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Edit File: SingularValueDecomposition.php

<?php
/**
 *    @package JAMA
 *
 *    For an m-by-n matrix A with m >= n, the singular value decomposition is
 *    an m-by-n orthogonal matrix U, an n-by-n diagonal matrix S, and
 *    an n-by-n orthogonal matrix V so that A = U*S*V'.
 *
 *    The singular values, sigma[$k] = S[$k][$k], are ordered so that
 *    sigma[0] >= sigma[1] >= ... >= sigma[n-1].
 *
 *    The singular value decompostion always exists, so the constructor will
 *    never fail.  The matrix condition number and the effective numerical
 *    rank can be computed from this decomposition.
 *
 *    @author  Paul Meagher
 *    @license PHP v3.0
 *    @version 1.1
 */
class SingularValueDecomposition
{
    /**
     *    Internal storage of U.
     *    @var array
     */
    private $U = array();

/**
     *    Internal storage of V.
     *    @var array
     */
    private $V = array();

/**
     *    Internal storage of singular values.
     *    @var array
     */
    private $s = array();

/**
     *    Row dimension.
     *    @var int
     */
    private $m;

/**
     *    Column dimension.
     *    @var int
     */
    private $n;

/**
     *    Construct the singular value decomposition
     *
     *    Derived from LINPACK code.
     *
     *    @param $A Rectangular matrix
     *    @return Structure to access U, S and V.
     */
    public function __construct($Arg)
    {
        // Initialize.
        $A = $Arg->getArrayCopy();
        $this->m = $Arg->getRowDimension();
        $this->n = $Arg->getColumnDimension();
        $nu      = min($this->m, $this->n);
        $e       = array();
        $work    = array();
        $wantu   = true;
        $wantv   = true;
        $nct = min($this->m - 1, $this->n);
        $nrt = max(0, min($this->n - 2, $this->m));

// Reduce A to bidiagonal form, storing the diagonal elements
        // in s and the super-diagonal elements in e.
        for ($k = 0; $k < max($nct, $nrt); ++$k) {
            if ($k < $nct) {
                // Compute the transformation for the k-th column and
                // place the k-th diagonal in s[$k].
                // Compute 2-norm of k-th column without under/overflow.
                $this->s[$k] = 0;
                for ($i = $k; $i < $this->m; ++$i) {
                    $this->s[$k] = hypo($this->s[$k], $A[$i][$k]);
                }
                if ($this->s[$k] != 0.0) {
                    if ($A[$k][$k] < 0.0) {
                        $this->s[$k] = -$this->s[$k];
                    }
                    for ($i = $k; $i < $this->m; ++$i) {
                        $A[$i][$k] /= $this->s[$k];
                    }
                    $A[$k][$k] += 1.0;
                }
                $this->s[$k] = -$this->s[$k];
            }

for ($j = $k + 1; $j < $this->n; ++$j) {
                if (($k < $nct) & ($this->s[$k] != 0.0)) {
                    // Apply the transformation.
                    $t = 0;
                    for ($i = $k; $i < $this->m; ++$i) {
                        $t += $A[$i][$k] * $A[$i][$j];
                    }
                    $t = -$t / $A[$k][$k];
                    for ($i = $k; $i < $this->m; ++$i) {
                        $A[$i][$j] += $t * $A[$i][$k];
                    }
                    // Place the k-th row of A into e for the
                    // subsequent calculation of the row transformation.
                    $e[$j] = $A[$k][$j];
                }
            }

if ($wantu and ($k < $nct)) {
                // Place the transformation in U for subsequent back
                // multiplication.
                for ($i = $k; $i < $this->m; ++$i) {
                    $this->U[$i][$k] = $A[$i][$k];
                }
            }

if ($k < $nrt) {
                // Compute the k-th row transformation and place the
                // k-th super-diagonal in e[$k].
                // Compute 2-norm without under/overflow.
                $e[$k] = 0;
                for ($i = $k + 1; $i < $this->n; ++$i) {
                    $e[$k] = hypo($e[$k], $e[$i]);
                }
                if ($e[$k] != 0.0) {
                    if ($e[$k+1] < 0.0) {
                        $e[$k] = -$e[$k];
                    }
                    for ($i = $k + 1; $i < $this->n; ++$i) {
                        $e[$i] /= $e[$k];
                    }
                    $e[$k+1] += 1.0;
                }
                $e[$k] = -$e[$k];
                if (($k+1 < $this->m) and ($e[$k] != 0.0)) {
                    // Apply the transformation.
                    for ($i = $k+1; $i < $this->m; ++$i) {
                        $work[$i] = 0.0;
                    }
                    for ($j = $k+1; $j < $this->n; ++$j) {
                        for ($i = $k+1; $i < $this->m; ++$i) {
                            $work[$i] += $e[$j] * $A[$i][$j];
                        }
                    }
                    for ($j = $k + 1; $j < $this->n; ++$j) {
                        $t = -$e[$j] / $e[$k+1];
                        for ($i = $k + 1; $i < $this->m; ++$i) {
                            $A[$i][$j] += $t * $work[$i];
                        }
                    }
                }
                if ($wantv) {
                    // Place the transformation in V for subsequent
                    // back multiplication.
                    for ($i = $k + 1; $i < $this->n; ++$i) {
                        $this->V[$i][$k] = $e[$i];
                    }
                }
            }
        }

// Set up the final bidiagonal matrix or order p.
        $p = min($this->n, $this->m + 1);
        if ($nct < $this->n) {
            $this->s[$nct] = $A[$nct][$nct];
        }
        if ($this->m < $p) {
            $this->s[$p-1] = 0.0;
        }
        if ($nrt + 1 < $p) {
            $e[$nrt] = $A[$nrt][$p-1];
        }
        $e[$p-1] = 0.0;
        // If required, generate U.
        if ($wantu) {
            for ($j = $nct; $j < $nu; ++$j) {
                for ($i = 0; $i < $this->m; ++$i) {
                    $this->U[$i][$j] = 0.0;
                }
                $this->U[$j][$j] = 1.0;
            }
            for ($k = $nct - 1; $k >= 0; --$k) {
                if ($this->s[$k] != 0.0) {
                    for ($j = $k + 1; $j < $nu; ++$j) {
                        $t = 0;
                        for ($i = $k; $i < $this->m; ++$i) {
                            $t += $this->U[$i][$k] * $this->U[$i][$j];
                        }
                        $t = -$t / $this->U[$k][$k];
                        for ($i = $k; $i < $this->m; ++$i) {
                            $this->U[$i][$j] += $t * $this->U[$i][$k];
                        }
                    }
                    for ($i = $k; $i < $this->m; ++$i) {
                        $this->U[$i][$k] = -$this->U[$i][$k];
                    }
                    $this->U[$k][$k] = 1.0 + $this->U[$k][$k];
                    for ($i = 0; $i < $k - 1; ++$i) {
                        $this->U[$i][$k] = 0.0;
                    }
                } else {
                    for ($i = 0; $i < $this->m; ++$i) {
                        $this->U[$i][$k] = 0.0;
                    }
                    $this->U[$k][$k] = 1.0;
                }
            }
        }

// If required, generate V.
        if ($wantv) {
            for ($k = $this->n - 1; $k >= 0; --$k) {
                if (($k < $nrt) and ($e[$k] != 0.0)) {
                    for ($j = $k + 1; $j < $nu; ++$j) {
                        $t = 0;
                        for ($i = $k + 1; $i < $this->n; ++$i) {
                            $t += $this->V[$i][$k]* $this->V[$i][$j];
                        }
                        $t = -$t / $this->V[$k+1][$k];
                        for ($i = $k + 1; $i < $this->n; ++$i) {
                            $this->V[$i][$j] += $t * $this->V[$i][$k];
                        }
                    }
                }
                for ($i = 0; $i < $this->n; ++$i) {
                    $this->V[$i][$k] = 0.0;
                }
                $this->V[$k][$k] = 1.0;
            }
        }

// Main iteration loop for the singular values.
        $pp   = $p - 1;
        $iter = 0;
        $eps  = pow(2.0, -52.0);

while ($p > 0) {
            // Here is where a test for too many iterations would go.
            // This section of the program inspects for negligible
            // elements in the s and e arrays.  On completion the
            // variables kase and k are set as follows:
            // kase = 1  if s(p) and e[k-1] are negligible and k<p
            // kase = 2  if s(k) is negligible and k<p
            // kase = 3  if e[k-1] is negligible, k<p, and
            //           s(k), ..., s(p) are not negligible (qr step).
            // kase = 4  if e(p-1) is negligible (convergence).
            for ($k = $p - 2; $k >= -1; --$k) {
                if ($k == -1) {
                    break;
                }
                if (abs($e[$k]) <= $eps * (abs($this->s[$k]) + abs($this->s[$k+1]))) {
                    $e[$k] = 0.0;
                    break;
                }
            }
            if ($k == $p - 2) {
                $kase = 4;
            } else {
                for ($ks = $p - 1; $ks >= $k; --$ks) {
                    if ($ks == $k) {
                        break;
                    }
                    $t = ($ks != $p ? abs($e[$ks]) : 0.) + ($ks != $k + 1 ? abs($e[$ks-1]) : 0.);
                    if (abs($this->s[$ks]) <= $eps * $t) {
                        $this->s[$ks] = 0.0;
                        break;
                    }
                }
                if ($ks == $k) {
                    $kase = 3;
                } elseif ($ks == $p-1) {
                    $kase = 1;
                } else {
                    $kase = 2;
                    $k = $ks;
                }
            }
            ++$k;

// Perform the task indicated by kase.
            switch ($kase) {
                // Deflate negligible s(p).
                case 1:
                    $f = $e[$p-2];
                    $e[$p-2] = 0.0;
                    for ($j = $p - 2; $j >= $k; --$j) {
                        $t  = hypo($this->s[$j], $f);
                        $cs = $this->s[$j] / $t;
                        $sn = $f / $t;
                        $this->s[$j] = $t;
                        if ($j != $k) {
                            $f = -$sn * $e[$j-1];
                            $e[$j-1] = $cs * $e[$j-1];
                        }
                        if ($wantv) {
                            for ($i = 0; $i < $this->n; ++$i) {
                                $t = $cs * $this->V[$i][$j] + $sn * $this->V[$i][$p-1];
                                $this->V[$i][$p-1] = -$sn * $this->V[$i][$j] + $cs * $this->V[$i][$p-1];
                                $this->V[$i][$j] = $t;
                            }
                        }
                    }
                    break;
                // Split at negligible s(k).
                case 2:
                    $f = $e[$k-1];
                    $e[$k-1] = 0.0;
                    for ($j = $k; $j < $p; ++$j) {
                        $t = hypo($this->s[$j], $f);
                        $cs = $this->s[$j] / $t;
                        $sn = $f / $t;
                        $this->s[$j] = $t;
                        $f = -$sn * $e[$j];
                        $e[$j] = $cs * $e[$j];
                        if ($wantu) {
                            for ($i = 0; $i < $this->m; ++$i) {
                                $t = $cs * $this->U[$i][$j] + $sn * $this->U[$i][$k-1];
                                $this->U[$i][$k-1] = -$sn * $this->U[$i][$j] + $cs * $this->U[$i][$k-1];
                                $this->U[$i][$j] = $t;
                            }
                        }
                    }
                    break;
                // Perform one qr step.
                case 3:
                    // Calculate the shift.
                    $scale = max(max(max(max(abs($this->s[$p-1]), abs($this->s[$p-2])), abs($e[$p-2])), abs($this->s[$k])), abs($e[$k]));
                    $sp   = $this->s[$p-1] / $scale;
                    $spm1 = $this->s[$p-2] / $scale;
                    $epm1 = $e[$p-2] / $scale;
                    $sk   = $this->s[$k] / $scale;
                    $ek   = $e[$k] / $scale;
                    $b    = (($spm1 + $sp) * ($spm1 - $sp) + $epm1 * $epm1) / 2.0;
                    $c    = ($sp * $epm1) * ($sp * $epm1);
                    $shift = 0.0;
                    if (($b != 0.0) || ($c != 0.0)) {
                        $shift = sqrt($b * $b + $c);
                        if ($b < 0.0) {
                            $shift = -$shift;
                        }
                        $shift = $c / ($b + $shift);
                    }
                    $f = ($sk + $sp) * ($sk - $sp) + $shift;
                    $g = $sk * $ek;
                    // Chase zeros.
                    for ($j = $k; $j < $p-1; ++$j) {
                        $t  = hypo($f, $g);
                        $cs = $f/$t;
                        $sn = $g/$t;
                        if ($j != $k) {
                            $e[$j-1] = $t;
                        }
                        $f = $cs * $this->s[$j] + $sn * $e[$j];
                        $e[$j] = $cs * $e[$j] - $sn * $this->s[$j];
                        $g = $sn * $this->s[$j+1];
                        $this->s[$j+1] = $cs * $this->s[$j+1];
                        if ($wantv) {
                            for ($i = 0; $i < $this->n; ++$i) {
                                $t = $cs * $this->V[$i][$j] + $sn * $this->V[$i][$j+1];
                                $this->V[$i][$j+1] = -$sn * $this->V[$i][$j] + $cs * $this->V[$i][$j+1];
                                $this->V[$i][$j] = $t;
                            }
                        }
                        $t = hypo($f, $g);
                        $cs = $f/$t;
                        $sn = $g/$t;
                        $this->s[$j] = $t;
                        $f = $cs * $e[$j] + $sn * $this->s[$j+1];
                        $this->s[$j+1] = -$sn * $e[$j] + $cs * $this->s[$j+1];
                        $g = $sn * $e[$j+1];
                        $e[$j+1] = $cs * $e[$j+1];
                        if ($wantu && ($j < $this->m - 1)) {
                            for ($i = 0; $i < $this->m; ++$i) {
                                $t = $cs * $this->U[$i][$j] + $sn * $this->U[$i][$j+1];
                                $this->U[$i][$j+1] = -$sn * $this->U[$i][$j] + $cs * $this->U[$i][$j+1];
                                $this->U[$i][$j] = $t;
                            }
                        }
                    }
                    $e[$p-2] = $f;
                    $iter = $iter + 1;
                    break;
                // Convergence.
                case 4:
                    // Make the singular values positive.
                    if ($this->s[$k] <= 0.0) {
                        $this->s[$k] = ($this->s[$k] < 0.0 ? -$this->s[$k] : 0.0);
                        if ($wantv) {
                            for ($i = 0; $i <= $pp; ++$i) {
                                $this->V[$i][$k] = -$this->V[$i][$k];
                            }
                        }
                    }
                    // Order the singular values.
                    while ($k < $pp) {
                        if ($this->s[$k] >= $this->s[$k+1]) {
                            break;
                        }
                        $t = $this->s[$k];
                        $this->s[$k] = $this->s[$k+1];
                        $this->s[$k+1] = $t;
                        if ($wantv and ($k < $this->n - 1)) {
                            for ($i = 0; $i < $this->n; ++$i) {
                                $t = $this->V[$i][$k+1];
                                $this->V[$i][$k+1] = $this->V[$i][$k];
                                $this->V[$i][$k] = $t;
                            }
                        }
                        if ($wantu and ($k < $this->m-1)) {
                            for ($i = 0; $i < $this->m; ++$i) {
                                $t = $this->U[$i][$k+1];
                                $this->U[$i][$k+1] = $this->U[$i][$k];
                                $this->U[$i][$k] = $t;
                            }
                        }
                        ++$k;
                    }
                    $iter = 0;
                    --$p;
                    break;
            } // end switch
        } // end while

} // end constructor

/**
     *    Return the left singular vectors
     *
     *    @access public
     *    @return U
     */
    public function getU()
    {
        return new Matrix($this->U, $this->m, min($this->m + 1, $this->n));
    }

/**
     *    Return the right singular vectors
     *
     *    @access public
     *    @return V
     */
    public function getV()
    {
        return new Matrix($this->V);
    }

/**
     *    Return the one-dimensional array of singular values
     *
     *    @access public
     *    @return diagonal of S.
     */
    public function getSingularValues()
    {
        return $this->s;
    }

/**
     *    Return the diagonal matrix of singular values
     *
     *    @access public
     *    @return S
     */
    public function getS()
    {
        for ($i = 0; $i < $this->n; ++$i) {
            for ($j = 0; $j < $this->n; ++$j) {
                $S[$i][$j] = 0.0;
            }
            $S[$i][$i] = $this->s[$i];
        }
        return new Matrix($S);
    }

/**
     *    Two norm
     *
     *    @access public
     *    @return max(S)
     */
    public function norm2()
    {
        return $this->s[0];
    }

/**
     *    Two norm condition number
     *
     *    @access public
     *    @return max(S)/min(S)
     */
    public function cond()
    {
        return $this->s[0] / $this->s[min($this->m, $this->n) - 1];
    }

/**
     *    Effective numerical matrix rank
     *
     *    @access public
     *    @return Number of nonnegligible singular values.
     */
    public function rank()
    {
        $eps = pow(2.0, -52.0);
        $tol = max($this->m, $this->n) * $this->s[0] * $eps;
        $r = 0;
        for ($i = 0; $i < count($this->s); ++$i) {
            if ($this->s[$i] > $tol) {
                ++$r;
            }
        }
        return $r;
    }
}