// ******************************************************************************
   //
   // Title:       Force Field X.
   // Description: Force Field X - Software for Molecular Biophysics.
   // Copyright:   Copyright (c) Michael J. Schnieders 2001-2026.
   //
   // This file is part of Force Field X.
   //
   // Force Field X is free software; you can redistribute it and/or modify it
  // under the terms of the GNU General Public License version 3 as published by
  // the Free Software Foundation.
  //
  // Force Field X is distributed in the hope that it will be useful, but WITHOUT
  // ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
  // FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
  // details.
  //
  // You should have received a copy of the GNU General Public License along with
  // Force Field X; if not, write to the Free Software Foundation, Inc., 59 Temple
  // Place, Suite 330, Boston, MA 02111-1307 USA
  //
  // Linking this library statically or dynamically with other modules is making a
  // combined work based on this library. Thus, the terms and conditions of the
  // GNU General Public License cover the whole combination.
  //
  // As a special exception, the copyright holders of this library give you
  // permission to link this library with independent modules to produce an
  // executable, regardless of the license terms of these independent modules, and
  // to copy and distribute the resulting executable under terms of your choice,
  // provided that you also meet, for each linked independent module, the terms
  // and conditions of the license of that module. An independent module is a
  // module which is not derived from or based on this library. If you modify this
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  // ******************************************************************************
  package ffx.numerics.fft;
  
  import java.util.Arrays;
  import java.util.Random;
  import java.util.Vector;
  import java.util.logging.Level;
  import java.util.logging.Logger;
  
  import static java.lang.Integer.max;
  import static java.lang.Math.fma;
  import static java.lang.System.arraycopy;
  import static org.apache.commons.math3.util.FastMath.PI;
  import static org.apache.commons.math3.util.FastMath.cos;
  import static org.apache.commons.math3.util.FastMath.sin;
  
  /**
   * Compute the FFT of complex, double precision data of arbitrary length n. This class uses a mixed
   * radix method and has special methods to handle factors [2, 3, 4, 5, 6, 7] and a general method for
   * larger prime factors.
   *
   * @author Michal J. Schnieders<br>
   * Derived from:
   * <br>
   * Bruce R. Miller (bruce.miller@nist.gov)
   * <br>
   * Contribution of the National Institute of Standards and Technology, not subject to copyright.
   * <br>
   * Derived from:
   * <br>
   * GSL (Gnu Scientific Library) FFT Code by Brian Gough (bjg@network-theory.co.uk)
   * @see <ul>
   * <li><a href="http://dx.doi.org/10.1016/0021-9991(83)90013-X" target="_blank"> Clive
   * Temperton. Self-sorting mixed-radix fast fourier transforms. Journal of Computational
   * Physics, 52(1):1-23, 1983. </a>
   * <li><a href="http://www.jstor.org/stable/2003354" target="_blank"> J. W. Cooley and J. W.
   * Tukey, Mathematics of Computation 19 (90), 297 (1965) </a>
   * <li><a href="http://en.wikipedia.org/wiki/Fast_Fourier_transform" target="_blank">FFT at Wikipedia </a>
   * </ul>
   * @since 1.0
   */
  public class Complex {
  
    private static final Logger logger = Logger.getLogger(Complex.class.getName());
    private static final int[] availableFactors = {7, 6, 5, 4, 3, 2};
    // private static final int[] availableFactors = {4, 3, 2};
    private static final int firstUnavailablePrime = 11;
    // private static final int firstUnavailablePrime = 5;
    /**
     * Number of complex numbers in the transform.
     */
    private final int n;
    /**
     * The number of FFTs to process (default = 1).
     */
    private final int nFFTs;
    /**
     * Offset to the imaginary part of the input
     * This is 1 for interleaved data.
     * For blocked data, a typical offset is n in 1-dimension (or nX*nY + n in 2D).
     */
    private final int externalIm;
    /**
    * Offset to the imaginary part of the input.
    * Internally this is 1 (for interleaved data) or n (for blocked data).
    * <p>
    * The internal imaginary offset cannot be larger than n due to use of a single scratch array of length 2n.
    */
   private final int im;
   /**
    * Internal increment for packing data (1 for blocked and 2 for interleaved data).
    */
   private final int ii;
   /**
    * Factorization of n.
    */
   private final int[] factors;
   /**
    * Packing of non-contiguous data.
    */
   private final double[] packedData;
   /**
    * Scratch space for the transform.
    */
   private final double[] scratch;
   /**
    * Constants for each pass.
    */
   private final MixedRadixFactor[] mixedRadixFactors;
   /**
    * Pass specific data for the transform with
    * references to the input and output data arrays.
    */
   private final PassData[] passData;
   /**
    * Use SIMD operators.
    */
   private boolean useSIMD;
   /**
    * The SIMD width to prefer. The default is the preferred width for the platform, but
    * can be set to less than this by the flag fft.width.
    */
   private int simdWidth;
   /**
    * Minimum SIMD loop length set to the preferred SIMD vector length.
    */
   private int minSIMDLoopLength;
 
   /**
    * Cache the last input dimension.
    */
   private static int lastN = -1;
   /**
    * Cache the last imaginary offset.
    */
   private static int lastIm = -1;
   /**
    * Cache the last nFFT size.
    */
   private static int lastNFFTs = -1;
   /**
    * Cache the last set of radix factors.
    */
   private static int[] factorsCache = null;
   /**
    * Cache the last set of radix factors. These classes are static and thread-safe.
    */
   private static MixedRadixFactor[] mixedRadixFactorsCache = null;
 
   /**
    * Construct a Complex instance for interleaved data of length n. Factorization of n is designed to use special
    * methods for small factors, and a general routine for large odd prime factors. Scratch memory is
    * created of length 2*n, which is reused each time a transform is computed.
    *
    * @param n Number of complex numbers (n .GT. 1).
    */
   public Complex(int n) {
     this(n, DataLayout1D.INTERLEAVED, 1);
   }
 
   /**
    * Construct a Complex instance for data of length n.
    * The offset to each imaginary part relative to the real part is given by im.
    * Factorization of n is designed to use special methods for small factors.
    * Scratch memory is created of length 2*n, which is reused each time a transform is computed.
    *
    * @param n          Number of complex numbers (n .GT. 1).
    * @param dataLayout Data layout (interleaved or blocked).
    * @param imOffset   Offset to the imaginary part of each complex number relative to its real part.
    */
   public Complex(int n, DataLayout1D dataLayout, int imOffset) {
     this(n, dataLayout, imOffset, 1);
   }
 
   /**
    * Construct a Complex instance for data of length n.
    * The offset to each imaginary part relative to the real part is given by im.
    * Factorization of n is designed to use special methods for small factors.
    * Scratch memory is created of length 2*n, which is reused each time a transform is computed.
    *
    * @param n          Number of complex numbers (n .GT. 1).
    * @param dataLayout Data layout (interleaved or blocked).
    * @param imOffset   Offset to the imaginary part of each complex number relative to its real part.
    * @param nFFTs      Number of FFTs to process (default = 1).
    */
   public Complex(int n, DataLayout1D dataLayout, int imOffset, int nFFTs) {
     assert (n > 1);
     this.n = n;
     this.nFFTs = nFFTs;
     this.externalIm = imOffset;
 
     /*
      * The internal imaginary offset is always 1 or n.
      *
      * If the external imaginary offset is greater than n,
      * the data will be packed into a contiguous array.
      */
     if (dataLayout == DataLayout1D.INTERLEAVED) {
       im = 1;
       ii = 2;
     } else {
       im = n * nFFTs;
       ii = 1;
     }
     packedData = new double[2 * n * nFFTs];
     scratch = new double[2 * n * nFFTs];
     passData = new PassData[2];
     passData[0] = new PassData(1, packedData, 0, scratch, 0);
     passData[1] = new PassData(1, packedData, 0, scratch, 0);
 
     // For a 3D transform with 64 threads, there will be 3 * 64 = 192 transforms created.
     // To conserve memory, the most recent set of twiddles and mixed radix factors are cached.
     // Successive transforms with the same dimension and imaginary offset will reuse the cached values.
     // Synchronize the creation of the twiddle factors.
     synchronized (Complex.class) {
       // The last set of factors, twiddles and mixed radix factors will be reused.
       if (this.n == lastN && this.im == lastIm && this.nFFTs == lastNFFTs) {
         factors = factorsCache;
         mixedRadixFactors = mixedRadixFactorsCache;
       } else {
         // The cache cannot be reused and will be updated.
         factors = factor(n);
         double[][][] twiddle = wavetable(n, factors);
         mixedRadixFactors = new MixedRadixFactor[factors.length];
         lastN = this.n;
         lastIm = this.im;
         lastNFFTs = this.nFFTs;
         factorsCache = factors;
         mixedRadixFactorsCache = mixedRadixFactors;
         // Allocate space for each pass and radix instances for each factor.
         int product = 1;
         for (int i = 0; i < factors.length; i++) {
           final int factor = factors[i];
           product *= factor;
           PassConstants passConstants = new PassConstants(n, im, nFFTs, factor, product, twiddle[i]);
           switch (factor) {
             case 2 -> mixedRadixFactors[i] = new MixedRadixFactor2(passConstants);
             case 3 -> mixedRadixFactors[i] = new MixedRadixFactor3(passConstants);
             case 4 -> mixedRadixFactors[i] = new MixedRadixFactor4(passConstants);
             case 5 -> mixedRadixFactors[i] = new MixedRadixFactor5(passConstants);
             case 6 -> mixedRadixFactors[i] = new MixedRadixFactor6(passConstants);
             case 7 -> mixedRadixFactors[i] = new MixedRadixFactor7(passConstants);
             default -> {
               if (dataLayout == DataLayout1D.BLOCKED) {
                 throw new IllegalArgumentException(
                     " Prime factors greater than 7 are only supported for interleaved data: " + factor);
               }
               mixedRadixFactors[i] = new MixedRadixFactorPrime(passConstants);
             }
           }
           // logger.info(" Mixed Radix Factor: " + mixedRadixFactors[i]);
         }
       }
 
       // Use SIMD by default.
       useSIMD = true;
       String simd = System.getProperty("fft.simd", Boolean.toString(useSIMD));
       try {
         useSIMD = Boolean.parseBoolean(simd);
       } catch (Exception e) {
         logger.info(" Invalid value for fft.simd: " + simd);
         useSIMD = false;
       }
 
       simdWidth = MixedRadixFactor.LENGTH;
       String width = System.getProperty("fft.simd.width", Integer.toString(simdWidth));
       try {
         simdWidth = Integer.parseInt(width);
         if (simdWidth < 2 || simdWidth > MixedRadixFactor.LENGTH || simdWidth % 2 != 0) {
           logger.info(" Invalid value for fft.simd.width: " + width);
           simdWidth = MixedRadixFactor.LENGTH;
         }
       } catch (Exception e) {
         logger.info(" Invalid value for fft.simd.width: " + width);
         simdWidth = MixedRadixFactor.LENGTH;
       }
 
       for (MixedRadixFactor mixedRadixFactor : mixedRadixFactors) {
         mixedRadixFactor.setSIMDWidth(simdWidth);
         // logger.info(" " + mixedRadixFactor);
       }
 
       // Minimum SIMD inner loop length.
       // For interleaved data, the default minimum SIMD loop length is 1 using AVX-128 (1 Real and 1 Imaginary per load).
       // For blocked data, the default minimum SIMD loop length is 2 using AVX-128 (2 Real or 2 Imaginary per load).
       // Setting this value higher than one reverts to scalar operations for short inner loop lengths.
       if (im == 1) {
         // Interleaved data.
         minSIMDLoopLength = MixedRadixFactor.LENGTH / 2;
       } else {
         // Blocked data.
         minSIMDLoopLength = MixedRadixFactor.LENGTH;
       }
       String loop = System.getProperty("fft.minLoop", Integer.toString(minSIMDLoopLength));
       try {
         minSIMDLoopLength = max(minSIMDLoopLength, Integer.parseInt(loop));
       } catch (Exception e) {
         logger.info(" Invalid value for fft.minLoop: " + loop);
         if (im == 1) {
           // Interleaved data.
           minSIMDLoopLength = MixedRadixFactor.LENGTH / 2;
         } else {
           // Blocked data.
           minSIMDLoopLength = MixedRadixFactor.LENGTH;
         }
       }
     }
   }
 
   /**
    * String representation of the Complex FFT.
    *
    * @return a String.
    */
   @Override
   public String toString() {
     StringBuilder sb = new StringBuilder(" Complex FFT: n = " + n + ", nFFTs = " + nFFTs + ", im = " + externalIm);
     sb.append("\n  Factors: ").append(Arrays.toString(factors));
     return sb.toString();
   }
 
   /**
    * Configure use of SIMD operators.
    *
    * @param useSIMD True to use SIMD operators.
    */
   public void setUseSIMD(boolean useSIMD) {
     this.useSIMD = useSIMD;
   }
 
   /**
    * Configure the minimum SIMD inner loop length.
    * For interleaved data, the default minimum SIMD loop length is 1 using AVX-128 (1 Real and 1 Imaginary per load).
    * For blocked data, the default minimum SIMD loop length is 1 using AVX-128 (2 Real or 2 Imaginary per load).
    * Setting this value higher than one reverts to scalar operations for short inner loop lengths.
    *
    * @param minSIMDLoopLength Minimum SIMD inner loop length.
    */
   public void setMinSIMDLoopLength(int minSIMDLoopLength) {
     if (im == 1 && minSIMDLoopLength < 1) {
       throw new IllegalArgumentException(" Minimum SIMD loop length for interleaved data is 1 or greater.");
     }
     if (im > 2 && minSIMDLoopLength < 2) {
       throw new IllegalArgumentException(" Minimum SIMD loop length for blocked data is 2 or greater.");
     }
     this.minSIMDLoopLength = minSIMDLoopLength;
   }
 
   /**
    * Check if a dimension is a preferred dimension.
    *
    * @param dim the dimension to check.
    * @return true if the dimension is a preferred dimension.
    */
   public static boolean preferredDimension(int dim) {
     if (dim < 2) {
       return false;
     }
 
     // Apply preferred factors.
     for (int factor : availableFactors) {
       while ((dim % factor) == 0) {
         dim /= factor;
       }
     }
     return dim <= 1;
   }
 
   /**
    * Getter for the field <code>factors</code>.
    *
    * @return an array of int.
    */
   public int[] getFactors() {
     return factors;
   }
 
   /**
    * Compute the Fast Fourier Transform of data leaving the result in data. The array data must
    * contain the data points in the following locations:
    *
    * <PRE>
    * Re(d[i]) = data[offset + stride*i]
    * Im(d[i]) = data[offset + stride*i + im]
    * </PRE>
    * <p>
    * where im is 1 for interleaved data or a constant set when the class was constructed.
    *
    * @param data   an array of double.
    * @param offset the offset to the beginning of the data.
    * @param stride the stride between data points.
    */
   public void fft(double[] data, int offset, int stride) {
     transformInternal(data, offset, stride, -1, 2 * n);
   }
 
   /**
    * Compute the Fast Fourier Transform of data leaving the result in data.
    * The array data must contain the data points in the following locations:
    *
    * <PRE>
    * Re(d[i]) = data[offset + stride*i] + k * nextFFT
    * Im(d[i]) = data[offset + stride*i + im] + k * nextFFT
    * </PRE>
    * <p>
    * where im is 1 for interleaved data or a constant set when the class was constructed.
    * The value of k is the FFT number (0 to nFFTs-1).
    * The value of nextFFT is the stride between FFT data sets. The nextFFT value is ignored if the number of FFTs is 1.
    *
    * @param data    an array of double.
    * @param offset  the offset to the beginning of the data.
    * @param stride  the stride between data points.
    * @param nextFFT the offset to the beginning of the next FFT when nFFTs > 1.
    */
   public void fft(double[] data, int offset, int stride, int nextFFT) {
     transformInternal(data, offset, stride, -1, nextFFT);
   }
 
   /**
    * Compute the (un-normalized) inverse FFT of data, leaving it in place. The frequency domain data
    * must be in wrap-around order, and be stored in the following locations:
    *
    * <PRE>
    * Re(D[i]) = data[offset + stride*i]
    * Im(D[i]) = data[offset + stride*i + im]
    * </PRE>
    *
    * @param data   an array of double.
    * @param offset the offset to the beginning of the data.
    * @param stride the stride between data points.
    */
   public void ifft(double[] data, int offset, int stride) {
     transformInternal(data, offset, stride, +1, 2 * n);
   }
 
   /**
    * Compute the (un-normalized) inverse FFT of data, leaving it in place. The frequency domain data
    * must be in wrap-around order, and be stored in the following locations:
    *
    * <PRE>
    * Re(d[i]) = data[offset + stride*i] + k * nextFFT
    * Im(d[i]) = data[offset + stride*i + im] + k * nextFFT
    * </PRE>
    * <p>
    * where im is 1 for interleaved data or a constant set when the class was constructed.
    * The value of k is the FFT number (0 to nFFTs-1).
    * The value of nextFFT is the stride between FFT data sets. The nextFFT value is ignored if the number of FFTs is 1.
    *
    * @param data    an array of double.
    * @param offset  the offset to the beginning of the data.
    * @param stride  the stride between data points.
    * @param nextFFT the offset to the beginning of the next FFT when nFFTs > 1.
    */
   public void ifft(double[] data, int offset, int stride, int nextFFT) {
     transformInternal(data, offset, stride, +1, nextFFT);
   }
 
   /**
    * Compute the normalized inverse FFT of data, leaving it in place. The frequency domain data must
    * be stored in the following locations:
    *
    * <PRE>
    * Re(d[i]) = data[offset + stride*i]
    * Im(d[i]) = data[offset + stride*i + im]
    * </PRE>
    * <p>
    * where im is 1 for interleaved data or a constant set when the class was constructed.
    *
    * @param data   an array of double.
    * @param offset the offset to the beginning of the data.
    * @param stride the stride between data points.
    */
   public void inverse(double[] data, int offset, int stride) {
     inverse(data, offset, stride, 2 * n);
   }
 
   /**
    * Compute the normalized inverse FFT of data, leaving it in place. The frequency domain data must
    * be stored in the following locations:
    *
    * <PRE>
    * Re(d[i]) = data[offset + stride*i] + k * nextFFT
    * Im(d[i]) = data[offset + stride*i + im] + k * nextFFT
    * </PRE>
    * <p>
    * where im is 1 for interleaved data or a constant set when the class was constructed.
    * The value of k is the FFT number (0 to nFFTs-1).
    * The value of nextFFT is the stride between FFT data sets. The nextFFT value is ignored if the number of FFTs is 1.
    *
    * @param data    an array of double.
    * @param offset  the offset to the beginning of the data.
    * @param stride  the stride between data points.
    * @param nextFFT the offset to the beginning of the next FFT when nFFTs > 1.
    */
   public void inverse(double[] data, int offset, int stride, int nextFFT) {
     ifft(data, offset, stride, nextFFT);
 
     // Normalize inverse FFT with 1/n.
     double norm = normalization();
     int index = 0;
     for (int f = 0; f < nFFTs; f++) {
       for (int i = 0; i < 2 * n; i++) {
         data[index++] *= norm;
       }
     }
   }
 
   /**
    * Compute the Fast Fourier Transform of data leaving the result in data.
    *
    * @param data    data an array of double.
    * @param offset  the offset to the beginning of the data.
    * @param stride  the stride between data points.
    * @param sign    the sign to apply (forward -1 and inverse 1).
    * @param nextFFT the offset to the beginning of the next FFT when nFFTs > 1.
    */
   private void transformInternal(
       final double[] data, final int offset, final int stride, final int sign, final int nextFFT) {
 
     // Even pass data.
     passData[0].sign = sign;
     passData[0].in = data;
     passData[0].inOffset = offset;
     passData[0].out = scratch;
     passData[0].outOffset = 0;
     // Odd pass data.
     passData[1].sign = sign;
     passData[1].in = scratch;
     passData[1].inOffset = 0;
     passData[1].out = data;
     passData[1].outOffset = offset;
 
     // Configure the pass data for the transform.
     boolean packed = false;
     if (stride > 2 || externalIm > n * nFFTs) {
       // System.out.println(" Packing data: " + n + " offset " + offset + " stride " + stride + " nextFFT " + nextFFT + " n * nFFTs " + (n * nFFTs) + " externalIm " + externalIm);
       // Pack non-contiguous (stride > 2) data into a contiguous array.
       packed = true;
       pack(data, offset, stride, nextFFT);
       // The even pass input data is in the packedData array with no offset.
       passData[0].in = packedData;
       passData[0].inOffset = 0;
       // The odd pass input data is in the scratch array with no offset.
       passData[1].out = packedData;
       passData[1].outOffset = 0;
     }
 
     // Perform the FFT by looping over the factors.
     final int nfactors = factors.length;
     for (int i = 0; i < nfactors; i++) {
       final int pass = i % 2;
       MixedRadixFactor mixedRadixFactor = mixedRadixFactors[i];
       boolean applySIMD = false;
       // If the useSIMD flag is true, evaluate this pass for optimal SIMD width.
       if (useSIMD) {
         // Check the requested SIMD species.
 
       }
 
       if (useSIMD && mixedRadixFactor.innerLoopLimit >= minSIMDLoopLength) {
         mixedRadixFactor.passSIMD(passData[pass]);
       } else {
         mixedRadixFactor.passScalar(passData[pass]);
       }
     }
 
     // If the number of factors is odd, the final result is in the scratch array.
     if (nfactors % 2 == 1) {
       // Copy the scratch array to the data array.
       if (stride <= 2 && (im == externalIm) && nextFFT == 2 * n) {
         arraycopy(scratch, 0, data, offset, 2 * n * nFFTs);
       } else {
         unpack(scratch, data, offset, stride, nextFFT);
       }
       // If the number of factors is even, the data may need to be unpacked.
     } else if (packed) {
       unpack(packedData, data, offset, stride, nextFFT);
     }
   }
 
   /**
    * Pack the data into a contiguous array.
    *
    * @param data    the data to pack.
    * @param offset  the offset to the first point data.
    * @param stride  the stride between data points.
    * @param nextFFT the stride between FFTs.
    */
   private void pack(double[] data, int offset, int stride, int nextFFT) {
     int i = 0;
     for (int f = 0; f < nFFTs; f++) {
       int inputOffset = offset + f * nextFFT;
       for (int index = inputOffset, k = 0; k < n; k++, i += ii, index += stride) {
         packedData[i] = data[index];
         packedData[i + im] = data[index + externalIm];
       }
     }
   }
 
   /**
    * Pack the data into a contiguous array.
    *
    * @param data    the location to unpack the data to.
    * @param offset  the offset to the first point data.
    * @param stride  the stride between data points.
    * @param nextFFT the stride between FFTs.
    */
   private void unpack(double[] source, double[] data, int offset, int stride, int nextFFT) {
     int i = 0;
     for (int f = 0; f < nFFTs; f++) {
       int outputOffset = offset + f * nextFFT;
       for (int index = outputOffset, k = 0; k < n; k++, i += ii, index += stride) {
         data[index] = source[i];
         data[index + externalIm] = source[i + im];
       }
     }
   }
 
   /**
    * Return the normalization factor. Multiply the elements of the back-transformed data to get the
    * normalized inverse.
    *
    * @return a double.
    */
   private double normalization() {
     return 1.0 / n;
   }
 
   /**
    * Factor the data length into preferred factors (those with special methods), falling back to odd
    * primes that the general routine must handle.
    *
    * @param n the length of the data.
    * @return integer factors
    */
   protected static int[] factor(int n) {
     if (n < 2) {
       return null;
     }
     Vector<Integer> v = new Vector<>();
     int nTest = n;
 
     // Use the preferred factors first
     for (int factor : availableFactors) {
       while ((nTest % factor) == 0) {
         nTest /= factor;
         v.add(factor);
       }
     }
 
     // Unavailable odd prime factors.
     int factor = firstUnavailablePrime;
     while (nTest > 1) {
       while ((nTest % factor) != 0) {
         factor += 2;
       }
       nTest /= factor;
       v.add(factor);
     }
     int product = 1;
     int nf = v.size();
     int[] ret = new int[nf];
     for (int i = 0; i < nf; i++) {
       ret[i] = v.get(i);
       product *= ret[i];
     }
 
     // Report a failed factorization.
     if (product != n) {
       StringBuilder sb = new StringBuilder(" FFT factorization failed for " + n + "\n");
       for (int i = 0; i < nf; i++) {
         sb.append(" ");
         sb.append(ret[i]);
       }
       sb.append("\n");
       sb.append(" Factor product = ");
       sb.append(product);
       sb.append("\n");
       logger.severe(sb.toString());
       System.exit(-1);
     } else {
       if (logger.isLoggable(Level.FINEST)) {
         StringBuilder sb = new StringBuilder(" FFT factorization for " + n + " = ");
         for (int i = 0; i < nf - 1; i++) {
           sb.append(ret[i]);
           sb.append(" * ");
         }
         sb.append(ret[nf - 1]);
         logger.finest(sb.toString());
       }
     }
     return ret;
   }
 
   /**
    * Compute twiddle factors. These are trigonometric constants that depend on the factoring of n.
    *
    * @param n       the length of the data.
    * @param factors the factors of n.
    * @return twiddle factors.
    */
   private static double[][][] wavetable(int n, int[] factors) {
     if (n < 2) {
       return null;
     }
 
     // System.out.println(" Computing twiddle factors for length :" + n);
     // System.out.println(" Number of factors: " + factors.length);
 
     final double TwoPI_N = -2.0 * PI / n;
     final double[][][] ret = new double[factors.length][][];
     int product = 1;
     for (int i = 0; i < factors.length; i++) {
       int factor = factors[i];
       int product_1 = product;
       product *= factor;
       // The number of twiddle factors for the current factor.
       int outLoopLimit = n / product;
       // For the general odd pass, we need to add 1.
       if (factor >= firstUnavailablePrime) {
         outLoopLimit += 1;
       }
       final int nTwiddle = factor - 1;
       // System.out.println("\n  Factor: " + factor);
       // System.out.println("   Product: " + product);
       ret[i] = new double[outLoopLimit][2 * nTwiddle];
 
       // System.out.printf("   Size: T(%d,%d)\n", outLoopLimit, nTwiddle);
       final double[][] twid = ret[i];
       for (int j = 0; j < factor - 1; j++) {
         twid[0][2 * j] = 1.0;
         twid[0][2 * j + 1] = 0.0;
         // System.out.printf("  T(%d,%d) = %10.6f %10.6f\n", 0, j, twid[0][2 * j], twid[0][2 * j + 1]);
       }
       for (int k = 1; k < outLoopLimit; k++) {
         int m = 0;
         for (int j = 0; j < nTwiddle; j++) {
           m += k * product_1;
           m %= n;
           final double theta = TwoPI_N * m;
           twid[k][2 * j] = cos(theta);
           twid[k][2 * j + 1] = sin(theta);
           // System.out.printf("  T(%d,%d) = %10.6f %10.6f\n", k, j, twid[k][2 * j], twid[k][2 * j + 1]);
         }
       }
     }
     return ret;
   }
 
   /**
    * Static DFT method used to test the FFT.
    *
    * @param in  input array.
    * @param out output array.
    */
   public static void dft(double[] in, double[] out) {
     int n = in.length / 2;
     for (int k = 0; k < n; k++) { // For each output element
       double sumReal = 0;
       double simImag = 0;
       for (int t = 0; t < n; t++) { // For each input element
         double angle = (2 * PI * t * k) / n;
         int re = 2 * t;
         int im = 2 * t + 1;
         sumReal = fma(in[re], cos(angle), sumReal);
         sumReal = fma(in[im], sin(angle), sumReal);
         simImag = fma(-in[re], sin(angle), simImag);
         simImag = fma(in[im], cos(angle), simImag);
       }
       int re = 2 * k;
       int im = 2 * k + 1;
       out[re] = sumReal;
       out[im] = simImag;
     }
   }
 
   /**
    * Static DFT method used to test the FFT.
    *
    * @param in  input array.
    * @param out output array.
    */
   public static void dftBlocked(double[] in, double[] out) {
     int n = in.length / 2;
     for (int k = 0; k < n; k++) { // For each output element
       double sumReal = 0;
       double simImag = 0;
       for (int t = 0; t < n; t++) { // For each input element
         double angle = (2 * PI * t * k) / n;
         int re = t;
         int im = t + n;
         sumReal = fma(in[re], cos(angle), sumReal);
         sumReal = fma(in[im], sin(angle), sumReal);
         simImag = fma(-in[re], sin(angle), simImag);
         simImag = fma(in[im], cos(angle), simImag);
       }
       int re = k;
       int im = k + n;
       out[re] = sumReal;
       out[im] = simImag;
     }
   }
 
   /**
    * Test the Complex FFT.
    *
    * @param args an array of {@link java.lang.String} objects.
    * @throws java.lang.Exception if any.
    * @since 1.0
    */
   public static void main(String[] args) throws Exception {
     int dimNotFinal = 128;
     int reps = 5;
     boolean blocked = false;
     try {
       dimNotFinal = Integer.parseInt(args[0]);
       if (dimNotFinal < 1) {
         dimNotFinal = 128;
       }
       reps = Integer.parseInt(args[1]);
       if (reps < 1) {
         reps = 5;
       }
       blocked = Boolean.parseBoolean(args[2]);
     } catch (Exception e) {
       //
     }
     final int dim = dimNotFinal;
     System.out.printf("Initializing a 1D array of length %d.\n"
         + "The best timing out of %d repetitions will be used.%n", dim, reps);
     DataLayout1D dataLayout1D = DataLayout1D.INTERLEAVED;
     int im = 1;
     if (blocked) {
       dataLayout1D = DataLayout1D.BLOCKED;
       im = dim;
     }
     Complex complex = new Complex(dim, dataLayout1D, im);
     final double[] data = new double[dim * 2];
     Random random = new Random(1);
     for (int i = 0; i < dim; i++) {
       data[2 * i] = random.nextDouble();
     }
     double toSeconds = 0.000000001;
     long seqTime = Long.MAX_VALUE;
     for (int i = 0; i < reps; i++) {
       System.out.printf("Iteration %d%n", i + 1);
       long time = System.nanoTime();
       complex.fft(data, 0, 2);
       complex.ifft(data, 0, 2);
       time = (System.nanoTime() - time);
       System.out.printf("Sequential: %12.9f%n", toSeconds * time);
       if (time < seqTime) {
         seqTime = time;
       }
     }
     System.out.printf("Best Sequential Time:  %12.9f%n", toSeconds * seqTime);
   }
 
 }