Exemple #1
0
 /**
  * Applies the shifts {@code u} to the trace {@code g}.
  *
  * @param sf the sampling that {@code g} is being warped to.
  * @param u the shifts to apply to {@code g}.
  * @param sg the sampling of {@code g}.
  * @param g the trace to be warped.
  * @return the warped image.
  */
 public static float[][][] applyShifts(
     Sampling sf, final float[][][] u, Sampling sg, final float[][][] g) {
   final int n1 = u[0][0].length;
   final int n2 = u[0].length;
   final int n3 = u.length;
   final int ng = g[0][0].length;
   final double dg = sg.getDelta();
   final double df = sf.getDelta();
   final double fg = sg.getDelta();
   final double ff = sf.getDelta();
   final float[][][] hf = new float[n3][n2][n1];
   final SincInterp si = new SincInterp();
   int n23 = n3 * n2;
   Parallel.loop(
       n23,
       new Parallel.LoopInt() {
         public void compute(int i23) {
           int i2 = i23 % n2;
           int i3 = i23 / n2;
           double v = ff;
           for (int i1 = 0; i1 < n1; i1++, v = ff + i1 * df) {
             hf[i3][i2][i1] = si.interpolate(ng, dg, fg, g[i3][i2], (float) v + u[i3][i2][i1]);
           }
         }
       });
   return hf;
 }
Exemple #2
0
  /**
   * Gets mappings computed from specified slopes and planarities.
   *
   * @param s1 sampling of 1st dimension.
   * @param s2 sampling of 2nd dimension.
   * @param p2 array of slopes of image features.
   * @param ep array of planarities of image features.
   */
  public Mappings getMappingsFromSlopes(
      Sampling s1, Sampling s2, Sampling s3, float[][][] p2, float[][][] p3, float[][][] ep) {
    // Sampling parameters.
    final int n1 = s1.getCount();
    final int n2 = s2.getCount();
    final int n3 = s3.getCount();
    float d1 = (float) s1.getDelta();
    float d2 = (float) s2.getDelta();
    float d3 = (float) s3.getDelta();
    float f1 = (float) s1.getFirst();

    // If necessary, convert units for slopes to samples per sample.
    if (d1 != d2) p2 = mul(d2 / d1, p2);
    if (d1 != d3) p3 = mul(d3 / d1, p3);

    // Compute shifts r(x1,x2,x3), in samples.
    float[][][] b = new float[n3][n2][n1]; // right-hand side
    float[][][] r = new float[n3][n2][n1]; // shifts, in samples
    VecArrayFloat3 vb = new VecArrayFloat3(b);
    VecArrayFloat3 vr = new VecArrayFloat3(r);
    Smoother3 smoother3 = new Smoother3(n1, n2, n3, _sigma1, _sigma2, _sigma3, ep);
    A3 a3 = new A3(smoother3, _weight1, ep, p2, p3);
    CgSolver cs = new CgSolver(_small, _niter);
    makeRhs(ep, p2, p3, b);
    smoother3.applyTranspose(b);
    cs.solve(a3, vb, vr);
    smoother3.apply(r);
    cleanShifts(r);

    // Compute u1(x1,x2,x3).
    final float[][][] u1 = r;
    for (int i3 = 0; i3 < n3; ++i3) {
      for (int i2 = 0; i2 < n2; ++i2) {
        for (int i1 = 0; i1 < n1; ++i1) {
          float x1i = f1 + i1 * d1;
          u1[i3][i2][i1] = x1i + r[i3][i2][i1] * d1;
        }
      }
    }

    // Compute x1(u1,u2).
    final float[][][] x1 = b;
    final InverseInterpolator ii = new InverseInterpolator(s1, s1);
    Parallel.loop(
        n3,
        new Parallel.LoopInt() {
          public void compute(int i3) {
            for (int i2 = 0; i2 < n2; ++i2) ii.invert(u1[i3][i2], x1[i3][i2]);
          }
        });

    return new Mappings(s1, s2, s3, u1, x1);
  }
Exemple #3
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 /**
  * Applies the shifts {@code u} to the trace {@code g}.
  *
  * @param sf the sampling that {@code g} is being warped to.
  * @param u the shifts to apply to {@code g}.
  * @param sg the sampling of {@code g}.
  * @param g the trace to be warped.
  * @return the warped trace.
  */
 public static float[] applyShifts(Sampling sf, final float[] u, Sampling sg, final float[] g) {
   final int n1 = u.length;
   final int ng = g.length;
   final double dg = sg.getDelta();
   final double df = sf.getDelta();
   final double fg = sg.getDelta();
   final double ff = sf.getDelta();
   final float[] hf = new float[n1];
   final SincInterp si = new SincInterp();
   double v = ff;
   for (int i1 = 0; i1 < n1; i1++, v = ff + i1 * df)
     hf[i1] = si.interpolate(ng, dg, fg, g, (float) v + u[i1]);
   return hf;
 }
Exemple #4
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 /**
  * Computes an array of VpVs ratios an array of shifts u using a backward difference
  * approximation. The relationship is defined as vpvs(t) = 1+2*(du/dt)
  *
  * @param u
  * @return computed vpvs values.
  */
 public static float[] vpvsBd(Sampling su, float[] u) {
   float dui = 1.0f / (float) su.getDelta();
   int n = u.length;
   float[] vpvs = new float[n];
   vpvs[0] = 1.0f + 2.0f * (u[1] - u[0]) * dui; // at i1=0, forward difference
   for (int i1 = 1; i1 < n; ++i1) vpvs[i1] = 1.0f + 2.0f * (u[i1] - u[i1 - 1]) * dui;
   return vpvs;
 }
Exemple #5
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 private static float[] getValues(Sampling s) {
   int n = s.getCount();
   double f = s.getFirst();
   double d = s.getDelta();
   float[] x = new float[n];
   for (int i = 0; i < n; i++) x[i] = (float) (f + i * d);
   return x;
 }
Exemple #6
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 public static double[] getSubStrainMax(Sampling su, float[] u, double[] rmax) {
   float dui = 1.0f / (float) su.getDelta();
   int n = u.length;
   int nm1 = n - 1;
   double[] rmaxNew = new double[n];
   rmaxNew[0] = rmax[0] - (u[1] - u[0]) * dui; // forward diff
   rmaxNew[nm1] = rmax[nm1] - (u[nm1] - u[nm1 - 1]) * dui; // backward diff
   for (int i1 = 1; i1 < nm1; i1++) rmaxNew[i1] = rmax[i1] - (u[i1 + 1] - u[i1 - 1]) * 0.5 * dui;
   return rmaxNew;
 }
Exemple #7
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 private static float[] firstDerivative(Sampling s, float[] f) {
   int n = f.length;
   int nm1 = n - 1;
   float[] g = new float[n];
   float di = 1.0f / (float) s.getDelta();
   float di2 = 0.5f * di;
   g[0] = (f[1] - f[0]) * di; // forward diff
   g[nm1] = (f[nm1] - f[nm1 - 1]) * di; // backward diff
   for (int i1 = 1; i1 < nm1; i1++) g[i1] = (f[i1 + 1] - f[i1 - 1]) * di2;
   return g;
 }
Exemple #8
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 /**
  * Gets the flattening shifts s(u1,u2,u3) = u1 - x1(u1,u2,u3).
  *
  * @return the flattening shifts.
  */
 public float[][][] getShiftsS() {
   int n1 = s1.getCount();
   int n2 = s2.getCount();
   int n3 = s3.getCount();
   float[][][] s = new float[n3][n2][n1];
   float d1 = (float) s1.getDelta();
   float f1 = (float) s1.getFirst();
   for (int i3 = 0; i3 < n3; ++i3) {
     for (int i2 = 0; i2 < n2; ++i2) {
       for (int i1 = 0; i1 < n1; ++i1) {
         float u1i = f1 + i1 * d1;
         s[i3][i2][i1] = u1i - x1[i3][i2][i1];
       }
     }
   }
   return s;
 }
Exemple #9
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 private float[][][] apply(final float[][][] ux, final float[][][] f) {
   final int n1 = s1.getCount();
   final int n2 = s2.getCount();
   final int n3 = s3.getCount();
   final double d1 = s1.getDelta();
   final double f1 = s1.getFirst();
   final SincInterpolator si = new SincInterpolator();
   final float[][][] g = new float[n3][n2][n1];
   Parallel.loop(
       n3,
       new Parallel.LoopInt() {
         public void compute(int i3) {
           for (int i2 = 0; i2 < n2; ++i2)
             si.interpolate(n1, d1, f1, f[i3][i2], n1, ux[i3][i2], g[i3][i2]);
         }
       });
   return g;
 }
Exemple #10
0
  public float[][][][] flattenWithShifts(
      final Sampling s1, final float[][][] r, final float[][][] f) {
    cleanShifts(r);
    final int n3 = r.length;
    final int n2 = r[0].length;
    final int n1 = r[0][0].length;
    // Compute u1(x1,x2,x3).
    final double f1 = s1.getFirst();
    final double d1 = s1.getDelta();
    final float[][][] u1 = r;
    for (int i3 = 0; i3 < n3; ++i3) {
      for (int i2 = 0; i2 < n2; ++i2) {
        for (int i1 = 0; i1 < n1; ++i1) {
          float x1i = (float) (f1 + i1 * d1);
          u1[i3][i2][i1] = (float) (x1i + r[i3][i2][i1] * d1);
        }
      }
    }

    // Compute x1(u1,u2).
    final float[][][] x1 = new float[n3][n2][n1];
    final InverseInterpolator ii = new InverseInterpolator(s1, s1);
    Parallel.loop(
        n3,
        new Parallel.LoopInt() {
          public void compute(int i3) {
            for (int i2 = 0; i2 < n2; ++i2) ii.invert(u1[i3][i2], x1[i3][i2]);
          }
        });

    final SincInterpolator si = new SincInterpolator();
    final float[][][] g = new float[n3][n2][n1];
    Parallel.loop(
        n3,
        new Parallel.LoopInt() {
          public void compute(int i3) {
            for (int i2 = 0; i2 < n2; ++i2)
              si.interpolate(n1, d1, f1, f[i3][i2], n1, x1[i3][i2], g[i3][i2]);
          }
        });
    return new float[][][][] {g, u1};
  }