Example usage for java.util Arrays fill

Introduction

In this page you can find the example usage for java.util Arrays fill.

Prototype

public static void fill(Object[] a, Object val)

Source Link

Document

Assigns the specified Object reference to each element of the specified array of Objects.

Usage

From source file:de.tuberlin.uebb.jdae.solvers.OptimalitySolver.java

public double[] solve(int maxEval, MultivariateVectorFunction residual, MultivariateMatrixFunction jacobian,
        double[] startValue) {
    final double[] zeros = startValue.clone();
    final double[] ones = startValue.clone();
    Arrays.fill(zeros, 0.0);
    Arrays.fill(ones, 1.0);//from   w  w  w  . j  av  a 2s.  c  om

    return optim.optimize(new MaxEval(maxEval), new InitialGuess(startValue), new Target(zeros),
            new Weight(ones), new ModelFunction(residual), new ModelFunctionJacobian(jacobian)).getPoint();
}

From source file:com.milaboratory.core.io.sequence.fasta.FastaReaderTest.java

private static TestItem createTestData(long seed, int readsCount, boolean withWildcards) throws IOException {
    Well1024a rnd = new Well1024a(seed);

    File tempFile = File.createTempFile("temp" + seed, ".fasta");
    tempFile.deleteOnExit();//  w  ww. j  a v  a  2  s  .c  o m
    FileOutputStream output = new FileOutputStream(tempFile);

    SingleRead[] reads = new SingleRead[readsCount];

    WildcardSymbol[] wildcards = NucleotideSequence.ALPHABET.getAllWildcards().toArray(new WildcardSymbol[0]);
    long id = 0;
    for (int i = 0; i < readsCount; ++i) {
        char[] seq = new char[50 + rnd.nextInt(100)];
        char[] seqExp = new char[seq.length];

        int qPointer = 0;
        byte[] qualityData = new byte[seq.length];
        Arrays.fill(qualityData, SequenceQuality.GOOD_QUALITY_VALUE);
        for (int j = 0; j < seq.length; ++j) {
            seq[j] = seqExp[j] = NucleotideSequence.ALPHABET.symbolFromCode((byte) rnd.nextInt(4));
            if (j != 0 && j != seq.length - 1 && ((4 * j) % seq.length == 0) && rnd.nextBoolean()) {
                //next line for sequence
                seq[j] = seqExp[j] = '\n';
                --qPointer;
            } else if (withWildcards && j % 5 == 0) {//wildcard
                WildcardSymbol wildcard = wildcards[rnd.nextInt(wildcards.length)];
                if (NucleotideSequence.ALPHABET.codeFromSymbol(wildcard.getSymbol()) == -1) {
                    seq[j] = wildcard.getSymbol();
                    seqExp[j] = NucleotideSequence.ALPHABET
                            .symbolFromCode(wildcard.getUniformlyDistributedSymbol(id ^ (j + qPointer)));//as used in FastaReader#getSequenceWithQuality(..)
                    qualityData[j + qPointer] = SequenceQuality.BAD_QUALITY_VALUE;
                }
            }
        }
        String description = ">seq" + i;
        String sequenceString = new String(seq);
        output.write(description.getBytes());
        output.write('\n');
        output.write(sequenceString.getBytes());
        output.write('\n');

        reads[i] = new SingleReadImpl(id,
                new NSequenceWithQuality(new NucleotideSequence(new String(seqExp).replace("\n", "")),
                        new SequenceQuality(Arrays.copyOfRange(qualityData, 0, seq.length + qPointer))),
                description.substring(1));
        ++id;
    }
    output.close();

    return new TestItem(tempFile, reads);
}

From source file:com.blockwithme.hacktors.Chunk.java

/** Creates an empty Chunk. */
public Chunk() {
    Arrays.fill(blocks, Block.EMPTY);
    Arrays.fill(items, Item.EMPTY);
}

From source file:com.gc.iotools.stream.os.TeeOutputStream.java

/**
 * <p>/*from  w  ww  .  j a  va2 s  . c om*/
 * Creates a <code>TeeOutputStream</code> and saves its arguments, the
 * <code>destinations</code> for later use.
 * </p>
 * <p>
 * This constructor allow to specify multiple <code>OutputStream</code> to
 * which the data will be copied.
 * </p>
 * 
 * @since 1.2.4
 * @param destinations
 *            Data written to this <code>OutputStream</code> are copied to
 *            all the <code>destinations</code>.
 */
public TeeOutputStream(final OutputStream... destinations) {
    checkDestinations(destinations);
    this.writeTime = new long[destinations.length];
    this.destinations = destinations;
    this.copyEnabled = new boolean[destinations.length];
    Arrays.fill(this.copyEnabled, true);
}

From source file:io.stallion.dataAccess.BeanListHandler.java

private String[] makeColumnToProperty(ResultSetMetaData rsmd, List<String> propertyNames) throws SQLException {
    int cols = rsmd.getColumnCount();
    String[] columnToProperty = new String[cols + 1];
    Arrays.fill(columnToProperty, "");

    for (int col = 1; col <= cols; ++col) {
        String columnName = rsmd.getColumnLabel(col);
        if (null == columnName || 0 == columnName.length()) {
            columnName = rsmd.getColumnName(col);
        }/*from ww  w .  j  av a 2  s . c o  m*/

        for (int i = 0; i < propertyNames.size(); ++i) {
            String propertyName = propertyNames.get(i);
            if (propertyName.equalsIgnoreCase(columnName)) {
                columnToProperty[col] = propertyName;
                break;
            }
        }
    }
    return columnToProperty;
}

From source file:net.myrrix.common.collection.FastIDSet.java

public FastIDSet(int size) {
    Preconditions.checkArgument(size >= 0, "size must be at least 0");
    Preconditions.checkArgument(size < MAX_SIZE, "size must be less than %d", MAX_SIZE);
    int hashSize = RandomUtils.nextTwinPrime((int) (DEFAULT_LOAD_FACTOR * size) + 1);
    keys = new long[hashSize];
    Arrays.fill(keys, NULL);
}

From source file:com.lightboxtechnologies.spectrum.FsEntryUtilsTest.java

@Test
public void nextFsEntryKeyTestLast() {
    final byte[] expected = new byte[36];

    final byte[] key = new byte[36];
    Arrays.fill(key, (byte) 0xFF);

    assertArrayEquals(expected, nextFsEntryKey(key));
}

From source file:com.owncloud.android.lib.common.network.RedirectionPath.java

/**
 * Public constructor.//from www . ja va 2 s.  c  om
 *
 * @param status            Status code resulting of executing a request on the original URL.
 * @param maxRedirections   Maximum number of redirections that will be contained.
 * @throws IllegalArgumentException     If 'maxRedirections' is < 0
 */
public RedirectionPath(int status, int maxRedirections) {
    if (maxRedirections < 0) {
        throw new IllegalArgumentException("maxRedirections MUST BE zero or greater");
    }
    mStatuses = new int[maxRedirections + 1];
    Arrays.fill(mStatuses, -1);
    mStatuses[++mLastStatus] = status;
}

From source file:craterdog.security.MessageCryptex.java

@Override
public void encryptStream(SecretKey sharedKey, InputStream input, OutputStream output) throws IOException {
    logger.entry();//from   w  ww.  j a  v a2s. c o m
    CipherOutputStream cipherOutput = null;
    byte[] buffer = new byte[2048];
    try {
        logger.debug("Creating a special output stream to do the work...");
        cipherOutput = encryptionOutputStream(sharedKey, output);

        logger.debug("Reading from the input and writing to the encrypting output stream...");
        // Can't use IOUtils.copy(input, cipherOutput) here because need to purge buffer later...
        int bytesRead;
        while ((bytesRead = input.read(buffer)) != -1) {
            cipherOutput.write(buffer, 0, bytesRead);
        }
        cipherOutput.flush();
    } finally {
        logger.debug("Purging any plaintext hanging around in memory...");
        Arrays.fill(buffer, (byte) 0);

        if (cipherOutput != null)
            cipherOutput.close();
    }
    logger.exit();
}

From source file:juicebox.tools.utils.common.ArrayTools.java

public static float[] newValueInitializedFloatArray(int n, float val) {
    float[] array = new float[n];
    Arrays.fill(array, val);
    return array;
}