSet<String>();
    return Collections.synchronizedSortedSet(set);
}
 

PojoWithObjectCollectionFields fill()
{
    LinkedList<String> ll = new LinkedList<String>();
    ll.add("zero");
    HashMap<String, Boolean> empty = newMap();

    TreeSet<String> ts = new TreeSet<String>();
    ts.add("two");

    EnumSet<Size> es = EnumSet.allOf(Size.class);

    emptySet = Collections.emptySet();
    emptyList = Collections.emptyList();
    singletonSet = Collections.singleton("three");
    singletonList = Collections.singletonList("four");
    setFromMap = Collections.newSetFromMap(empty);
    copiesList = Collections.nCopies(1, "five");

    unmodifiableCollection = Collections
            .unmodifiableCollection(Collections.emptyList()); // no
    // equals
    // impl
    unmodifiableSet = Collections.unmodifiableSet(Collections
            .emptySet());
    unmodifiableSortedSet = Collections.unmodifiableSortedSet(ts);
    unmodifiableList = Collections.unmodifiableList(ll);
    unmodifiableRandomAccessList = Collections
            .unmodifiableList(newList("six"));

    assertTrue(unmodifiableRandomAccessList.getClass().getName()
            .endsWith("RandomAccessList"));

    synchronizedCollection = Collections
            .synchronizedCollection(Collections.emptyList()); // no
    // equals
    // impl
    synchronizedSet = Collections.synchronizedSet(es);
    synchronizedSortedSet = Collections.synchronizedSortedSet(ts);
    synchronizedList = Collections.synchronizedList(ll);
    synchronizedRandomAccessList = Collections
            .synchronizedList(newList("seven"));

    assertTrue(synchronizedRandomAccessList.getClass().getName()
            .endsWith("RandomAccessList"));

    checkedCollection = Collections.checkedCollection(newList("eight"),
            String.class); // no equals impl
    checkedSet = Collections.checkedSet(es, Size.class);
    checkedSortedSet = Collections.checkedSortedSet(ts, String.class);
    checkedList = Collections.checkedList(ll, String.class);
    checkedRandomAccessList = Collections.checkedList(newList("nine"),
            String.class);

    assertTrue(checkedRandomAccessList.getClass().getName()
            .endsWith("RandomAccessList"));

    return this;
}
 

public void run() throws IOException, InterruptedException {
	new NativeLibraryLoader().load(".", NativeLibraryLoader.ABRA, false);
	CompareToReference2 c2r = new CompareToReference2();
	c2r.init8bit(reference);
	
	include = new BufferedWriter(new FileWriter(in, false));
	exclude = new BufferedWriter(new FileWriter(out, false));
	
	for (String chr : c2r.getChromosomes()) {
		includeRegions = Collections.synchronizedSortedSet(new TreeSet<Feature>(new RegionComparator()));
		excludeRegions = Collections.synchronizedSortedSet(new TreeSet<Feature>(new RegionComparator()));
		int i = 0;
		int chromosomeLength = c2r.getReferenceLength(chr);
		while (i < chromosomeLength - ReAligner.MAX_REGION_LENGTH) {
			int regionStart = i;
			int regionStop = i + ReAligner.MAX_REGION_LENGTH;
			int start = Math.max(regionStart - readLength, 0);
			int stop = Math.min(regionStop + readLength, chromosomeLength-1); 
			String regionBases = c2r.getSequence(chr, start+1, stop-start);
			Feature region = new Feature(chr, regionStart, regionStop);
			
			//TODO: Handle other ambiguous bases
			if (!regionBases.contains("N")) {
				threadManager.spawnThread(new EvalRunnable(threadManager, this, region, regionBases));
			} else {
				
				excludeRegions.add(region);
			}
			
			i += ReAligner.REGION_OVERLAP;
		}
		
		threadManager.waitForAllThreadsToComplete();
		
		//TODO: Because assembly regions are overlapped, there is overlap between final include/exclude output
		outputRegions(include, includeRegions);
		outputRegions(exclude, excludeRegions);
	}
	
	include.close();
	exclude.close();
	
	System.err.println("Done.");
}
 

protected SortedSet<String> getObject() {
    SortedSet<String> set = new TreeSet<String>();
    set.add("string");
    return Collections.synchronizedSortedSet(set);
}
 

/**
 * This will setup the set for the specified range. This will attempt to reuse precomputed and persisted sets if we are allowed to.
 * 
 * @param row
 * @throws IOException
 */
protected void setupRowBasedHdfsBackedSet(String row) throws IOException {
    // we are done if cancelled
    if (this.setControl.isCancelledQuery()) {
        return;
    }
    
    try {
        // for each of the ivarator cache dirs
        for (IvaratorCacheDir ivaratorCacheDir : ivaratorCacheDirs) {
            // get the row specific dir
            Path rowDir = getRowDir(new Path(ivaratorCacheDir.getPathURI()), row);
            
            FileSystem fs = ivaratorCacheDir.getFs();
            
            // if we are not allowing reuse of directories, then delete it
            if (!allowDirReuse && fs.exists(rowDir)) {
                fs.delete(rowDir, true);
            }
        }
        
        // ensure the control directory is created
        Path controlRowDir = getRowDir(this.controlDir, row);
        if (!this.controlFs.exists(controlRowDir)) {
            this.controlFs.mkdirs(controlRowDir);
            this.createdRowDir = true;
        } else {
            this.createdRowDir = false;
        }
        
        this.set = new HdfsBackedSortedSet<>(null, hdfsBackedSetBufferSize, ivaratorCacheDirs, row, maxOpenFiles, numRetries, persistOptions,
                        new FileKeySortedSet.Factory());
        this.threadSafeSet = Collections.synchronizedSortedSet(this.set);
        this.currentRow = row;
        this.setControl.takeOwnership(row, this);
        
        // if this set is not marked as complete (meaning completely filled AND persisted), then we cannot trust the contents and we need to recompute.
        if (!this.setControl.isCompleteAndPersisted(row)) {
            this.set.clear();
            this.keys = null;
        } else {
            this.keys = new CachingIterator<>(this.set.iterator());
        }
        
        // reset the keyValues counter as we have a new set here
        scannedKeys.set(0);
    } catch (IOException ioe) {
        throw new IllegalStateException("Unable to create Hdfs backed sorted set", ioe);
    }
}
 

public Collection getBackups() {
	Collection backups = selector.select(new SelectCondition(), null);
	SortedSet result = Collections.synchronizedSortedSet(new TreeSet(comp));
	result.addAll(backups);
	return result;
}
 

protected SortedSet<String> getAnotherObject() {
    SortedSet<String> set = new TreeSet<String>();
    return Collections.synchronizedSortedSet(set);
}
 

protected SortedSet<String> getAnotherObject() {
    SortedSet<String> set = new TreeSet<String>();
    return Collections.synchronizedSortedSet(set);
}
 

protected SortedSet<String> getObject() {
    SortedSet<String> set = new TreeSet<String>();
    set.add("string");
    return Collections.synchronizedSortedSet(set);
}
 

@Override
public Object create(final Object sourceCollection) {
    return Collections.synchronizedSortedSet((SortedSet<?>) sourceCollection);
}
 

/**
 *
 * @param clearFiltering the value of clearFiltering
 */
public void performFilteringPerSliders(boolean clearFiltering) {

    Vector<ETFractionInterface> filteredFractions;
    if (clearFiltering) {
        filteredFractions = sample.getUpbFractionsUnknown();
    } else {
        filteredFractions = SampleDateInterpretationsUtilities.filterActiveUPbFractions(//
                sample.getUpbFractionsUnknown(),//
                ((DateProbabilityDensityPanel) probabilityPanel).getChosenDateName(),//
                positivePctDiscordance_slider.getValue(), //
                negativePctDiscordance_slider.getValue(), //
                percentUncertainty_slider.getValue());
    }

    // oct 2016 collect filtered fractions (those that still count) so that report table can show filtered out
    SortedSet<String> filteredFractionIDs = Collections.synchronizedSortedSet(new TreeSet<>());
    for (int i = 0; i < filteredFractions.size(); i++) {
        filteredFractionIDs.add(filteredFractions.get(i).getFractionID());
    }
    //need to also include reference material as all filtered in for report table
    Vector<ETFractionInterface> filteredRefMats = sample.getUpbFractionsReferenceMaterial();
    for (int i = 0; i < filteredRefMats.size(); i++) {
        filteredFractionIDs.add(filteredRefMats.get(i).getFractionID());
    }

    sample.setFilteredFractionIDs(filteredFractionIDs);

    ((AliquotDetailsDisplayInterface) concordiaGraphPanel).//
            setFilteredFractions(filteredFractions);

    ((DateProbabilityDensityPanel) probabilityPanel).//
            setSelectedFractions(filteredFractions);

    try {
        dateTreeByAliquot.performLastUserSelectionOfSampleDate();
    } catch (Exception selectionError) {
    }

    ((DateProbabilityDensityPanel) probabilityPanel).prepareAndPaintPanel();
    concordiaGraphPanel.repaint();
}