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Move radial basis functions into utils/rbf_utils
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,10 @@ | ||
| #ifndef GMMREG_UTILS_MACROS_H_ | ||
| #define GMMREG_UTILS_MACROS_H_ | ||
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| namespace gmmreg { | ||
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| #define SQR(X) ((X) * (X)) | ||
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| } // namespace gmmreg | ||
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| #endif // GMMREG_UTILS_MACROS_H_ |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,114 @@ | ||
| #include "rbf_utils.h" | ||
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| #include "macros.h" | ||
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| namespace gmmreg { | ||
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| template <typename T> | ||
| void GaussianAffinityMatrix(const T* A, const T* B, int m, int n, int dim, | ||
| T scale, T* dist) { | ||
| scale = -2.0 * SQR(scale); | ||
| int k = 0; | ||
| #pragma omp for | ||
| for (int i = 0; i < m; ++i) { | ||
| for (int j = 0; j < n; ++j) { | ||
| T dist_ij = 0; | ||
| for (int d = 0; d < dim; ++d) { | ||
| dist_ij += SQR(A[i * dim + d] - B[j * dim + d]); | ||
| } | ||
| dist[k] = exp(dist_ij / scale); | ||
| ++k; | ||
| } | ||
| } | ||
| } | ||
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| // TODO: add one more version when the model is same as ctrl_pts | ||
| // reference: Landmark-based Image Analysis, Karl Rohr, p195 | ||
| template <typename T> | ||
| void ComputeTPSKernel(const vnl_matrix<T>& model, const vnl_matrix<T>& ctrl_pts, | ||
| vnl_matrix<T>& U, vnl_matrix<T>& K) { | ||
| int m = model.rows(); | ||
| int n = ctrl_pts.rows(); | ||
| int d = ctrl_pts.cols(); | ||
| // asssert(model.cols()==d==(2|3)); | ||
| K.set_size(n, n); | ||
| K.fill(0); | ||
| U.set_size(m, n); | ||
| U.fill(0); | ||
| T eps = 1e-006; | ||
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| #pragma omp for | ||
| for (int i = 0; i < m; ++i) { | ||
| for (int j = 0; j < n; ++j) { | ||
| vnl_vector<T> v_ij = model.get_row(i) - ctrl_pts.get_row(j); | ||
| if (d == 2) { | ||
| T r = v_ij.squared_magnitude(); | ||
| if (r > eps) { | ||
| U(i, j) = r * log(r) / 2; | ||
| } | ||
| } else if (d == 3) { | ||
| T r = v_ij.two_norm(); | ||
| U(i, j) = -r; | ||
| } | ||
| } | ||
| } | ||
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| #pragma omp for | ||
| for (int i = 0; i < n; ++i) { | ||
| for (int j = i + 1; j < n; ++j) { | ||
| vnl_vector<T> v_ij = ctrl_pts.get_row(i) - ctrl_pts.get_row(j); | ||
| if (d == 2) { | ||
| T r = v_ij.squared_magnitude(); | ||
| if (r > eps) { | ||
| K(i, j) = r * log(r) / 2; | ||
| } | ||
| } else if (d == 3) { | ||
| T r = v_ij.two_norm(); | ||
| K(i, j) = -r; | ||
| } | ||
| } | ||
| } | ||
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| #pragma omp for | ||
| for (int i = 0; i < n; ++i) { | ||
| for (int j = 0; j < i; ++j) { | ||
| K(i, j) = K(j, i); | ||
| } | ||
| } | ||
| } | ||
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| /* | ||
| Matlab code in cpd_G.m: | ||
| k=-2*beta^2; | ||
| [n, d]=size(x); [m, d]=size(y); | ||
| G=repmat(x,[1 1 m])-permute(repmat(y,[1 1 n]),[3 2 1]); | ||
| G=squeeze(sum(G.^2,2)); | ||
| G=G/k; | ||
| G=exp(G); | ||
| */ | ||
| template <typename T> | ||
| void ComputeGaussianKernel(const vnl_matrix<T>& model, | ||
| const vnl_matrix<T>& ctrl_pts, vnl_matrix<T>& G, | ||
| vnl_matrix<T>& K, T lambda) { | ||
| int m, n, d; | ||
| m = model.rows(); | ||
| n = ctrl_pts.rows(); | ||
| d = ctrl_pts.cols(); | ||
| // asssert(model.cols()==d); | ||
| // assert(lambda>0); | ||
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| G.set_size(m, n); | ||
| GaussianAffinityMatrix(model.data_block(), ctrl_pts.data_block(), m, n, d, | ||
| lambda, G.data_block()); | ||
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| if (model == ctrl_pts) { | ||
| K = G; | ||
| } else { | ||
| K.set_size(n, n); | ||
| GaussianAffinityMatrix(ctrl_pts.data_block(), ctrl_pts.data_block(), n, n, | ||
| d, lambda, K.data_block()); | ||
| } | ||
| } | ||
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| } // namespace gmmreg |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,25 @@ | ||
| #ifndef GMMREG_UTILS_RBF_UTILS_H_ | ||
| #define GMMREG_UTILS_RBF_UTILS_H_ | ||
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| #include <vnl/vnl_matrix.h> | ||
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| namespace gmmreg { | ||
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| template <typename T> | ||
| void GaussianAffinityMatrix(const T* A, const T* B, int m, int n, int dim, | ||
| T scale, T* dist); | ||
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| template <typename T> | ||
| void ComputeTPSKernel(const vnl_matrix<T>& model, const vnl_matrix<T>& ctrl_pts, | ||
| vnl_matrix<T>& U, vnl_matrix<T>& K); | ||
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| template <typename T> | ||
| void ComputeGaussianKernel(const vnl_matrix<T>& model, | ||
| const vnl_matrix<T>& ctrl_pts, vnl_matrix<T>& G, | ||
| vnl_matrix<T>& K, T beta); | ||
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| } // namespace gmmreg | ||
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| #include "rbf_utils.cc" | ||
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| #endif // GMMREG_UTILS_RBF_UTILS_H_ |