commons-math-legacy/src/main/java/org/apache/commons/math4/legacy/linear/RRQRDecomposition.java

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 * Licensed to the Apache Software Foundation (ASF) under one or more
 * contributor license agreements.  See the NOTICE file distributed with
 * this work for additional information regarding copyright ownership.
 * The ASF licenses this file to You under the Apache License, Version 2.0
 * (the "License"); you may not use this file except in compliance with
 * the License.  You may obtain a copy of the License at
 *
 *      http://www.apache.org/licenses/LICENSE-2.0
 *
 * Unless required by applicable law or agreed to in writing, software
 * distributed under the License is distributed on an "AS IS" BASIS,
 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 * See the License for the specific language governing permissions and
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package org.apache.commons.math4.legacy.linear;

import org.apache.commons.math4.core.jdkmath.JdkMath;


/**
 * Calculates the rank-revealing QR-decomposition of a matrix, with column pivoting.
 * <p>The rank-revealing QR-decomposition of a matrix A consists of three matrices Q,
 * R and P such that AP=QR.  Q is orthogonal (Q<sup>T</sup>Q = I), and R is upper triangular.
 * If A is m&times;n, Q is m&times;m and R is m&times;n and P is n&times;n.</p>
 * <p>QR decomposition with column pivoting produces a rank-revealing QR
 * decomposition and the {@link #getRank(double)} method may be used to return the rank of the
 * input matrix A.</p>
 * <p>This class compute the decomposition using Householder reflectors.</p>
 * <p>For efficiency purposes, the decomposition in packed form is transposed.
 * This allows inner loop to iterate inside rows, which is much more cache-efficient
 * in Java.</p>
 * <p>This class is based on the class with similar name from the
 * <a href="http://math.nist.gov/javanumerics/jama/">JAMA</a> library, with the
 * following changes:</p>
 * <ul>
 *   <li>a {@link #getQT() getQT} method has been added,</li>
 *   <li>the {@code solve} and {@code isFullRank} methods have been replaced
 *   by a {@link #getSolver() getSolver} method and the equivalent methods
 *   provided by the returned {@link DecompositionSolver}.</li>
 * </ul>
 *
 * @see <a href="http://mathworld.wolfram.com/QRDecomposition.html">MathWorld</a>
 * @see <a href="http://en.wikipedia.org/wiki/QR_decomposition">Wikipedia</a>
 *
 * @since 3.2
 */
public class RRQRDecomposition extends QRDecomposition {

    /** An array to record the column pivoting for later creation of P. */
    private int[] p;

    /** Cached value of P. */
    private RealMatrix cachedP;


    /**
     * Calculates the QR-decomposition of the given matrix.
     * The singularity threshold defaults to zero.
     *
     * @param matrix The matrix to decompose.
     *
     * @see #RRQRDecomposition(RealMatrix, double)
     */
    public RRQRDecomposition(RealMatrix matrix) {
        this(matrix, 0d);
    }

    /**
     * Calculates the QR-decomposition of the given matrix.
     *
     * @param matrix The matrix to decompose.
     * @param threshold Singularity threshold.
     * @see #RRQRDecomposition(RealMatrix)
     */
    public RRQRDecomposition(RealMatrix matrix,  double threshold) {
        super(matrix, threshold);
    }

    /** Decompose matrix.
     * @param qrt transposed matrix
     */
    @Override
    protected void decompose(double[][] qrt) {
        p = new int[qrt.length];
        for (int i = 0; i < p.length; i++) {
            p[i] = i;
        }
        super.decompose(qrt);
    }

    /** Perform Householder reflection for a minor A(minor, minor) of A.
     *
     * @param minor minor index
     * @param qrt transposed matrix
     */
    @Override
    protected void performHouseholderReflection(int minor, double[][] qrt) {
        double l2NormSquaredMax = 0;
        // Find the unreduced column with the greatest L2-Norm
        int l2NormSquaredMaxIndex = minor;
        for (int i = minor; i < qrt.length; i++) {
            double l2NormSquared = 0;
            for (int j = minor; j < qrt[i].length; j++) {
                l2NormSquared += qrt[i][j] * qrt[i][j];
            }
            if (l2NormSquared > l2NormSquaredMax) {
                l2NormSquaredMax = l2NormSquared;
                l2NormSquaredMaxIndex = i;
            }
        }
        // swap the current column with that with the greated L2-Norm and record in p
        if (l2NormSquaredMaxIndex != minor) {
            double[] tmp1 = qrt[minor];
            qrt[minor] = qrt[l2NormSquaredMaxIndex];
            qrt[l2NormSquaredMaxIndex] = tmp1;
            int tmp2 = p[minor];
            p[minor] = p[l2NormSquaredMaxIndex];
            p[l2NormSquaredMaxIndex] = tmp2;
        }

        super.performHouseholderReflection(minor, qrt);
    }


    /**
     * Returns the pivot matrix, P, used in the QR Decomposition of matrix A such that AP = QR.
     *
     * If no pivoting is used in this decomposition then P is equal to the identity matrix.
     *
     * @return a permutation matrix.
     */
    public RealMatrix getP() {
        if (cachedP == null) {
            int n = p.length;
            cachedP = MatrixUtils.createRealMatrix(n,n);
            for (int i = 0; i < n; i++) {
                cachedP.setEntry(p[i], i, 1);
            }
        }
        return cachedP ;
    }

    /**
     * Return the effective numerical matrix rank.
     * <p>The effective numerical rank is the number of non-negligible
     * singular values.</p>
     * <p>This implementation looks at Frobenius norms of the sequence of
     * bottom right submatrices.  When a large fall in norm is seen,
     * the rank is returned. The drop is computed as:</p>
     * <pre>
     *   (thisNorm/lastNorm) * rNorm &lt; dropThreshold
     * </pre>
     * <p>
     * where thisNorm is the Frobenius norm of the current submatrix,
     * lastNorm is the Frobenius norm of the previous submatrix,
     * rNorm is is the Frobenius norm of the complete matrix
     * </p>
     *
     * @param dropThreshold threshold triggering rank computation
     * @return effective numerical matrix rank
     */
    public int getRank(final double dropThreshold) {
        RealMatrix r    = getR();
        int rows        = r.getRowDimension();
        int columns     = r.getColumnDimension();
        int rank        = 1;
        double lastNorm = r.getFrobeniusNorm();
        double rNorm    = lastNorm;
        while (rank < JdkMath.min(rows, columns)) {
            double thisNorm = r.getSubMatrix(rank, rows - 1, rank, columns - 1).getFrobeniusNorm();
            if (thisNorm == 0 || (thisNorm / lastNorm) * rNorm < dropThreshold) {
                break;
            }
            lastNorm = thisNorm;
            rank++;
        }
        return rank;
    }

    /**
     * Get a solver for finding the A &times; X = B solution in least square sense.
     * <p>
     * Least Square sense means a solver can be computed for an overdetermined system,
     * (i.e. a system with more equations than unknowns, which corresponds to a tall A
     * matrix with more rows than columns). In any case, if the matrix is singular
     * within the tolerance set at {@link RRQRDecomposition#RRQRDecomposition(RealMatrix,
     * double) construction}, an error will be triggered when
     * the {@link DecompositionSolver#solve(RealVector) solve} method will be called.
     * </p>
     * @return a solver
     */
    @Override
    public DecompositionSolver getSolver() {
        return new Solver(super.getSolver(), this.getP());
    }

    /** Specialized solver. */
    private static final class Solver implements DecompositionSolver {

        /** Upper level solver. */
        private final DecompositionSolver upper;

        /** A permutation matrix for the pivots used in the QR decomposition. */
        private RealMatrix p;

        /**
         * Build a solver from decomposed matrix.
         *
         * @param upper upper level solver.
         * @param p permutation matrix
         */
        private Solver(final DecompositionSolver upper, final RealMatrix p) {
            this.upper = upper;
            this.p     = p;
        }

        /** {@inheritDoc} */
        @Override
        public boolean isNonSingular() {
            return upper.isNonSingular();
        }

        /** {@inheritDoc} */
        @Override
        public RealVector solve(RealVector b) {
            return p.operate(upper.solve(b));
        }

        /** {@inheritDoc} */
        @Override
        public RealMatrix solve(RealMatrix b) {
            return p.multiply(upper.solve(b));
        }

        /**
         * {@inheritDoc}
         * @throws SingularMatrixException if the decomposed matrix is singular.
         */
        @Override
        public RealMatrix getInverse() {
            return solve(MatrixUtils.createRealIdentityMatrix(p.getRowDimension()));
        }
    }
}