pykdtree-1.3.1/0000775017154600037200000000000013313136240014637 5ustar a001673smhiprimgrp00000000000000pykdtree-1.3.1/pykdtree/0000775017154600037200000000000013313136240016466 5ustar a001673smhiprimgrp00000000000000pykdtree-1.3.1/pykdtree/__init__.py0000664017154600037200000000000012104665372020577 0ustar a001673smhiprimgrp00000000000000pykdtree-1.3.1/pykdtree/_kdtree_core.c0000664017154600037200000013323613313135672021277 0ustar a001673smhiprimgrp00000000000000/* pykdtree, Fast kd-tree implementation with OpenMP-enabled queries Copyright (C) 2013 - present Esben S. Nielsen This program is free software: you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This program 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 Lesser General Public License for more details. You should have received a copy of the GNU Lesser General Public License along with this program. If not, see . */ /* This kd-tree implementation is based on the scipy.spatial.cKDTree by Anne M. Archibald and libANN by David M. Mount and Sunil Arya. */ #include #include #include #include #define PA(i,d) (pa[no_dims * pidx[i] + d]) #define PASWAP(a,b) { uint32_t tmp = pidx[a]; pidx[a] = pidx[b]; pidx[b] = tmp; } #ifdef _MSC_VER #define restrict __restrict #endif typedef struct { float cut_val; int8_t cut_dim; uint32_t start_idx; uint32_t n; float cut_bounds_lv; float cut_bounds_hv; struct Node_float *left_child; struct Node_float *right_child; } Node_float; typedef struct { float *bbox; int8_t no_dims; uint32_t *pidx; struct Node_float *root; } Tree_float; typedef struct { double cut_val; int8_t cut_dim; uint32_t start_idx; uint32_t n; double cut_bounds_lv; double cut_bounds_hv; struct Node_double *left_child; struct Node_double *right_child; } Node_double; typedef struct { double *bbox; int8_t no_dims; uint32_t *pidx; struct Node_double *root; } Tree_double; void insert_point_float(uint32_t *closest_idx, float *closest_dist, uint32_t pidx, float cur_dist, uint32_t k); void get_bounding_box_float(float *pa, uint32_t *pidx, int8_t no_dims, uint32_t n, float *bbox); int partition_float(float *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, float *bbox, int8_t *cut_dim, float *cut_val, uint32_t *n_lo); Tree_float* construct_tree_float(float *pa, int8_t no_dims, uint32_t n, uint32_t bsp); Node_float* construct_subtree_float(float *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, uint32_t bsp, float *bbox); Node_float * create_node_float(uint32_t start_idx, uint32_t n, int is_leaf); void delete_subtree_float(Node_float *root); void delete_tree_float(Tree_float *tree); void print_tree_float(Node_float *root, int level); float calc_dist_float(float *point1_coord, float *point2_coord, int8_t no_dims); float get_cube_offset_float(int8_t dim, float *point_coord, float *bbox); float get_min_dist_float(float *point_coord, int8_t no_dims, float *bbox); void search_leaf_float(float *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, float *restrict point_coord, uint32_t k, uint32_t *restrict closest_idx, float *restrict closest_dist); void search_leaf_float_mask(float *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, float *restrict point_coord, uint32_t k, uint8_t *restrict mask, uint32_t *restrict closest_idx, float *restrict closest_dist); void search_splitnode_float(Node_float *root, float *pa, uint32_t *pidx, int8_t no_dims, float *point_coord, float min_dist, uint32_t k, float distance_upper_bound, float eps_fac, uint8_t *mask, uint32_t * closest_idx, float *closest_dist); void search_tree_float(Tree_float *tree, float *pa, float *point_coords, uint32_t num_points, uint32_t k, float distance_upper_bound, float eps, uint8_t *mask, uint32_t *closest_idxs, float *closest_dists); void insert_point_double(uint32_t *closest_idx, double *closest_dist, uint32_t pidx, double cur_dist, uint32_t k); void get_bounding_box_double(double *pa, uint32_t *pidx, int8_t no_dims, uint32_t n, double *bbox); int partition_double(double *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, double *bbox, int8_t *cut_dim, double *cut_val, uint32_t *n_lo); Tree_double* construct_tree_double(double *pa, int8_t no_dims, uint32_t n, uint32_t bsp); Node_double* construct_subtree_double(double *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, uint32_t bsp, double *bbox); Node_double * create_node_double(uint32_t start_idx, uint32_t n, int is_leaf); void delete_subtree_double(Node_double *root); void delete_tree_double(Tree_double *tree); void print_tree_double(Node_double *root, int level); double calc_dist_double(double *point1_coord, double *point2_coord, int8_t no_dims); double get_cube_offset_double(int8_t dim, double *point_coord, double *bbox); double get_min_dist_double(double *point_coord, int8_t no_dims, double *bbox); void search_leaf_double(double *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, double *restrict point_coord, uint32_t k, uint32_t *restrict closest_idx, double *restrict closest_dist); void search_leaf_double_mask(double *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, double *restrict point_coord, uint32_t k, uint8_t *restrict mask, uint32_t *restrict closest_idx, double *restrict closest_dist); void search_splitnode_double(Node_double *root, double *pa, uint32_t *pidx, int8_t no_dims, double *point_coord, double min_dist, uint32_t k, double distance_upper_bound, double eps_fac, uint8_t *mask, uint32_t * closest_idx, double *closest_dist); void search_tree_double(Tree_double *tree, double *pa, double *point_coords, uint32_t num_points, uint32_t k, double distance_upper_bound, double eps, uint8_t *mask, uint32_t *closest_idxs, double *closest_dists); /************************************************ Insert point into priority queue Params: closest_idx : index queue closest_dist : distance queue pidx : permutation index of data points cur_dist : distance to point inserted k : number of neighbours ************************************************/ void insert_point_float(uint32_t *closest_idx, float *closest_dist, uint32_t pidx, float cur_dist, uint32_t k) { int i; for (i = k - 1; i > 0; i--) { if (closest_dist[i - 1] > cur_dist) { closest_dist[i] = closest_dist[i - 1]; closest_idx[i] = closest_idx[i - 1]; } else { break; } } closest_idx[i] = pidx; closest_dist[i] = cur_dist; } /************************************************ Get the bounding box of a set of points Params: pa : data points pidx : permutation index of data points no_dims: number of dimensions n : number of points bbox : bounding box (return) ************************************************/ void get_bounding_box_float(float *pa, uint32_t *pidx, int8_t no_dims, uint32_t n, float *bbox) { float cur; int8_t bbox_idx, i, j; uint32_t i2; /* Use first data point to initialize */ for (i = 0; i < no_dims; i++) { bbox[2 * i] = bbox[2 * i + 1] = PA(0, i); } /* Update using rest of data points */ for (i2 = 1; i2 < n; i2++) { for (j = 0; j < no_dims; j++) { bbox_idx = 2 * j; cur = PA(i2, j); if (cur < bbox[bbox_idx]) { bbox[bbox_idx] = cur; } else if (cur > bbox[bbox_idx + 1]) { bbox[bbox_idx + 1] = cur; } } } } /************************************************ Partition a range of data points by manipulation the permutation index. The sliding midpoint rule is used for the partitioning. Params: pa : data points pidx : permutation index of data points no_dims: number of dimensions start_idx : index of first data point to use n : number of data points bbox : bounding box of data points cut_dim : dimension used for partition (return) cut_val : value of cutting point (return) n_lo : number of point below cutting plane (return) ************************************************/ int partition_float(float *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, float *bbox, int8_t *cut_dim, float *cut_val, uint32_t *n_lo) { int8_t dim = 0, i; uint32_t p, q, i2; float size = 0, min_val, max_val, split, side_len, cur_val; uint32_t end_idx = start_idx + n - 1; /* Find largest bounding box side */ for (i = 0; i < no_dims; i++) { side_len = bbox[2 * i + 1] - bbox[2 * i]; if (side_len > size) { dim = i; size = side_len; } } min_val = bbox[2 * dim]; max_val = bbox[2 * dim + 1]; /* Check for zero length or inconsistent */ if (min_val >= max_val) return 1; /* Use middle for splitting */ split = (min_val + max_val) / 2; /* Partition all data points around middle */ p = start_idx; q = end_idx; while (p <= q) { if (PA(p, dim) < split) { p++; } else if (PA(q, dim) >= split) { /* Guard for underflow */ if (q > 0) { q--; } else { break; } } else { PASWAP(p, q); p++; q--; } } /* Check for empty splits */ if (p == start_idx) { /* No points less than split. Split at lowest point instead. Minimum 1 point will be in lower box. */ uint32_t j = start_idx; split = PA(j, dim); for (i2 = start_idx + 1; i2 <= end_idx; i2++) { /* Find lowest point */ cur_val = PA(i2, dim); if (cur_val < split) { j = i2; split = cur_val; } } PASWAP(j, start_idx); p = start_idx + 1; } else if (p == end_idx + 1) { /* No points greater than split. Split at highest point instead. Minimum 1 point will be in higher box. */ uint32_t j = end_idx; split = PA(j, dim); for (i2 = start_idx; i2 < end_idx; i2++) { /* Find highest point */ cur_val = PA(i2, dim); if (cur_val > split) { j = i2; split = cur_val; } } PASWAP(j, end_idx); p = end_idx; } /* Set return values */ *cut_dim = dim; *cut_val = split; *n_lo = p - start_idx; return 0; } /************************************************ Construct a sub tree over a range of data points. Params: pa : data points pidx : permutation index of data points no_dims: number of dimensions start_idx : index of first data point to use n : number of data points bsp : number of points per leaf bbox : bounding box of set of data points ************************************************/ Node_float* construct_subtree_float(float *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, uint32_t bsp, float *bbox) { /* Create new node */ int is_leaf = (n <= bsp); Node_float *root = create_node_float(start_idx, n, is_leaf); int rval; int8_t cut_dim; uint32_t n_lo; float cut_val, lv, hv; if (is_leaf) { /* Make leaf node */ root->cut_dim = -1; } else { /* Make split node */ /* Partition data set and set node info */ rval = partition_float(pa, pidx, no_dims, start_idx, n, bbox, &cut_dim, &cut_val, &n_lo); if (rval == 1) { root->cut_dim = -1; return root; } root->cut_val = cut_val; root->cut_dim = cut_dim; /* Recurse on both subsets */ lv = bbox[2 * cut_dim]; hv = bbox[2 * cut_dim + 1]; /* Set bounds for cut dimension */ root->cut_bounds_lv = lv; root->cut_bounds_hv = hv; /* Update bounding box before call to lower subset and restore after */ bbox[2 * cut_dim + 1] = cut_val; root->left_child = (struct Node_float *)construct_subtree_float(pa, pidx, no_dims, start_idx, n_lo, bsp, bbox); bbox[2 * cut_dim + 1] = hv; /* Update bounding box before call to higher subset and restore after */ bbox[2 * cut_dim] = cut_val; root->right_child = (struct Node_float *)construct_subtree_float(pa, pidx, no_dims, start_idx + n_lo, n - n_lo, bsp, bbox); bbox[2 * cut_dim] = lv; } return root; } /************************************************ Construct a tree over data points. Params: pa : data points no_dims: number of dimensions n : number of data points bsp : number of points per leaf ************************************************/ Tree_float* construct_tree_float(float *pa, int8_t no_dims, uint32_t n, uint32_t bsp) { Tree_float *tree = (Tree_float *)malloc(sizeof(Tree_float)); uint32_t i; uint32_t *pidx; float *bbox; tree->no_dims = no_dims; /* Initialize permutation array */ pidx = (uint32_t *)malloc(sizeof(uint32_t) * n); for (i = 0; i < n; i++) { pidx[i] = i; } bbox = (float *)malloc(2 * sizeof(float) * no_dims); get_bounding_box_float(pa, pidx, no_dims, n, bbox); tree->bbox = bbox; /* Construct subtree on full dataset */ tree->root = (struct Node_float *)construct_subtree_float(pa, pidx, no_dims, 0, n, bsp, bbox); tree->pidx = pidx; return tree; } /************************************************ Create a tree node. Params: start_idx : index of first data point to use n : number of data points ************************************************/ Node_float* create_node_float(uint32_t start_idx, uint32_t n, int is_leaf) { Node_float *new_node; if (is_leaf) { /* Allocate only the part of the struct that will be used in a leaf node. This relies on the C99 specification of struct layout conservation and padding and that dereferencing is never attempted for the node pointers in a leaf. */ new_node = (Node_float *)malloc(sizeof(Node_float) - 2 * sizeof(Node_float *)); } else { new_node = (Node_float *)malloc(sizeof(Node_float)); } new_node->n = n; new_node->start_idx = start_idx; return new_node; } /************************************************ Delete subtree Params: root : root node of subtree to delete ************************************************/ void delete_subtree_float(Node_float *root) { if (root->cut_dim != -1) { delete_subtree_float((Node_float *)root->left_child); delete_subtree_float((Node_float *)root->right_child); } free(root); } /************************************************ Delete tree Params: tree : Tree struct of kd tree ************************************************/ void delete_tree_float(Tree_float *tree) { delete_subtree_float((Node_float *)tree->root); free(tree->bbox); free(tree->pidx); free(tree); } /************************************************ Print ************************************************/ void print_tree_float(Node_float *root, int level) { int i; for (i = 0; i < level; i++) { printf(" "); } printf("(cut_val: %f, cut_dim: %i)\n", root->cut_val, root->cut_dim); if (root->cut_dim != -1) print_tree_float((Node_float *)root->left_child, level + 1); if (root->cut_dim != -1) print_tree_float((Node_float *)root->right_child, level + 1); } /************************************************ Calculate squared cartesian distance between points Params: point1_coord : point 1 point2_coord : point 2 ************************************************/ float calc_dist_float(float *point1_coord, float *point2_coord, int8_t no_dims) { /* Calculate squared distance */ float dist = 0, dim_dist; int8_t i; for (i = 0; i < no_dims; i++) { dim_dist = point2_coord[i] - point1_coord[i]; dist += dim_dist * dim_dist; } return dist; } /************************************************ Get squared distance from point to cube in specified dimension Params: dim : dimension point_coord : cartesian coordinates of point bbox : cube ************************************************/ float get_cube_offset_float(int8_t dim, float *point_coord, float *bbox) { float dim_coord = point_coord[dim]; if (dim_coord < bbox[2 * dim]) { /* Left of cube in dimension */ return dim_coord - bbox[2 * dim]; } else if (dim_coord > bbox[2 * dim + 1]) { /* Right of cube in dimension */ return dim_coord - bbox[2 * dim + 1]; } else { /* Inside cube in dimension */ return 0.; } } /************************************************ Get minimum squared distance between point and cube. Params: point_coord : cartesian coordinates of point no_dims : number of dimensions bbox : cube ************************************************/ float get_min_dist_float(float *point_coord, int8_t no_dims, float *bbox) { float cube_offset = 0, cube_offset_dim; int8_t i; for (i = 0; i < no_dims; i++) { cube_offset_dim = get_cube_offset_float(i, point_coord, bbox); cube_offset += cube_offset_dim * cube_offset_dim; } return cube_offset; } /************************************************ Search a leaf node for closest point Params: pa : data points pidx : permutation index of data points no_dims : number of dimensions start_idx : index of first data point to use size : number of data points point_coord : query point closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_leaf_float(float *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, float *restrict point_coord, uint32_t k, uint32_t *restrict closest_idx, float *restrict closest_dist) { float cur_dist; uint32_t i; /* Loop through all points in leaf */ for (i = 0; i < n; i++) { /* Get distance to query point */ cur_dist = calc_dist_float(&PA(start_idx + i, 0), point_coord, no_dims); /* Update closest info if new point is closest so far*/ if (cur_dist < closest_dist[k - 1]) { insert_point_float(closest_idx, closest_dist, pidx[start_idx + i], cur_dist, k); } } } /************************************************ Search a leaf node for closest point with data point mask Params: pa : data points pidx : permutation index of data points no_dims : number of dimensions start_idx : index of first data point to use size : number of data points point_coord : query point mask : boolean array of invalid (True) and valid (False) data points closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_leaf_float_mask(float *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, float *restrict point_coord, uint32_t k, uint8_t *mask, uint32_t *restrict closest_idx, float *restrict closest_dist) { float cur_dist; uint32_t i; /* Loop through all points in leaf */ for (i = 0; i < n; i++) { /* Is this point masked out? */ if (mask[pidx[start_idx + i]]) { continue; } /* Get distance to query point */ cur_dist = calc_dist_float(&PA(start_idx + i, 0), point_coord, no_dims); /* Update closest info if new point is closest so far*/ if (cur_dist < closest_dist[k - 1]) { insert_point_float(closest_idx, closest_dist, pidx[start_idx + i], cur_dist, k); } } } /************************************************ Search subtree for nearest to query point Params: root : root node of subtree pa : data points pidx : permutation index of data points no_dims : number of dimensions point_coord : query point min_dist : minumum distance to nearest neighbour mask : boolean array of invalid (True) and valid (False) data points closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_splitnode_float(Node_float *root, float *pa, uint32_t *pidx, int8_t no_dims, float *point_coord, float min_dist, uint32_t k, float distance_upper_bound, float eps_fac, uint8_t *mask, uint32_t *closest_idx, float *closest_dist) { int8_t dim; float dist_left, dist_right; float new_offset; float box_diff; /* Skip if distance bound exeeded */ if (min_dist > distance_upper_bound) { return; } dim = root->cut_dim; /* Handle leaf node */ if (dim == -1) { if (mask) { search_leaf_float_mask(pa, pidx, no_dims, root->start_idx, root->n, point_coord, k, mask, closest_idx, closest_dist); } else { search_leaf_float(pa, pidx, no_dims, root->start_idx, root->n, point_coord, k, closest_idx, closest_dist); } return; } /* Get distance to cutting plane */ new_offset = point_coord[dim] - root->cut_val; if (new_offset < 0) { /* Left of cutting plane */ dist_left = min_dist; if (dist_left < closest_dist[k - 1] * eps_fac) { /* Search left subtree if minimum distance is below limit */ search_splitnode_float((Node_float *)root->left_child, pa, pidx, no_dims, point_coord, dist_left, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } /* Right of cutting plane. Update minimum distance. See Algorithms for Fast Vector Quantization Sunil Arya and David M. Mount. */ box_diff = root->cut_bounds_lv - point_coord[dim]; if (box_diff < 0) { box_diff = 0; } dist_right = min_dist - box_diff * box_diff + new_offset * new_offset; if (dist_right < closest_dist[k - 1] * eps_fac) { /* Search right subtree if minimum distance is below limit*/ search_splitnode_float((Node_float *)root->right_child, pa, pidx, no_dims, point_coord, dist_right, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } } else { /* Right of cutting plane */ dist_right = min_dist; if (dist_right < closest_dist[k - 1] * eps_fac) { /* Search right subtree if minimum distance is below limit*/ search_splitnode_float((Node_float *)root->right_child, pa, pidx, no_dims, point_coord, dist_right, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } /* Left of cutting plane. Update minimum distance. See Algorithms for Fast Vector Quantization Sunil Arya and David M. Mount. */ box_diff = point_coord[dim] - root->cut_bounds_hv; if (box_diff < 0) { box_diff = 0; } dist_left = min_dist - box_diff * box_diff + new_offset * new_offset; if (dist_left < closest_dist[k - 1] * eps_fac) { /* Search left subtree if minimum distance is below limit*/ search_splitnode_float((Node_float *)root->left_child, pa, pidx, no_dims, point_coord, dist_left, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } } } /************************************************ Search for nearest neighbour for a set of query points Params: tree : Tree struct of kd tree pa : data points pidx : permutation index of data points point_coords : query points num_points : number of query points mask : boolean array of invalid (True) and valid (False) data points closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_tree_float(Tree_float *tree, float *pa, float *point_coords, uint32_t num_points, uint32_t k, float distance_upper_bound, float eps, uint8_t *mask, uint32_t *closest_idxs, float *closest_dists) { float min_dist; float eps_fac = 1 / ((1 + eps) * (1 + eps)); int8_t no_dims = tree->no_dims; float *bbox = tree->bbox; uint32_t *pidx = tree->pidx; uint32_t j = 0; #if defined(_MSC_VER) && defined(_OPENMP) int32_t i = 0; int32_t local_num_points = (int32_t) num_points; #else uint32_t i; uint32_t local_num_points = num_points; #endif Node_float *root = (Node_float *)tree->root; /* Queries are OpenMP enabled */ #pragma omp parallel { /* The low chunk size is important to avoid L2 cache trashing for spatial coherent query datasets */ #pragma omp for private(i, j) schedule(static, 100) nowait for (i = 0; i < local_num_points; i++) { for (j = 0; j < k; j++) { closest_idxs[i * k + j] = UINT32_MAX; closest_dists[i * k + j] = DBL_MAX; } min_dist = get_min_dist_float(point_coords + no_dims * i, no_dims, bbox); search_splitnode_float(root, pa, pidx, no_dims, point_coords + no_dims * i, min_dist, k, distance_upper_bound, eps_fac, mask, &closest_idxs[i * k], &closest_dists[i * k]); } } } /************************************************ Insert point into priority queue Params: closest_idx : index queue closest_dist : distance queue pidx : permutation index of data points cur_dist : distance to point inserted k : number of neighbours ************************************************/ void insert_point_double(uint32_t *closest_idx, double *closest_dist, uint32_t pidx, double cur_dist, uint32_t k) { int i; for (i = k - 1; i > 0; i--) { if (closest_dist[i - 1] > cur_dist) { closest_dist[i] = closest_dist[i - 1]; closest_idx[i] = closest_idx[i - 1]; } else { break; } } closest_idx[i] = pidx; closest_dist[i] = cur_dist; } /************************************************ Get the bounding box of a set of points Params: pa : data points pidx : permutation index of data points no_dims: number of dimensions n : number of points bbox : bounding box (return) ************************************************/ void get_bounding_box_double(double *pa, uint32_t *pidx, int8_t no_dims, uint32_t n, double *bbox) { double cur; int8_t bbox_idx, i, j; uint32_t i2; /* Use first data point to initialize */ for (i = 0; i < no_dims; i++) { bbox[2 * i] = bbox[2 * i + 1] = PA(0, i); } /* Update using rest of data points */ for (i2 = 1; i2 < n; i2++) { for (j = 0; j < no_dims; j++) { bbox_idx = 2 * j; cur = PA(i2, j); if (cur < bbox[bbox_idx]) { bbox[bbox_idx] = cur; } else if (cur > bbox[bbox_idx + 1]) { bbox[bbox_idx + 1] = cur; } } } } /************************************************ Partition a range of data points by manipulation the permutation index. The sliding midpoint rule is used for the partitioning. Params: pa : data points pidx : permutation index of data points no_dims: number of dimensions start_idx : index of first data point to use n : number of data points bbox : bounding box of data points cut_dim : dimension used for partition (return) cut_val : value of cutting point (return) n_lo : number of point below cutting plane (return) ************************************************/ int partition_double(double *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, double *bbox, int8_t *cut_dim, double *cut_val, uint32_t *n_lo) { int8_t dim = 0, i; uint32_t p, q, i2; double size = 0, min_val, max_val, split, side_len, cur_val; uint32_t end_idx = start_idx + n - 1; /* Find largest bounding box side */ for (i = 0; i < no_dims; i++) { side_len = bbox[2 * i + 1] - bbox[2 * i]; if (side_len > size) { dim = i; size = side_len; } } min_val = bbox[2 * dim]; max_val = bbox[2 * dim + 1]; /* Check for zero length or inconsistent */ if (min_val >= max_val) return 1; /* Use middle for splitting */ split = (min_val + max_val) / 2; /* Partition all data points around middle */ p = start_idx; q = end_idx; while (p <= q) { if (PA(p, dim) < split) { p++; } else if (PA(q, dim) >= split) { /* Guard for underflow */ if (q > 0) { q--; } else { break; } } else { PASWAP(p, q); p++; q--; } } /* Check for empty splits */ if (p == start_idx) { /* No points less than split. Split at lowest point instead. Minimum 1 point will be in lower box. */ uint32_t j = start_idx; split = PA(j, dim); for (i2 = start_idx + 1; i2 <= end_idx; i2++) { /* Find lowest point */ cur_val = PA(i2, dim); if (cur_val < split) { j = i2; split = cur_val; } } PASWAP(j, start_idx); p = start_idx + 1; } else if (p == end_idx + 1) { /* No points greater than split. Split at highest point instead. Minimum 1 point will be in higher box. */ uint32_t j = end_idx; split = PA(j, dim); for (i2 = start_idx; i2 < end_idx; i2++) { /* Find highest point */ cur_val = PA(i2, dim); if (cur_val > split) { j = i2; split = cur_val; } } PASWAP(j, end_idx); p = end_idx; } /* Set return values */ *cut_dim = dim; *cut_val = split; *n_lo = p - start_idx; return 0; } /************************************************ Construct a sub tree over a range of data points. Params: pa : data points pidx : permutation index of data points no_dims: number of dimensions start_idx : index of first data point to use n : number of data points bsp : number of points per leaf bbox : bounding box of set of data points ************************************************/ Node_double* construct_subtree_double(double *pa, uint32_t *pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, uint32_t bsp, double *bbox) { /* Create new node */ int is_leaf = (n <= bsp); Node_double *root = create_node_double(start_idx, n, is_leaf); int rval; int8_t cut_dim; uint32_t n_lo; double cut_val, lv, hv; if (is_leaf) { /* Make leaf node */ root->cut_dim = -1; } else { /* Make split node */ /* Partition data set and set node info */ rval = partition_double(pa, pidx, no_dims, start_idx, n, bbox, &cut_dim, &cut_val, &n_lo); if (rval == 1) { root->cut_dim = -1; return root; } root->cut_val = cut_val; root->cut_dim = cut_dim; /* Recurse on both subsets */ lv = bbox[2 * cut_dim]; hv = bbox[2 * cut_dim + 1]; /* Set bounds for cut dimension */ root->cut_bounds_lv = lv; root->cut_bounds_hv = hv; /* Update bounding box before call to lower subset and restore after */ bbox[2 * cut_dim + 1] = cut_val; root->left_child = (struct Node_double *)construct_subtree_double(pa, pidx, no_dims, start_idx, n_lo, bsp, bbox); bbox[2 * cut_dim + 1] = hv; /* Update bounding box before call to higher subset and restore after */ bbox[2 * cut_dim] = cut_val; root->right_child = (struct Node_double *)construct_subtree_double(pa, pidx, no_dims, start_idx + n_lo, n - n_lo, bsp, bbox); bbox[2 * cut_dim] = lv; } return root; } /************************************************ Construct a tree over data points. Params: pa : data points no_dims: number of dimensions n : number of data points bsp : number of points per leaf ************************************************/ Tree_double* construct_tree_double(double *pa, int8_t no_dims, uint32_t n, uint32_t bsp) { Tree_double *tree = (Tree_double *)malloc(sizeof(Tree_double)); uint32_t i; uint32_t *pidx; double *bbox; tree->no_dims = no_dims; /* Initialize permutation array */ pidx = (uint32_t *)malloc(sizeof(uint32_t) * n); for (i = 0; i < n; i++) { pidx[i] = i; } bbox = (double *)malloc(2 * sizeof(double) * no_dims); get_bounding_box_double(pa, pidx, no_dims, n, bbox); tree->bbox = bbox; /* Construct subtree on full dataset */ tree->root = (struct Node_double *)construct_subtree_double(pa, pidx, no_dims, 0, n, bsp, bbox); tree->pidx = pidx; return tree; } /************************************************ Create a tree node. Params: start_idx : index of first data point to use n : number of data points ************************************************/ Node_double* create_node_double(uint32_t start_idx, uint32_t n, int is_leaf) { Node_double *new_node; if (is_leaf) { /* Allocate only the part of the struct that will be used in a leaf node. This relies on the C99 specification of struct layout conservation and padding and that dereferencing is never attempted for the node pointers in a leaf. */ new_node = (Node_double *)malloc(sizeof(Node_double) - 2 * sizeof(Node_double *)); } else { new_node = (Node_double *)malloc(sizeof(Node_double)); } new_node->n = n; new_node->start_idx = start_idx; return new_node; } /************************************************ Delete subtree Params: root : root node of subtree to delete ************************************************/ void delete_subtree_double(Node_double *root) { if (root->cut_dim != -1) { delete_subtree_double((Node_double *)root->left_child); delete_subtree_double((Node_double *)root->right_child); } free(root); } /************************************************ Delete tree Params: tree : Tree struct of kd tree ************************************************/ void delete_tree_double(Tree_double *tree) { delete_subtree_double((Node_double *)tree->root); free(tree->bbox); free(tree->pidx); free(tree); } /************************************************ Print ************************************************/ void print_tree_double(Node_double *root, int level) { int i; for (i = 0; i < level; i++) { printf(" "); } printf("(cut_val: %f, cut_dim: %i)\n", root->cut_val, root->cut_dim); if (root->cut_dim != -1) print_tree_double((Node_double *)root->left_child, level + 1); if (root->cut_dim != -1) print_tree_double((Node_double *)root->right_child, level + 1); } /************************************************ Calculate squared cartesian distance between points Params: point1_coord : point 1 point2_coord : point 2 ************************************************/ double calc_dist_double(double *point1_coord, double *point2_coord, int8_t no_dims) { /* Calculate squared distance */ double dist = 0, dim_dist; int8_t i; for (i = 0; i < no_dims; i++) { dim_dist = point2_coord[i] - point1_coord[i]; dist += dim_dist * dim_dist; } return dist; } /************************************************ Get squared distance from point to cube in specified dimension Params: dim : dimension point_coord : cartesian coordinates of point bbox : cube ************************************************/ double get_cube_offset_double(int8_t dim, double *point_coord, double *bbox) { double dim_coord = point_coord[dim]; if (dim_coord < bbox[2 * dim]) { /* Left of cube in dimension */ return dim_coord - bbox[2 * dim]; } else if (dim_coord > bbox[2 * dim + 1]) { /* Right of cube in dimension */ return dim_coord - bbox[2 * dim + 1]; } else { /* Inside cube in dimension */ return 0.; } } /************************************************ Get minimum squared distance between point and cube. Params: point_coord : cartesian coordinates of point no_dims : number of dimensions bbox : cube ************************************************/ double get_min_dist_double(double *point_coord, int8_t no_dims, double *bbox) { double cube_offset = 0, cube_offset_dim; int8_t i; for (i = 0; i < no_dims; i++) { cube_offset_dim = get_cube_offset_double(i, point_coord, bbox); cube_offset += cube_offset_dim * cube_offset_dim; } return cube_offset; } /************************************************ Search a leaf node for closest point Params: pa : data points pidx : permutation index of data points no_dims : number of dimensions start_idx : index of first data point to use size : number of data points point_coord : query point closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_leaf_double(double *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, double *restrict point_coord, uint32_t k, uint32_t *restrict closest_idx, double *restrict closest_dist) { double cur_dist; uint32_t i; /* Loop through all points in leaf */ for (i = 0; i < n; i++) { /* Get distance to query point */ cur_dist = calc_dist_double(&PA(start_idx + i, 0), point_coord, no_dims); /* Update closest info if new point is closest so far*/ if (cur_dist < closest_dist[k - 1]) { insert_point_double(closest_idx, closest_dist, pidx[start_idx + i], cur_dist, k); } } } /************************************************ Search a leaf node for closest point with data point mask Params: pa : data points pidx : permutation index of data points no_dims : number of dimensions start_idx : index of first data point to use size : number of data points point_coord : query point mask : boolean array of invalid (True) and valid (False) data points closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_leaf_double_mask(double *restrict pa, uint32_t *restrict pidx, int8_t no_dims, uint32_t start_idx, uint32_t n, double *restrict point_coord, uint32_t k, uint8_t *mask, uint32_t *restrict closest_idx, double *restrict closest_dist) { double cur_dist; uint32_t i; /* Loop through all points in leaf */ for (i = 0; i < n; i++) { /* Is this point masked out? */ if (mask[pidx[start_idx + i]]) { continue; } /* Get distance to query point */ cur_dist = calc_dist_double(&PA(start_idx + i, 0), point_coord, no_dims); /* Update closest info if new point is closest so far*/ if (cur_dist < closest_dist[k - 1]) { insert_point_double(closest_idx, closest_dist, pidx[start_idx + i], cur_dist, k); } } } /************************************************ Search subtree for nearest to query point Params: root : root node of subtree pa : data points pidx : permutation index of data points no_dims : number of dimensions point_coord : query point min_dist : minumum distance to nearest neighbour mask : boolean array of invalid (True) and valid (False) data points closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_splitnode_double(Node_double *root, double *pa, uint32_t *pidx, int8_t no_dims, double *point_coord, double min_dist, uint32_t k, double distance_upper_bound, double eps_fac, uint8_t *mask, uint32_t *closest_idx, double *closest_dist) { int8_t dim; double dist_left, dist_right; double new_offset; double box_diff; /* Skip if distance bound exeeded */ if (min_dist > distance_upper_bound) { return; } dim = root->cut_dim; /* Handle leaf node */ if (dim == -1) { if (mask) { search_leaf_double_mask(pa, pidx, no_dims, root->start_idx, root->n, point_coord, k, mask, closest_idx, closest_dist); } else { search_leaf_double(pa, pidx, no_dims, root->start_idx, root->n, point_coord, k, closest_idx, closest_dist); } return; } /* Get distance to cutting plane */ new_offset = point_coord[dim] - root->cut_val; if (new_offset < 0) { /* Left of cutting plane */ dist_left = min_dist; if (dist_left < closest_dist[k - 1] * eps_fac) { /* Search left subtree if minimum distance is below limit */ search_splitnode_double((Node_double *)root->left_child, pa, pidx, no_dims, point_coord, dist_left, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } /* Right of cutting plane. Update minimum distance. See Algorithms for Fast Vector Quantization Sunil Arya and David M. Mount. */ box_diff = root->cut_bounds_lv - point_coord[dim]; if (box_diff < 0) { box_diff = 0; } dist_right = min_dist - box_diff * box_diff + new_offset * new_offset; if (dist_right < closest_dist[k - 1] * eps_fac) { /* Search right subtree if minimum distance is below limit*/ search_splitnode_double((Node_double *)root->right_child, pa, pidx, no_dims, point_coord, dist_right, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } } else { /* Right of cutting plane */ dist_right = min_dist; if (dist_right < closest_dist[k - 1] * eps_fac) { /* Search right subtree if minimum distance is below limit*/ search_splitnode_double((Node_double *)root->right_child, pa, pidx, no_dims, point_coord, dist_right, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } /* Left of cutting plane. Update minimum distance. See Algorithms for Fast Vector Quantization Sunil Arya and David M. Mount. */ box_diff = point_coord[dim] - root->cut_bounds_hv; if (box_diff < 0) { box_diff = 0; } dist_left = min_dist - box_diff * box_diff + new_offset * new_offset; if (dist_left < closest_dist[k - 1] * eps_fac) { /* Search left subtree if minimum distance is below limit*/ search_splitnode_double((Node_double *)root->left_child, pa, pidx, no_dims, point_coord, dist_left, k, distance_upper_bound, eps_fac, mask, closest_idx, closest_dist); } } } /************************************************ Search for nearest neighbour for a set of query points Params: tree : Tree struct of kd tree pa : data points pidx : permutation index of data points point_coords : query points num_points : number of query points mask : boolean array of invalid (True) and valid (False) data points closest_idx : index of closest data point found (return) closest_dist : distance to closest point (return) ************************************************/ void search_tree_double(Tree_double *tree, double *pa, double *point_coords, uint32_t num_points, uint32_t k, double distance_upper_bound, double eps, uint8_t *mask, uint32_t *closest_idxs, double *closest_dists) { double min_dist; double eps_fac = 1 / ((1 + eps) * (1 + eps)); int8_t no_dims = tree->no_dims; double *bbox = tree->bbox; uint32_t *pidx = tree->pidx; uint32_t j = 0; #if defined(_MSC_VER) && defined(_OPENMP) int32_t i = 0; int32_t local_num_points = (int32_t) num_points; #else uint32_t i; uint32_t local_num_points = num_points; #endif Node_double *root = (Node_double *)tree->root; /* Queries are OpenMP enabled */ #pragma omp parallel { /* The low chunk size is important to avoid L2 cache trashing for spatial coherent query datasets */ #pragma omp for private(i, j) schedule(static, 100) nowait for (i = 0; i < local_num_points; i++) { for (j = 0; j < k; j++) { closest_idxs[i * k + j] = UINT32_MAX; closest_dists[i * k + j] = DBL_MAX; } min_dist = get_min_dist_double(point_coords + no_dims * i, no_dims, bbox); search_splitnode_double(root, pa, pidx, no_dims, point_coords + no_dims * i, min_dist, k, distance_upper_bound, eps_fac, mask, &closest_idxs[i * k], &closest_dists[i * k]); } } } pykdtree-1.3.1/pykdtree/kdtree.c0000664017154600037200000164356313304226266020142 0ustar a001673smhiprimgrp00000000000000/* Generated by Cython 0.27.3 */ #define PY_SSIZE_T_CLEAN #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03030000) #error Cython requires Python 2.6+ or Python 3.3+. #else #define CYTHON_ABI "0_27_3" #define CYTHON_FUTURE_DIVISION 0 #include #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) #endif #if !defined(WIN32) && !defined(MS_WINDOWS) #ifndef __stdcall #define __stdcall #endif #ifndef __cdecl #define __cdecl #endif #ifndef __fastcall #define __fastcall #endif #endif #ifndef DL_IMPORT #define DL_IMPORT(t) t #endif #ifndef DL_EXPORT #define DL_EXPORT(t) t #endif #define __PYX_COMMA , #ifndef HAVE_LONG_LONG #if PY_VERSION_HEX >= 0x02070000 #define HAVE_LONG_LONG #endif #endif #ifndef PY_LONG_LONG #define PY_LONG_LONG LONG_LONG #endif #ifndef Py_HUGE_VAL #define Py_HUGE_VAL HUGE_VAL #endif #ifdef PYPY_VERSION #define CYTHON_COMPILING_IN_PYPY 1 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 0 #undef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 0 #undef CYTHON_USE_PYTYPE_LOOKUP #define CYTHON_USE_PYTYPE_LOOKUP 0 #if PY_VERSION_HEX < 0x03050000 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #undef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #undef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 1 #undef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 0 #undef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 0 #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #undef CYTHON_PEP489_MULTI_PHASE_INIT #define CYTHON_PEP489_MULTI_PHASE_INIT 0 #undef CYTHON_USE_TP_FINALIZE #define CYTHON_USE_TP_FINALIZE 0 #elif defined(PYSTON_VERSION) #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 1 #define CYTHON_COMPILING_IN_CPYTHON 0 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #undef CYTHON_USE_PYTYPE_LOOKUP #define CYTHON_USE_PYTYPE_LOOKUP 0 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #undef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 0 #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #undef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 0 #undef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 0 #undef CYTHON_PEP489_MULTI_PHASE_INIT #define CYTHON_PEP489_MULTI_PHASE_INIT 0 #undef CYTHON_USE_TP_FINALIZE #define CYTHON_USE_TP_FINALIZE 0 #else #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_PYSTON 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #ifndef CYTHON_USE_TYPE_SLOTS #define CYTHON_USE_TYPE_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYTYPE_LOOKUP #define CYTHON_USE_PYTYPE_LOOKUP 0 #elif !defined(CYTHON_USE_PYTYPE_LOOKUP) #define CYTHON_USE_PYTYPE_LOOKUP 1 #endif #if PY_MAJOR_VERSION < 3 #undef CYTHON_USE_ASYNC_SLOTS #define CYTHON_USE_ASYNC_SLOTS 0 #elif !defined(CYTHON_USE_ASYNC_SLOTS) #define CYTHON_USE_ASYNC_SLOTS 1 #endif #if PY_VERSION_HEX < 0x02070000 #undef CYTHON_USE_PYLONG_INTERNALS #define CYTHON_USE_PYLONG_INTERNALS 0 #elif !defined(CYTHON_USE_PYLONG_INTERNALS) #define CYTHON_USE_PYLONG_INTERNALS 1 #endif #ifndef CYTHON_USE_PYLIST_INTERNALS #define CYTHON_USE_PYLIST_INTERNALS 1 #endif #ifndef CYTHON_USE_UNICODE_INTERNALS #define CYTHON_USE_UNICODE_INTERNALS 1 #endif #if PY_VERSION_HEX < 0x030300F0 #undef CYTHON_USE_UNICODE_WRITER #define CYTHON_USE_UNICODE_WRITER 0 #elif !defined(CYTHON_USE_UNICODE_WRITER) #define CYTHON_USE_UNICODE_WRITER 1 #endif #ifndef CYTHON_AVOID_BORROWED_REFS #define CYTHON_AVOID_BORROWED_REFS 0 #endif #ifndef CYTHON_ASSUME_SAFE_MACROS #define CYTHON_ASSUME_SAFE_MACROS 1 #endif #ifndef CYTHON_UNPACK_METHODS #define CYTHON_UNPACK_METHODS 1 #endif #ifndef CYTHON_FAST_THREAD_STATE #define CYTHON_FAST_THREAD_STATE 1 #endif #ifndef CYTHON_FAST_PYCALL #define CYTHON_FAST_PYCALL 1 #endif #ifndef CYTHON_PEP489_MULTI_PHASE_INIT #define CYTHON_PEP489_MULTI_PHASE_INIT (0 && PY_VERSION_HEX >= 0x03050000) #endif #ifndef CYTHON_USE_TP_FINALIZE #define CYTHON_USE_TP_FINALIZE (PY_VERSION_HEX >= 0x030400a1) #endif #endif #if !defined(CYTHON_FAST_PYCCALL) #define CYTHON_FAST_PYCCALL (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1) #endif #if CYTHON_USE_PYLONG_INTERNALS #include "longintrepr.h" #undef SHIFT #undef BASE #undef MASK #endif #if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 && !defined(Py_OptimizeFlag) #define Py_OptimizeFlag 0 #endif #define __PYX_BUILD_PY_SSIZE_T "n" #define CYTHON_FORMAT_SSIZE_T "z" #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) #define __Pyx_DefaultClassType PyType_Type #endif #ifndef Py_TPFLAGS_CHECKTYPES #define Py_TPFLAGS_CHECKTYPES 0 #endif #ifndef Py_TPFLAGS_HAVE_INDEX #define Py_TPFLAGS_HAVE_INDEX 0 #endif #ifndef Py_TPFLAGS_HAVE_NEWBUFFER #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif #ifndef Py_TPFLAGS_HAVE_FINALIZE #define Py_TPFLAGS_HAVE_FINALIZE 0 #endif #if PY_VERSION_HEX < 0x030700A0 || !defined(METH_FASTCALL) #ifndef METH_FASTCALL #define METH_FASTCALL 0x80 #endif typedef PyObject *(*__Pyx_PyCFunctionFast) (PyObject *self, PyObject **args, Py_ssize_t nargs); typedef PyObject *(*__Pyx_PyCFunctionFastWithKeywords) (PyObject *self, PyObject **args, Py_ssize_t nargs, PyObject *kwnames); #else #define __Pyx_PyCFunctionFast _PyCFunctionFast #define __Pyx_PyCFunctionFastWithKeywords _PyCFunctionFastWithKeywords #endif #if CYTHON_FAST_PYCCALL #define __Pyx_PyFastCFunction_Check(func)\ ((PyCFunction_Check(func) && (METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST | METH_KEYWORDS))))) #else #define __Pyx_PyFastCFunction_Check(func) 0 #endif #if !CYTHON_FAST_THREAD_STATE || PY_VERSION_HEX < 0x02070000 #define __Pyx_PyThreadState_Current PyThreadState_GET() #elif PY_VERSION_HEX >= 0x03060000 #define __Pyx_PyThreadState_Current _PyThreadState_UncheckedGet() #elif PY_VERSION_HEX >= 0x03000000 #define __Pyx_PyThreadState_Current PyThreadState_GET() #else #define __Pyx_PyThreadState_Current _PyThreadState_Current #endif #if CYTHON_COMPILING_IN_CPYTHON || defined(_PyDict_NewPresized) #define __Pyx_PyDict_NewPresized(n) ((n <= 8) ? PyDict_New() : _PyDict_NewPresized(n)) #else #define __Pyx_PyDict_NewPresized(n) PyDict_New() #endif #if PY_MAJOR_VERSION >= 3 || CYTHON_FUTURE_DIVISION #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) #else #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) #endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ?\ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) PyUnicode_MAX_CHAR_VALUE(u) #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) PyUnicode_WRITE(k, d, i, ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != (likely(PyUnicode_IS_READY(u)) ? PyUnicode_GET_LENGTH(u) : PyUnicode_GET_SIZE(u))) #else #define CYTHON_PEP393_ENABLED 0 #define PyUnicode_1BYTE_KIND 1 #define PyUnicode_2BYTE_KIND 2 #define PyUnicode_4BYTE_KIND 4 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u) ((sizeof(Py_UNICODE) == 2) ? 65535 : 1114111) #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) #define __Pyx_PyUnicode_WRITE(k, d, i, ch) (((void)(k)), ((Py_UNICODE*)d)[i] = ch) #define __Pyx_PyUnicode_IS_TRUE(u) (0 != PyUnicode_GET_SIZE(u)) #endif #if CYTHON_COMPILING_IN_PYPY #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) #else #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ?\ PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyUnicode_Contains) #define PyUnicode_Contains(u, s) PySequence_Contains(u, s) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyByteArray_Check) #define PyByteArray_Check(obj) PyObject_TypeCheck(obj, &PyByteArray_Type) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Format) #define PyObject_Format(obj, fmt) PyObject_CallMethod(obj, "__format__", "O", fmt) #endif #if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Malloc) #define PyObject_Malloc(s) PyMem_Malloc(s) #define PyObject_Free(p) PyMem_Free(p) #define PyObject_Realloc(p) PyMem_Realloc(p) #endif #if CYTHON_COMPILING_IN_PYSTON #define __Pyx_PyCode_HasFreeVars(co) PyCode_HasFreeVars(co) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) PyFrame_SetLineNumber(frame, lineno) #else #define __Pyx_PyCode_HasFreeVars(co) (PyCode_GetNumFree(co) > 0) #define __Pyx_PyFrame_SetLineNumber(frame, lineno) (frame)->f_lineno = (lineno) #endif #define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) #define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) #else #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION < 3 && !defined(PyObject_ASCII) #define PyObject_ASCII(o) PyObject_Repr(o) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type #define PyStringObject PyUnicodeObject #define PyString_Type PyUnicode_Type #define PyString_Check PyUnicode_Check #define PyString_CheckExact PyUnicode_CheckExact #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) #else #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj)) #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) #endif #ifndef PySet_CheckExact #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) #endif #define __Pyx_PyException_Check(obj) __Pyx_TypeCheck(obj, PyExc_Exception) #if PY_MAJOR_VERSION >= 3 #define PyIntObject PyLongObject #define PyInt_Type PyLong_Type #define PyInt_Check(op) PyLong_Check(op) #define PyInt_CheckExact(op) PyLong_CheckExact(op) #define PyInt_FromString PyLong_FromString #define PyInt_FromUnicode PyLong_FromUnicode #define PyInt_FromLong PyLong_FromLong #define PyInt_FromSize_t PyLong_FromSize_t #define PyInt_FromSsize_t PyLong_FromSsize_t #define PyInt_AsLong PyLong_AsLong #define PyInt_AS_LONG PyLong_AS_LONG #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif #if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY #ifndef PyUnicode_InternFromString #define PyUnicode_InternFromString(s) PyUnicode_FromString(s) #endif #endif #if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong #else #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t #endif #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) #else #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) #endif #ifndef __has_attribute #define __has_attribute(x) 0 #endif #ifndef __has_cpp_attribute #define __has_cpp_attribute(x) 0 #endif #if CYTHON_USE_ASYNC_SLOTS #if PY_VERSION_HEX >= 0x030500B1 #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async) #else #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved)) #endif #else #define __Pyx_PyType_AsAsync(obj) NULL #endif #ifndef __Pyx_PyAsyncMethodsStruct typedef struct { unaryfunc am_await; unaryfunc am_aiter; unaryfunc am_anext; } __Pyx_PyAsyncMethodsStruct; #endif #ifndef CYTHON_RESTRICT #if defined(__GNUC__) #define CYTHON_RESTRICT __restrict__ #elif defined(_MSC_VER) && _MSC_VER >= 1400 #define CYTHON_RESTRICT __restrict #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_RESTRICT restrict #else #define CYTHON_RESTRICT #endif #endif #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif # elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) # define CYTHON_UNUSED __attribute__ ((__unused__)) # else # define CYTHON_UNUSED # endif #endif #ifndef CYTHON_MAYBE_UNUSED_VAR # if defined(__cplusplus) template void CYTHON_MAYBE_UNUSED_VAR( const T& ) { } # else # define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x) # endif #endif #ifndef CYTHON_NCP_UNUSED # if CYTHON_COMPILING_IN_CPYTHON # define CYTHON_NCP_UNUSED # else # define CYTHON_NCP_UNUSED CYTHON_UNUSED # endif #endif #define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None) #ifdef _MSC_VER #ifndef _MSC_STDINT_H_ #if _MSC_VER < 1300 typedef unsigned char uint8_t; typedef unsigned int uint32_t; #else typedef unsigned __int8 uint8_t; typedef unsigned __int32 uint32_t; #endif #endif #else #include #endif #ifndef CYTHON_FALLTHROUGH #if defined(__cplusplus) && __cplusplus >= 201103L #if __has_cpp_attribute(fallthrough) #define CYTHON_FALLTHROUGH [[fallthrough]] #elif __has_cpp_attribute(clang::fallthrough) #define CYTHON_FALLTHROUGH [[clang::fallthrough]] #elif __has_cpp_attribute(gnu::fallthrough) #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] #endif #endif #ifndef CYTHON_FALLTHROUGH #if __has_attribute(fallthrough) #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) #else #define CYTHON_FALLTHROUGH #endif #endif #if defined(__clang__ ) && defined(__apple_build_version__) #if __apple_build_version__ < 7000000 #undef CYTHON_FALLTHROUGH #define CYTHON_FALLTHROUGH #endif #endif #endif #ifndef CYTHON_INLINE #if defined(__clang__) #define CYTHON_INLINE __inline__ __attribute__ ((__unused__)) #elif defined(__GNUC__) #define CYTHON_INLINE __inline__ #elif defined(_MSC_VER) #define CYTHON_INLINE __inline #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define CYTHON_INLINE inline #else #define CYTHON_INLINE #endif #endif #if defined(WIN32) || defined(MS_WINDOWS) #define _USE_MATH_DEFINES #endif #include #ifdef NAN #define __PYX_NAN() ((float) NAN) #else static CYTHON_INLINE float __PYX_NAN() { float value; memset(&value, 0xFF, sizeof(value)); return value; } #endif #if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL) #define __Pyx_truncl trunc #else #define __Pyx_truncl truncl #endif #define __PYX_ERR(f_index, lineno, Ln_error) \ { \ __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \ } #ifndef __PYX_EXTERN_C #ifdef __cplusplus #define __PYX_EXTERN_C extern "C" #else #define __PYX_EXTERN_C extern #endif #endif #define __PYX_HAVE__pykdtree__kdtree #define __PYX_HAVE_API__pykdtree__kdtree #include #include #include "numpy/arrayobject.h" #include "numpy/ufuncobject.h" #include #ifdef _OPENMP #include #endif /* _OPENMP */ #if defined(PYREX_WITHOUT_ASSERTIONS) && !defined(CYTHON_WITHOUT_ASSERTIONS) #define CYTHON_WITHOUT_ASSERTIONS #endif typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; #define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 #define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 #define __PYX_DEFAULT_STRING_ENCODING "" #define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString #define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #define __Pyx_uchar_cast(c) ((unsigned char)c) #define __Pyx_long_cast(x) ((long)x) #define __Pyx_fits_Py_ssize_t(v, type, is_signed) (\ (sizeof(type) < sizeof(Py_ssize_t)) ||\ (sizeof(type) > sizeof(Py_ssize_t) &&\ likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX) &&\ (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\ v == (type)PY_SSIZE_T_MIN))) ||\ (sizeof(type) == sizeof(Py_ssize_t) &&\ (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\ v == (type)PY_SSIZE_T_MAX))) ) #if defined (__cplusplus) && __cplusplus >= 201103L #include #define __Pyx_sst_abs(value) std::abs(value) #elif SIZEOF_INT >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) abs(value) #elif SIZEOF_LONG >= SIZEOF_SIZE_T #define __Pyx_sst_abs(value) labs(value) #elif defined (_MSC_VER) #define __Pyx_sst_abs(value) ((Py_ssize_t)_abs64(value)) #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L #define __Pyx_sst_abs(value) llabs(value) #elif defined (__GNUC__) #define __Pyx_sst_abs(value) __builtin_llabs(value) #else #define __Pyx_sst_abs(value) ((value<0) ? -value : value) #endif static CYTHON_INLINE const char* __Pyx_PyObject_AsString(PyObject*); static CYTHON_INLINE const char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); #define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) #define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) #define __Pyx_PyBytes_FromString PyBytes_FromString #define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); #if PY_MAJOR_VERSION < 3 #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize #else #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize #endif #define __Pyx_PyBytes_AsWritableString(s) ((char*) PyBytes_AS_STRING(s)) #define __Pyx_PyBytes_AsWritableSString(s) ((signed char*) PyBytes_AS_STRING(s)) #define __Pyx_PyBytes_AsWritableUString(s) ((unsigned char*) PyBytes_AS_STRING(s)) #define __Pyx_PyBytes_AsString(s) ((const char*) PyBytes_AS_STRING(s)) #define __Pyx_PyBytes_AsSString(s) ((const signed char*) PyBytes_AS_STRING(s)) #define __Pyx_PyBytes_AsUString(s) ((const unsigned char*) PyBytes_AS_STRING(s)) #define __Pyx_PyObject_AsWritableString(s) ((char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsWritableSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsWritableUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsSString(s) ((const signed char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_AsUString(s) ((const unsigned char*) __Pyx_PyObject_AsString(s)) #define __Pyx_PyObject_FromCString(s) __Pyx_PyObject_FromString((const char*)s) #define __Pyx_PyBytes_FromCString(s) __Pyx_PyBytes_FromString((const char*)s) #define __Pyx_PyByteArray_FromCString(s) __Pyx_PyByteArray_FromString((const char*)s) #define __Pyx_PyStr_FromCString(s) __Pyx_PyStr_FromString((const char*)s) #define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s) static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) { const Py_UNICODE *u_end = u; while (*u_end++) ; return (size_t)(u_end - u - 1); } #define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) #define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode #define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_NewRef(obj) (Py_INCREF(obj), obj) #define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x); #define __Pyx_PySequence_Tuple(obj)\ (likely(PyTuple_CheckExact(obj)) ? __Pyx_NewRef(obj) : PySequence_Tuple(obj)) static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); #if CYTHON_ASSUME_SAFE_MACROS #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) #if PY_MAJOR_VERSION >= 3 #define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x)) #else #define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x)) #endif #define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x)) #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII static int __Pyx_sys_getdefaultencoding_not_ascii; static int __Pyx_init_sys_getdefaultencoding_params(void) { PyObject* sys; PyObject* default_encoding = NULL; PyObject* ascii_chars_u = NULL; PyObject* ascii_chars_b = NULL; const char* default_encoding_c; sys = PyImport_ImportModule("sys"); if (!sys) goto bad; default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL); Py_DECREF(sys); if (!default_encoding) goto bad; 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static void __Pyx_ZeroBuffer(Py_buffer* buf); static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info); static Py_ssize_t __Pyx_minusones[] = { -1, -1, -1, -1, -1, -1, -1, -1 }; static Py_ssize_t __Pyx_zeros[] = { 0, 0, 0, 0, 0, 0, 0, 0 }; /* BufferFallbackError.proto */ static void __Pyx_RaiseBufferFallbackError(void); /* DictGetItem.proto */ #if PY_MAJOR_VERSION >= 3 && !CYTHON_COMPILING_IN_PYPY static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { PyObject *value; value = PyDict_GetItemWithError(d, key); if (unlikely(!value)) { if (!PyErr_Occurred()) { PyObject* args = PyTuple_Pack(1, key); if (likely(args)) PyErr_SetObject(PyExc_KeyError, args); Py_XDECREF(args); } return NULL; } Py_INCREF(value); return value; } #else #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) #endif /* RaiseTooManyValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); /* RaiseNeedMoreValuesToUnpack.proto */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); 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#else #define __Pyx_PyErr_ExceptionMatches(err) PyErr_ExceptionMatches(err) #endif /* GetException.proto */ #if CYTHON_FAST_THREAD_STATE #define __Pyx_GetException(type, value, tb) __Pyx__GetException(__pyx_tstate, type, value, tb) static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb); #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); #endif /* SetupReduce.proto */ static int __Pyx_setup_reduce(PyObject* type_obj); /* Import.proto */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /* CLineInTraceback.proto */ #ifdef CYTHON_CLINE_IN_TRACEBACK #define __Pyx_CLineForTraceback(tstate, c_line) (((CYTHON_CLINE_IN_TRACEBACK)) ? c_line : 0) #else static int __Pyx_CLineForTraceback(PyThreadState *tstate, int c_line); #endif /* CodeObjectCache.proto */ typedef struct { PyCodeObject* code_object; int code_line; } __Pyx_CodeObjectCacheEntry; struct __Pyx_CodeObjectCache { int count; int max_count; __Pyx_CodeObjectCacheEntry* entries; }; static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); static PyCodeObject *__pyx_find_code_object(int code_line); static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); /* AddTraceback.proto */ static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename); /* BufferStructDeclare.proto */ typedef struct { Py_ssize_t shape, strides, suboffsets; } __Pyx_Buf_DimInfo; typedef struct { size_t refcount; Py_buffer pybuffer; } __Pyx_Buffer; typedef struct { __Pyx_Buffer *rcbuffer; char *data; __Pyx_Buf_DimInfo diminfo[8]; } __Pyx_LocalBuf_ND; #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags); static void __Pyx_ReleaseBuffer(Py_buffer *view); #else #define __Pyx_GetBuffer PyObject_GetBuffer #define __Pyx_ReleaseBuffer PyBuffer_Release #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_uint32_t(uint32_t value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int8_t(int8_t value); /* RealImag.proto */ #if CYTHON_CCOMPLEX #ifdef __cplusplus #define __Pyx_CREAL(z) ((z).real()) #define __Pyx_CIMAG(z) ((z).imag()) #else #define __Pyx_CREAL(z) (__real__(z)) #define __Pyx_CIMAG(z) (__imag__(z)) #endif #else #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif #if defined(__cplusplus) && CYTHON_CCOMPLEX\ && (defined(_WIN32) || defined(__clang__) || (defined(__GNUC__) && (__GNUC__ >= 5 || __GNUC__ == 4 && __GNUC_MINOR__ >= 4 )) || __cplusplus >= 201103) #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_float(a, b) ((a)==(b)) #define __Pyx_c_sum_float(a, b) ((a)+(b)) #define __Pyx_c_diff_float(a, b) ((a)-(b)) #define __Pyx_c_prod_float(a, b) ((a)*(b)) #define __Pyx_c_quot_float(a, b) ((a)/(b)) #define __Pyx_c_neg_float(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_float(z) ((z)==(float)0) #define __Pyx_c_conj_float(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_float(z) (::std::abs(z)) #define __Pyx_c_pow_float(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_float(z) ((z)==0) #define __Pyx_c_conj_float(z) (conjf(z)) #if 1 #define __Pyx_c_abs_float(z) (cabsf(z)) #define __Pyx_c_pow_float(a, b) (cpowf(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex, __pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex); static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex); #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex); static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex, __pyx_t_float_complex); #endif #endif /* Arithmetic.proto */ #if CYTHON_CCOMPLEX #define __Pyx_c_eq_double(a, b) ((a)==(b)) #define __Pyx_c_sum_double(a, b) ((a)+(b)) #define __Pyx_c_diff_double(a, b) ((a)-(b)) #define __Pyx_c_prod_double(a, b) ((a)*(b)) #define __Pyx_c_quot_double(a, b) ((a)/(b)) #define __Pyx_c_neg_double(a) (-(a)) #ifdef __cplusplus #define __Pyx_c_is_zero_double(z) ((z)==(double)0) #define __Pyx_c_conj_double(z) (::std::conj(z)) #if 1 #define __Pyx_c_abs_double(z) (::std::abs(z)) #define __Pyx_c_pow_double(a, b) (::std::pow(a, b)) #endif #else #define __Pyx_c_is_zero_double(z) ((z)==0) #define __Pyx_c_conj_double(z) (conj(z)) #if 1 #define __Pyx_c_abs_double(z) (cabs(z)) #define __Pyx_c_pow_double(a, b) (cpow(a, b)) #endif #endif #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex, __pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex); static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex); #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex); static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex, __pyx_t_double_complex); #endif #endif /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value); /* CIntFromPy.proto */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); /* CIntFromPy.proto */ static CYTHON_INLINE uint32_t __Pyx_PyInt_As_uint32_t(PyObject *); /* CIntToPy.proto */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); /* CIntFromPy.proto */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); /* FastTypeChecks.proto */ #if CYTHON_COMPILING_IN_CPYTHON #define __Pyx_TypeCheck(obj, type) __Pyx_IsSubtype(Py_TYPE(obj), (PyTypeObject *)type) static CYTHON_INLINE int __Pyx_IsSubtype(PyTypeObject *a, PyTypeObject *b); static CYTHON_INLINE int __Pyx_PyErr_GivenExceptionMatches(PyObject *err, PyObject *type); static CYTHON_INLINE int __Pyx_PyErr_GivenExceptionMatches2(PyObject *err, PyObject *type1, PyObject *type2); #else #define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) #define __Pyx_PyErr_GivenExceptionMatches(err, type) PyErr_GivenExceptionMatches(err, type) #define __Pyx_PyErr_GivenExceptionMatches2(err, type1, type2) (PyErr_GivenExceptionMatches(err, type1) || PyErr_GivenExceptionMatches(err, type2)) #endif /* CheckBinaryVersion.proto */ static int __Pyx_check_binary_version(void); 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/*proto*/ __PYX_EXTERN_C DL_IMPORT(void) search_tree_double(struct __pyx_t_8pykdtree_6kdtree_tree_double *, double *, double *, uint32_t, uint32_t, double, double, uint8_t *, uint32_t *, double *); /*proto*/ __PYX_EXTERN_C DL_IMPORT(void) delete_tree_double(struct __pyx_t_8pykdtree_6kdtree_tree_double *); /*proto*/ static __Pyx_TypeInfo __Pyx_TypeInfo_float = { "float", NULL, sizeof(float), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_double = { "double", NULL, sizeof(double), { 0 }, 0, 'R', 0, 0 }; static __Pyx_TypeInfo __Pyx_TypeInfo_nn_uint32_t = { "uint32_t", NULL, sizeof(uint32_t), { 0 }, 0, IS_UNSIGNED(uint32_t) ? 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#else "%s() got multiple values for keyword argument '%s'", func_name, PyString_AsString(kw_name)); #endif } /* ParseKeywords */ static int __Pyx_ParseOptionalKeywords( PyObject *kwds, PyObject **argnames[], PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, const char* function_name) { PyObject *key = 0, *value = 0; Py_ssize_t pos = 0; PyObject*** name; PyObject*** first_kw_arg = argnames + num_pos_args; while (PyDict_Next(kwds, &pos, &key, &value)) { name = first_kw_arg; while (*name && (**name != key)) name++; if (*name) { values[name-argnames] = value; continue; } name = first_kw_arg; #if PY_MAJOR_VERSION < 3 if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { while (*name) { if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) && _PyString_Eq(**name, key)) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { if ((**argname == key) || ( (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) && _PyString_Eq(**argname, key))) { goto arg_passed_twice; } argname++; } } } else #endif if (likely(PyUnicode_Check(key))) { while (*name) { int cmp = (**name == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**name, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) { values[name-argnames] = value; break; } name++; } if (*name) continue; else { PyObject*** argname = argnames; while (argname != first_kw_arg) { int cmp = (**argname == key) ? 0 : #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : #endif PyUnicode_Compare(**argname, key); if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; if (cmp == 0) goto arg_passed_twice; argname++; } } } else goto invalid_keyword_type; if (kwds2) { if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; } else { goto invalid_keyword; } } return 0; arg_passed_twice: __Pyx_RaiseDoubleKeywordsError(function_name, key); goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", function_name, key); #endif bad: return -1; } /* ArgTypeTest */ static int __Pyx__ArgTypeTest(PyObject *obj, PyTypeObject *type, const char *name, int exact) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } else if (exact) { #if PY_MAJOR_VERSION == 2 if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; #endif } else { if (likely(__Pyx_TypeCheck(obj, type))) return 1; } PyErr_Format(PyExc_TypeError, "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", name, type->tp_name, Py_TYPE(obj)->tp_name); return 0; } /* PyObjectCall */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; ternaryfunc call = func->ob_type->tp_call; if (unlikely(!call)) return PyObject_Call(func, arg, kw); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = (*call)(func, arg, kw); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyErrFetchRestore */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; tmp_type = tstate->curexc_type; tmp_value = tstate->curexc_value; tmp_tb = tstate->curexc_traceback; tstate->curexc_type = type; tstate->curexc_value = value; tstate->curexc_traceback = tb; Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { *type = tstate->curexc_type; *value = tstate->curexc_value; *tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; } #endif /* RaiseException */ #if PY_MAJOR_VERSION < 3 static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, CYTHON_UNUSED PyObject *cause) { __Pyx_PyThreadState_declare Py_XINCREF(type); if (!value || value == Py_None) value = NULL; else Py_INCREF(value); if (!tb || tb == Py_None) tb = NULL; else { Py_INCREF(tb); if (!PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto raise_error; } } if (PyType_Check(type)) { #if CYTHON_COMPILING_IN_PYPY if (!value) { Py_INCREF(Py_None); value = Py_None; } #endif PyErr_NormalizeException(&type, &value, &tb); } else { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto raise_error; } value = type; type = (PyObject*) Py_TYPE(type); Py_INCREF(type); if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto raise_error; } } __Pyx_PyThreadState_assign __Pyx_ErrRestore(type, value, tb); return; raise_error: Py_XDECREF(value); Py_XDECREF(type); Py_XDECREF(tb); return; } #else static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { PyObject* owned_instance = NULL; if (tb == Py_None) { tb = 0; } else if (tb && !PyTraceBack_Check(tb)) { PyErr_SetString(PyExc_TypeError, "raise: arg 3 must be a traceback or None"); goto bad; } if (value == Py_None) value = 0; if (PyExceptionInstance_Check(type)) { if (value) { PyErr_SetString(PyExc_TypeError, "instance exception may not have a separate value"); goto bad; } value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { PyObject *instance_class = NULL; if (value && PyExceptionInstance_Check(value)) { instance_class = (PyObject*) Py_TYPE(value); if (instance_class != type) { int is_subclass = PyObject_IsSubclass(instance_class, type); if (!is_subclass) { instance_class = NULL; } else if (unlikely(is_subclass == -1)) { goto bad; } else { type = instance_class; } } } if (!instance_class) { PyObject *args; if (!value) args = PyTuple_New(0); else if (PyTuple_Check(value)) { Py_INCREF(value); args = value; } else args = PyTuple_Pack(1, value); if (!args) goto bad; owned_instance = PyObject_Call(type, args, NULL); Py_DECREF(args); if (!owned_instance) goto bad; value = owned_instance; if (!PyExceptionInstance_Check(value)) { PyErr_Format(PyExc_TypeError, "calling %R should have returned an instance of " "BaseException, not %R", type, Py_TYPE(value)); goto bad; } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } if (cause) { PyObject *fixed_cause; if (cause == Py_None) { fixed_cause = NULL; } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); goto bad; } PyException_SetCause(value, fixed_cause); } PyErr_SetObject(type, value); if (tb) { #if CYTHON_COMPILING_IN_PYPY PyObject *tmp_type, *tmp_value, *tmp_tb; PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb); Py_INCREF(tb); PyErr_Restore(tmp_type, tmp_value, tb); Py_XDECREF(tmp_tb); #else PyThreadState *tstate = __Pyx_PyThreadState_Current; PyObject* tmp_tb = tstate->curexc_traceback; if (tb != tmp_tb) { Py_INCREF(tb); tstate->curexc_traceback = tb; Py_XDECREF(tmp_tb); } #endif } bad: Py_XDECREF(owned_instance); return; } #endif /* GetModuleGlobalName */ static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; #if !CYTHON_AVOID_BORROWED_REFS result = PyDict_GetItem(__pyx_d, name); if (likely(result)) { Py_INCREF(result); } else { #else result = PyObject_GetItem(__pyx_d, name); if (!result) { PyErr_Clear(); #endif result = __Pyx_GetBuiltinName(name); } return result; } /* PyCFunctionFastCall */ #if CYTHON_FAST_PYCCALL static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) { PyCFunctionObject *func = (PyCFunctionObject*)func_obj; PyCFunction meth = PyCFunction_GET_FUNCTION(func); PyObject *self = PyCFunction_GET_SELF(func); int flags = PyCFunction_GET_FLAGS(func); assert(PyCFunction_Check(func)); assert(METH_FASTCALL == (flags & ~(METH_CLASS | METH_STATIC | METH_COEXIST | METH_KEYWORDS))); assert(nargs >= 0); assert(nargs == 0 || args != NULL); /* _PyCFunction_FastCallDict() must not be called with an exception set, because it may clear it (directly or indirectly) and so the caller loses its exception */ assert(!PyErr_Occurred()); if ((PY_VERSION_HEX < 0x030700A0) || unlikely(flags & METH_KEYWORDS)) { return (*((__Pyx_PyCFunctionFastWithKeywords)meth)) (self, args, nargs, NULL); } else { return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs); } } #endif /* PyFunctionFastCall */ #if CYTHON_FAST_PYCALL #include "frameobject.h" static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na, PyObject *globals) { PyFrameObject *f; PyThreadState *tstate = __Pyx_PyThreadState_Current; PyObject **fastlocals; Py_ssize_t i; PyObject *result; assert(globals != NULL); /* XXX Perhaps we should create a specialized PyFrame_New() that doesn't take locals, but does take builtins without sanity checking them. */ assert(tstate != NULL); f = PyFrame_New(tstate, co, globals, NULL); if (f == NULL) { return NULL; } fastlocals = f->f_localsplus; for (i = 0; i < na; i++) { Py_INCREF(*args); fastlocals[i] = *args++; } result = PyEval_EvalFrameEx(f,0); ++tstate->recursion_depth; Py_DECREF(f); --tstate->recursion_depth; return result; } #if 1 || PY_VERSION_HEX < 0x030600B1 static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) { PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func); PyObject *globals = PyFunction_GET_GLOBALS(func); PyObject *argdefs = PyFunction_GET_DEFAULTS(func); PyObject *closure; #if PY_MAJOR_VERSION >= 3 PyObject *kwdefs; #endif PyObject *kwtuple, **k; PyObject **d; Py_ssize_t nd; Py_ssize_t nk; PyObject *result; assert(kwargs == NULL || PyDict_Check(kwargs)); nk = kwargs ? PyDict_Size(kwargs) : 0; if (Py_EnterRecursiveCall((char*)" while calling a Python object")) { return NULL; } if ( #if PY_MAJOR_VERSION >= 3 co->co_kwonlyargcount == 0 && #endif likely(kwargs == NULL || nk == 0) && co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) { if (argdefs == NULL && co->co_argcount == nargs) { result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals); goto done; } else if (nargs == 0 && argdefs != NULL && co->co_argcount == Py_SIZE(argdefs)) { /* function called with no arguments, but all parameters have a default value: use default values as arguments .*/ args = &PyTuple_GET_ITEM(argdefs, 0); result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals); goto done; } } if (kwargs != NULL) { Py_ssize_t pos, i; kwtuple = PyTuple_New(2 * nk); if (kwtuple == NULL) { result = NULL; goto done; } k = &PyTuple_GET_ITEM(kwtuple, 0); pos = i = 0; while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) { Py_INCREF(k[i]); Py_INCREF(k[i+1]); i += 2; } nk = i / 2; } else { kwtuple = NULL; k = NULL; } closure = PyFunction_GET_CLOSURE(func); #if PY_MAJOR_VERSION >= 3 kwdefs = PyFunction_GET_KW_DEFAULTS(func); #endif if (argdefs != NULL) { d = &PyTuple_GET_ITEM(argdefs, 0); nd = Py_SIZE(argdefs); } else { d = NULL; nd = 0; } #if PY_MAJOR_VERSION >= 3 result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, kwdefs, closure); #else result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL, args, nargs, k, (int)nk, d, (int)nd, closure); #endif Py_XDECREF(kwtuple); done: Py_LeaveRecursiveCall(); return result; } #endif #endif /* PyObjectCallMethO */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { PyObject *self, *result; PyCFunction cfunc; cfunc = PyCFunction_GET_FUNCTION(func); self = PyCFunction_GET_SELF(func); if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) return NULL; result = cfunc(self, arg); Py_LeaveRecursiveCall(); if (unlikely(!result) && unlikely(!PyErr_Occurred())) { PyErr_SetString( PyExc_SystemError, "NULL result without error in PyObject_Call"); } return result; } #endif /* PyObjectCallOneArg */ #if CYTHON_COMPILING_IN_CPYTHON static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_New(1); if (unlikely(!args)) return NULL; Py_INCREF(arg); PyTuple_SET_ITEM(args, 0, arg); result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, &arg, 1); } #endif if (likely(PyCFunction_Check(func))) { if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { return __Pyx_PyObject_CallMethO(func, arg); #if CYTHON_FAST_PYCCALL } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) { return __Pyx_PyCFunction_FastCall(func, &arg, 1); #endif } } return __Pyx__PyObject_CallOneArg(func, arg); } #else static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { PyObject *result; PyObject *args = PyTuple_Pack(1, arg); if (unlikely(!args)) return NULL; result = __Pyx_PyObject_Call(func, args, NULL); Py_DECREF(args); return result; } #endif /* PyObjectCallNoArg */ #if CYTHON_COMPILING_IN_CPYTHON static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { #if CYTHON_FAST_PYCALL if (PyFunction_Check(func)) { return __Pyx_PyFunction_FastCall(func, NULL, 0); } #endif #ifdef __Pyx_CyFunction_USED if (likely(PyCFunction_Check(func) || __Pyx_TypeCheck(func, __pyx_CyFunctionType))) { #else if (likely(PyCFunction_Check(func))) { #endif if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { return __Pyx_PyObject_CallMethO(func, NULL); } } return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); } #endif /* ExtTypeTest */ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(__Pyx_TypeCheck(obj, type))) return 1; PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", Py_TYPE(obj)->tp_name, type->tp_name); return 0; } /* IsLittleEndian */ static CYTHON_INLINE int __Pyx_Is_Little_Endian(void) { union { uint32_t u32; uint8_t u8[4]; } S; S.u32 = 0x01020304; return S.u8[0] == 4; } /* BufferFormatCheck */ static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx, __Pyx_BufFmt_StackElem* stack, __Pyx_TypeInfo* type) { stack[0].field = &ctx->root; stack[0].parent_offset = 0; ctx->root.type = type; ctx->root.name = "buffer dtype"; ctx->root.offset = 0; ctx->head = stack; ctx->head->field = &ctx->root; ctx->fmt_offset = 0; ctx->head->parent_offset = 0; ctx->new_packmode = '@'; ctx->enc_packmode = '@'; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->is_complex = 0; ctx->is_valid_array = 0; ctx->struct_alignment = 0; while (type->typegroup == 'S') { ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = 0; type = type->fields->type; } } static int __Pyx_BufFmt_ParseNumber(const char** ts) { int count; const char* t = *ts; if (*t < '0' || *t > '9') { return -1; } else { count = *t++ - '0'; while (*t >= '0' && *t < '9') { count *= 10; count += *t++ - '0'; } } *ts = t; return count; } static int __Pyx_BufFmt_ExpectNumber(const char **ts) { int number = __Pyx_BufFmt_ParseNumber(ts); if (number == -1) PyErr_Format(PyExc_ValueError,\ "Does not understand character buffer dtype format string ('%c')", **ts); return number; } static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) { PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%c'", ch); } static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) { switch (ch) { case 'c': return "'char'"; case 'b': return "'signed char'"; case 'B': return "'unsigned char'"; case 'h': return "'short'"; case 'H': return "'unsigned short'"; case 'i': return "'int'"; case 'I': return "'unsigned int'"; case 'l': return "'long'"; case 'L': return "'unsigned long'"; case 'q': return "'long long'"; case 'Q': return "'unsigned long long'"; case 'f': return (is_complex ? "'complex float'" : "'float'"); case 'd': return (is_complex ? "'complex double'" : "'double'"); case 'g': return (is_complex ? "'complex long double'" : "'long double'"); case 'T': return "a struct"; case 'O': return "Python object"; case 'P': return "a pointer"; case 's': case 'p': return "a string"; case 0: return "end"; default: return "unparseable format string"; } } static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return 2; case 'i': case 'I': case 'l': case 'L': return 4; case 'q': case 'Q': return 8; case 'f': return (is_complex ? 8 : 4); case 'd': return (is_complex ? 16 : 8); case 'g': { PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g').."); return 0; } case 'O': case 'P': return sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) { switch (ch) { case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(short); case 'i': case 'I': return sizeof(int); case 'l': case 'L': return sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(float) * (is_complex ? 2 : 1); case 'd': return sizeof(double) * (is_complex ? 2 : 1); case 'g': return sizeof(long double) * (is_complex ? 2 : 1); case 'O': case 'P': return sizeof(void*); default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } typedef struct { char c; short x; } __Pyx_st_short; typedef struct { char c; int x; } __Pyx_st_int; typedef struct { char c; long x; } __Pyx_st_long; typedef struct { char c; float x; } __Pyx_st_float; typedef struct { char c; double x; } __Pyx_st_double; typedef struct { char c; long double x; } __Pyx_st_longdouble; typedef struct { char c; void *x; } __Pyx_st_void_p; #ifdef HAVE_LONG_LONG typedef struct { char c; PY_LONG_LONG x; } __Pyx_st_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_st_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_st_float) - sizeof(float); case 'd': return sizeof(__Pyx_st_double) - sizeof(double); case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } /* These are for computing the padding at the end of the struct to align on the first member of the struct. This will probably the same as above, but we don't have any guarantees. */ typedef struct { short x; char c; } __Pyx_pad_short; typedef struct { int x; char c; } __Pyx_pad_int; typedef struct { long x; char c; } __Pyx_pad_long; typedef struct { float x; char c; } __Pyx_pad_float; typedef struct { double x; char c; } __Pyx_pad_double; typedef struct { long double x; char c; } __Pyx_pad_longdouble; typedef struct { void *x; char c; } __Pyx_pad_void_p; #ifdef HAVE_LONG_LONG typedef struct { PY_LONG_LONG x; char c; } __Pyx_pad_longlong; #endif static size_t __Pyx_BufFmt_TypeCharToPadding(char ch, CYTHON_UNUSED int is_complex) { switch (ch) { case '?': case 'c': case 'b': case 'B': case 's': case 'p': return 1; case 'h': case 'H': return sizeof(__Pyx_pad_short) - sizeof(short); case 'i': case 'I': return sizeof(__Pyx_pad_int) - sizeof(int); case 'l': case 'L': return sizeof(__Pyx_pad_long) - sizeof(long); #ifdef HAVE_LONG_LONG case 'q': case 'Q': return sizeof(__Pyx_pad_longlong) - sizeof(PY_LONG_LONG); #endif case 'f': return sizeof(__Pyx_pad_float) - sizeof(float); case 'd': return sizeof(__Pyx_pad_double) - sizeof(double); case 'g': return sizeof(__Pyx_pad_longdouble) - sizeof(long double); case 'P': case 'O': return sizeof(__Pyx_pad_void_p) - sizeof(void*); default: __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } static char __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) { switch (ch) { case 'c': return 'H'; case 'b': case 'h': case 'i': case 'l': case 'q': case 's': case 'p': return 'I'; case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U'; case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R'); case 'O': return 'O'; case 'P': return 'P'; default: { __Pyx_BufFmt_RaiseUnexpectedChar(ch); return 0; } } } static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) { if (ctx->head == NULL || ctx->head->field == &ctx->root) { const char* expected; const char* quote; if (ctx->head == NULL) { expected = "end"; quote = ""; } else { expected = ctx->head->field->type->name; quote = "'"; } PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected %s%s%s but got %s", quote, expected, quote, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex)); } else { __Pyx_StructField* field = ctx->head->field; __Pyx_StructField* parent = (ctx->head - 1)->field; PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'", field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex), parent->type->name, field->name); } } static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) { char group; size_t size, offset, arraysize = 1; if (ctx->enc_type == 0) return 0; if (ctx->head->field->type->arraysize[0]) { int i, ndim = 0; if (ctx->enc_type == 's' || ctx->enc_type == 'p') { ctx->is_valid_array = ctx->head->field->type->ndim == 1; ndim = 1; if (ctx->enc_count != ctx->head->field->type->arraysize[0]) { PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %zu", ctx->head->field->type->arraysize[0], ctx->enc_count); return -1; } } if (!ctx->is_valid_array) { PyErr_Format(PyExc_ValueError, "Expected %d dimensions, got %d", ctx->head->field->type->ndim, ndim); return -1; } for (i = 0; i < ctx->head->field->type->ndim; i++) { arraysize *= ctx->head->field->type->arraysize[i]; } ctx->is_valid_array = 0; ctx->enc_count = 1; } group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex); do { __Pyx_StructField* field = ctx->head->field; __Pyx_TypeInfo* type = field->type; if (ctx->enc_packmode == '@' || ctx->enc_packmode == '^') { size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex); } else { size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex); } if (ctx->enc_packmode == '@') { size_t align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex); size_t align_mod_offset; if (align_at == 0) return -1; align_mod_offset = ctx->fmt_offset % align_at; if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset; if (ctx->struct_alignment == 0) ctx->struct_alignment = __Pyx_BufFmt_TypeCharToPadding(ctx->enc_type, ctx->is_complex); } if (type->size != size || type->typegroup != group) { if (type->typegroup == 'C' && type->fields != NULL) { size_t parent_offset = ctx->head->parent_offset + field->offset; ++ctx->head; ctx->head->field = type->fields; ctx->head->parent_offset = parent_offset; continue; } if ((type->typegroup == 'H' || group == 'H') && type->size == size) { } else { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } } offset = ctx->head->parent_offset + field->offset; if (ctx->fmt_offset != offset) { PyErr_Format(PyExc_ValueError, "Buffer dtype mismatch; next field is at offset %" CYTHON_FORMAT_SSIZE_T "d but %" CYTHON_FORMAT_SSIZE_T "d expected", (Py_ssize_t)ctx->fmt_offset, (Py_ssize_t)offset); return -1; } ctx->fmt_offset += size; if (arraysize) ctx->fmt_offset += (arraysize - 1) * size; --ctx->enc_count; while (1) { if (field == &ctx->root) { ctx->head = NULL; if (ctx->enc_count != 0) { __Pyx_BufFmt_RaiseExpected(ctx); return -1; } break; } ctx->head->field = ++field; if (field->type == NULL) { --ctx->head; field = ctx->head->field; continue; } else if (field->type->typegroup == 'S') { size_t parent_offset = ctx->head->parent_offset + field->offset; if (field->type->fields->type == NULL) continue; field = field->type->fields; ++ctx->head; ctx->head->field = field; ctx->head->parent_offset = parent_offset; break; } else { break; } } } while (ctx->enc_count); ctx->enc_type = 0; ctx->is_complex = 0; return 0; } static PyObject * __pyx_buffmt_parse_array(__Pyx_BufFmt_Context* ctx, const char** tsp) { const char *ts = *tsp; int i = 0, number; int ndim = ctx->head->field->type->ndim; ; ++ts; if (ctx->new_count != 1) { PyErr_SetString(PyExc_ValueError, "Cannot handle repeated arrays in format string"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; while (*ts && *ts != ')') { switch (*ts) { case ' ': case '\f': case '\r': case '\n': case '\t': case '\v': continue; default: break; } number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; if (i < ndim && (size_t) number != ctx->head->field->type->arraysize[i]) return PyErr_Format(PyExc_ValueError, "Expected a dimension of size %zu, got %d", ctx->head->field->type->arraysize[i], number); if (*ts != ',' && *ts != ')') return PyErr_Format(PyExc_ValueError, "Expected a comma in format string, got '%c'", *ts); if (*ts == ',') ts++; i++; } if (i != ndim) return PyErr_Format(PyExc_ValueError, "Expected %d dimension(s), got %d", ctx->head->field->type->ndim, i); if (!*ts) { PyErr_SetString(PyExc_ValueError, "Unexpected end of format string, expected ')'"); return NULL; } ctx->is_valid_array = 1; ctx->new_count = 1; *tsp = ++ts; return Py_None; } static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) { int got_Z = 0; while (1) { switch(*ts) { case 0: if (ctx->enc_type != 0 && ctx->head == NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; if (ctx->head != NULL) { __Pyx_BufFmt_RaiseExpected(ctx); return NULL; } return ts; case ' ': case '\r': case '\n': ++ts; break; case '<': if (!__Pyx_Is_Little_Endian()) { PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '>': case '!': if (__Pyx_Is_Little_Endian()) { PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler"); return NULL; } ctx->new_packmode = '='; ++ts; break; case '=': case '@': case '^': ctx->new_packmode = *ts++; break; case 'T': { const char* ts_after_sub; size_t i, struct_count = ctx->new_count; size_t struct_alignment = ctx->struct_alignment; ctx->new_count = 1; ++ts; if (*ts != '{') { PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'"); return NULL; } if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; ctx->enc_count = 0; ctx->struct_alignment = 0; ++ts; ts_after_sub = ts; for (i = 0; i != struct_count; ++i) { ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts); if (!ts_after_sub) return NULL; } ts = ts_after_sub; if (struct_alignment) ctx->struct_alignment = struct_alignment; } break; case '}': { size_t alignment = ctx->struct_alignment; ++ts; if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_type = 0; if (alignment && ctx->fmt_offset % alignment) { ctx->fmt_offset += alignment - (ctx->fmt_offset % alignment); } } return ts; case 'x': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->fmt_offset += ctx->new_count; ctx->new_count = 1; ctx->enc_count = 0; ctx->enc_type = 0; ctx->enc_packmode = ctx->new_packmode; ++ts; break; case 'Z': got_Z = 1; ++ts; if (*ts != 'f' && *ts != 'd' && *ts != 'g') { __Pyx_BufFmt_RaiseUnexpectedChar('Z'); return NULL; } case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I': case 'l': case 'L': case 'q': case 'Q': case 'f': case 'd': case 'g': case 'O': case 'p': if (ctx->enc_type == *ts && got_Z == ctx->is_complex && ctx->enc_packmode == ctx->new_packmode) { ctx->enc_count += ctx->new_count; ctx->new_count = 1; got_Z = 0; ++ts; break; } case 's': if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL; ctx->enc_count = ctx->new_count; ctx->enc_packmode = ctx->new_packmode; ctx->enc_type = *ts; ctx->is_complex = got_Z; ++ts; ctx->new_count = 1; got_Z = 0; break; case ':': ++ts; while(*ts != ':') ++ts; ++ts; break; case '(': if (!__pyx_buffmt_parse_array(ctx, &ts)) return NULL; break; default: { int number = __Pyx_BufFmt_ExpectNumber(&ts); if (number == -1) return NULL; ctx->new_count = (size_t)number; } } } } /* BufferGetAndValidate */ static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) { if (unlikely(info->buf == NULL)) return; if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL; __Pyx_ReleaseBuffer(info); } static void __Pyx_ZeroBuffer(Py_buffer* buf) { buf->buf = NULL; buf->obj = NULL; buf->strides = __Pyx_zeros; buf->shape = __Pyx_zeros; buf->suboffsets = __Pyx_minusones; } static int __Pyx__GetBufferAndValidate( Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) { buf->buf = NULL; if (unlikely(__Pyx_GetBuffer(obj, buf, flags) == -1)) { __Pyx_ZeroBuffer(buf); return -1; } if (unlikely(buf->ndim != nd)) { PyErr_Format(PyExc_ValueError, "Buffer has wrong number of dimensions (expected %d, got %d)", nd, buf->ndim); goto fail; } if (!cast) { __Pyx_BufFmt_Context ctx; __Pyx_BufFmt_Init(&ctx, stack, dtype); if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail; } if (unlikely((unsigned)buf->itemsize != dtype->size)) { PyErr_Format(PyExc_ValueError, "Item size of buffer (%" CYTHON_FORMAT_SSIZE_T "d byte%s) does not match size of '%s' (%" CYTHON_FORMAT_SSIZE_T "d byte%s)", buf->itemsize, (buf->itemsize > 1) ? "s" : "", dtype->name, (Py_ssize_t)dtype->size, (dtype->size > 1) ? "s" : ""); goto fail; } if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones; return 0; fail:; __Pyx_SafeReleaseBuffer(buf); return -1; } /* BufferFallbackError */ static void __Pyx_RaiseBufferFallbackError(void) { PyErr_SetString(PyExc_ValueError, "Buffer acquisition failed on assignment; and then reacquiring the old buffer failed too!"); } /* RaiseTooManyValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); } /* RaiseNeedMoreValuesToUnpack */ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } /* RaiseNoneIterError */ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } /* SaveResetException */ #if CYTHON_FAST_THREAD_STATE static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #if PY_VERSION_HEX >= 0x030700A2 *type = tstate->exc_state.exc_type; *value = tstate->exc_state.exc_value; *tb = tstate->exc_state.exc_traceback; #else *type = tstate->exc_type; *value = tstate->exc_value; *tb = tstate->exc_traceback; #endif Py_XINCREF(*type); Py_XINCREF(*value); Py_XINCREF(*tb); } static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) { PyObject *tmp_type, *tmp_value, *tmp_tb; #if PY_VERSION_HEX >= 0x030700A2 tmp_type = tstate->exc_state.exc_type; tmp_value = tstate->exc_state.exc_value; tmp_tb = tstate->exc_state.exc_traceback; tstate->exc_state.exc_type = type; tstate->exc_state.exc_value = value; tstate->exc_state.exc_traceback = tb; #else tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = type; tstate->exc_value = value; tstate->exc_traceback = tb; #endif Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); } #endif /* PyErrExceptionMatches */ #if CYTHON_FAST_THREAD_STATE static int __Pyx_PyErr_ExceptionMatchesTuple(PyObject *exc_type, PyObject *tuple) { Py_ssize_t i, n; n = PyTuple_GET_SIZE(tuple); #if PY_MAJOR_VERSION >= 3 for (i=0; icurexc_type; if (exc_type == err) return 1; if (unlikely(!exc_type)) return 0; if (unlikely(PyTuple_Check(err))) return __Pyx_PyErr_ExceptionMatchesTuple(exc_type, err); return __Pyx_PyErr_GivenExceptionMatches(exc_type, err); } #endif /* GetException */ #if CYTHON_FAST_THREAD_STATE static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) { #else static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { #endif PyObject *local_type, *local_value, *local_tb; #if CYTHON_FAST_THREAD_STATE PyObject *tmp_type, *tmp_value, *tmp_tb; local_type = tstate->curexc_type; local_value = tstate->curexc_value; local_tb = tstate->curexc_traceback; tstate->curexc_type = 0; tstate->curexc_value = 0; tstate->curexc_traceback = 0; #else PyErr_Fetch(&local_type, &local_value, &local_tb); #endif PyErr_NormalizeException(&local_type, &local_value, &local_tb); #if CYTHON_FAST_THREAD_STATE if (unlikely(tstate->curexc_type)) #else if (unlikely(PyErr_Occurred())) #endif goto bad; #if PY_MAJOR_VERSION >= 3 if (local_tb) { if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) goto bad; } #endif Py_XINCREF(local_tb); Py_XINCREF(local_type); Py_XINCREF(local_value); *type = local_type; *value = local_value; *tb = local_tb; #if CYTHON_FAST_THREAD_STATE #if PY_VERSION_HEX >= 0x030700A2 tmp_type = tstate->exc_state.exc_type; tmp_value = tstate->exc_state.exc_value; tmp_tb = tstate->exc_state.exc_traceback; tstate->exc_state.exc_type = local_type; tstate->exc_state.exc_value = local_value; tstate->exc_state.exc_traceback = local_tb; #else tmp_type = tstate->exc_type; tmp_value = tstate->exc_value; tmp_tb = tstate->exc_traceback; tstate->exc_type = local_type; tstate->exc_value = local_value; tstate->exc_traceback = local_tb; #endif Py_XDECREF(tmp_type); Py_XDECREF(tmp_value); Py_XDECREF(tmp_tb); #else PyErr_SetExcInfo(local_type, local_value, local_tb); #endif return 0; bad: *type = 0; *value = 0; *tb = 0; Py_XDECREF(local_type); Py_XDECREF(local_value); Py_XDECREF(local_tb); return -1; } /* SetupReduce */ static int __Pyx_setup_reduce_is_named(PyObject* meth, PyObject* name) { int ret; PyObject *name_attr; name_attr = __Pyx_PyObject_GetAttrStr(meth, __pyx_n_s_name); if (likely(name_attr)) { ret = PyObject_RichCompareBool(name_attr, name, Py_EQ); } else { ret = -1; } if (unlikely(ret < 0)) { PyErr_Clear(); ret = 0; } Py_XDECREF(name_attr); return ret; } static int __Pyx_setup_reduce(PyObject* type_obj) { int ret = 0; PyObject *object_reduce = NULL; PyObject *object_reduce_ex = NULL; PyObject *reduce = NULL; PyObject *reduce_ex = NULL; PyObject *reduce_cython = NULL; PyObject *setstate = NULL; PyObject *setstate_cython = NULL; #if CYTHON_USE_PYTYPE_LOOKUP if (_PyType_Lookup((PyTypeObject*)type_obj, __pyx_n_s_getstate)) goto GOOD; #else if (PyObject_HasAttr(type_obj, __pyx_n_s_getstate)) goto GOOD; #endif #if CYTHON_USE_PYTYPE_LOOKUP object_reduce_ex = _PyType_Lookup(&PyBaseObject_Type, __pyx_n_s_reduce_ex); if (!object_reduce_ex) goto BAD; #else object_reduce_ex = __Pyx_PyObject_GetAttrStr((PyObject*)&PyBaseObject_Type, __pyx_n_s_reduce_ex); if (!object_reduce_ex) goto BAD; #endif reduce_ex = __Pyx_PyObject_GetAttrStr(type_obj, __pyx_n_s_reduce_ex); if (unlikely(!reduce_ex)) goto BAD; if (reduce_ex == object_reduce_ex) { #if CYTHON_USE_PYTYPE_LOOKUP object_reduce = _PyType_Lookup(&PyBaseObject_Type, __pyx_n_s_reduce); if (!object_reduce) goto BAD; #else object_reduce = __Pyx_PyObject_GetAttrStr((PyObject*)&PyBaseObject_Type, __pyx_n_s_reduce); if (!object_reduce) goto BAD; #endif reduce = __Pyx_PyObject_GetAttrStr(type_obj, __pyx_n_s_reduce); if (unlikely(!reduce)) goto BAD; if (reduce == object_reduce || __Pyx_setup_reduce_is_named(reduce, __pyx_n_s_reduce_cython)) { reduce_cython = __Pyx_PyObject_GetAttrStr(type_obj, __pyx_n_s_reduce_cython); if (unlikely(!reduce_cython)) goto BAD; ret = PyDict_SetItem(((PyTypeObject*)type_obj)->tp_dict, __pyx_n_s_reduce, reduce_cython); if (unlikely(ret < 0)) goto BAD; ret = PyDict_DelItem(((PyTypeObject*)type_obj)->tp_dict, __pyx_n_s_reduce_cython); if (unlikely(ret < 0)) goto BAD; setstate = __Pyx_PyObject_GetAttrStr(type_obj, __pyx_n_s_setstate); if (!setstate) PyErr_Clear(); if (!setstate || __Pyx_setup_reduce_is_named(setstate, __pyx_n_s_setstate_cython)) { setstate_cython = __Pyx_PyObject_GetAttrStr(type_obj, __pyx_n_s_setstate_cython); if (unlikely(!setstate_cython)) goto BAD; ret = PyDict_SetItem(((PyTypeObject*)type_obj)->tp_dict, __pyx_n_s_setstate, setstate_cython); if (unlikely(ret < 0)) goto BAD; ret = PyDict_DelItem(((PyTypeObject*)type_obj)->tp_dict, __pyx_n_s_setstate_cython); if (unlikely(ret < 0)) goto BAD; } PyType_Modified((PyTypeObject*)type_obj); } } goto GOOD; BAD: if (!PyErr_Occurred()) PyErr_Format(PyExc_RuntimeError, "Unable to initialize pickling for %s", ((PyTypeObject*)type_obj)->tp_name); ret = -1; GOOD: #if !CYTHON_USE_PYTYPE_LOOKUP Py_XDECREF(object_reduce); Py_XDECREF(object_reduce_ex); #endif Py_XDECREF(reduce); Py_XDECREF(reduce_ex); Py_XDECREF(reduce_cython); Py_XDECREF(setstate); Py_XDECREF(setstate_cython); return ret; } /* Import */ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; #if PY_MAJOR_VERSION < 3 PyObject *py_import; py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; #endif if (from_list) list = from_list; else { empty_list = PyList_New(0); if (!empty_list) goto bad; list = empty_list; } global_dict = PyModule_GetDict(__pyx_m); if (!global_dict) goto bad; empty_dict = PyDict_New(); if (!empty_dict) goto bad; { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, 1); if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } level = 0; } #endif if (!module) { #if PY_MAJOR_VERSION < 3 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); #else module = PyImport_ImportModuleLevelObject( name, global_dict, empty_dict, list, level); #endif } } bad: #if PY_MAJOR_VERSION < 3 Py_XDECREF(py_import); #endif Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } /* CLineInTraceback */ #ifndef CYTHON_CLINE_IN_TRACEBACK static int __Pyx_CLineForTraceback(CYTHON_UNUSED PyThreadState *tstate, int c_line) { PyObject *use_cline; PyObject *ptype, *pvalue, *ptraceback; #if CYTHON_COMPILING_IN_CPYTHON PyObject **cython_runtime_dict; #endif __Pyx_ErrFetchInState(tstate, &ptype, &pvalue, &ptraceback); #if CYTHON_COMPILING_IN_CPYTHON cython_runtime_dict = _PyObject_GetDictPtr(__pyx_cython_runtime); if (likely(cython_runtime_dict)) { use_cline = PyDict_GetItem(*cython_runtime_dict, __pyx_n_s_cline_in_traceback); } else #endif { PyObject *use_cline_obj = __Pyx_PyObject_GetAttrStr(__pyx_cython_runtime, __pyx_n_s_cline_in_traceback); if (use_cline_obj) { use_cline = PyObject_Not(use_cline_obj) ? Py_False : Py_True; Py_DECREF(use_cline_obj); } else { PyErr_Clear(); use_cline = NULL; } } if (!use_cline) { c_line = 0; PyObject_SetAttr(__pyx_cython_runtime, __pyx_n_s_cline_in_traceback, Py_False); } else if (PyObject_Not(use_cline) != 0) { c_line = 0; } __Pyx_ErrRestoreInState(tstate, ptype, pvalue, ptraceback); return c_line; } #endif /* CodeObjectCache */ static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { int start = 0, mid = 0, end = count - 1; if (end >= 0 && code_line > entries[end].code_line) { return count; } while (start < end) { mid = start + (end - start) / 2; if (code_line < entries[mid].code_line) { end = mid; } else if (code_line > entries[mid].code_line) { start = mid + 1; } else { return mid; } } if (code_line <= entries[mid].code_line) { return mid; } else { return mid + 1; } } static PyCodeObject *__pyx_find_code_object(int code_line) { PyCodeObject* code_object; int pos; if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { return NULL; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { return NULL; } code_object = __pyx_code_cache.entries[pos].code_object; Py_INCREF(code_object); return code_object; } static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { int pos, i; __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; if (unlikely(!code_line)) { return; } if (unlikely(!entries)) { entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); if (likely(entries)) { __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = 64; __pyx_code_cache.count = 1; entries[0].code_line = code_line; entries[0].code_object = code_object; Py_INCREF(code_object); } return; } pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { PyCodeObject* tmp = entries[pos].code_object; entries[pos].code_object = code_object; Py_DECREF(tmp); return; } if (__pyx_code_cache.count == __pyx_code_cache.max_count) { int new_max = __pyx_code_cache.max_count + 64; entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); if (unlikely(!entries)) { return; } __pyx_code_cache.entries = entries; __pyx_code_cache.max_count = new_max; } for (i=__pyx_code_cache.count; i>pos; i--) { entries[i] = entries[i-1]; } entries[pos].code_line = code_line; entries[pos].code_object = code_object; __pyx_code_cache.count++; Py_INCREF(code_object); } /* AddTraceback */ #include "compile.h" #include "frameobject.h" #include "traceback.h" static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyObject *py_srcfile = 0; PyObject *py_funcname = 0; #if PY_MAJOR_VERSION < 3 py_srcfile = PyString_FromString(filename); #else py_srcfile = PyUnicode_FromString(filename); #endif if (!py_srcfile) goto bad; if (c_line) { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #else py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); #endif } else { #if PY_MAJOR_VERSION < 3 py_funcname = PyString_FromString(funcname); #else py_funcname = PyUnicode_FromString(funcname); #endif } if (!py_funcname) goto bad; py_code = __Pyx_PyCode_New( 0, 0, 0, 0, 0, __pyx_empty_bytes, /*PyObject *code,*/ __pyx_empty_tuple, /*PyObject *consts,*/ __pyx_empty_tuple, /*PyObject *names,*/ __pyx_empty_tuple, /*PyObject *varnames,*/ __pyx_empty_tuple, /*PyObject *freevars,*/ __pyx_empty_tuple, /*PyObject *cellvars,*/ py_srcfile, /*PyObject *filename,*/ py_funcname, /*PyObject *name,*/ py_line, __pyx_empty_bytes /*PyObject *lnotab*/ ); Py_DECREF(py_srcfile); Py_DECREF(py_funcname); return py_code; bad: Py_XDECREF(py_srcfile); Py_XDECREF(py_funcname); return NULL; } static void __Pyx_AddTraceback(const char *funcname, int c_line, int py_line, const char *filename) { PyCodeObject *py_code = 0; PyFrameObject *py_frame = 0; PyThreadState *tstate = __Pyx_PyThreadState_Current; if (c_line) { c_line = __Pyx_CLineForTraceback(tstate, c_line); } py_code = __pyx_find_code_object(c_line ? -c_line : py_line); if (!py_code) { py_code = __Pyx_CreateCodeObjectForTraceback( funcname, c_line, py_line, filename); if (!py_code) goto bad; __pyx_insert_code_object(c_line ? -c_line : py_line, py_code); } py_frame = PyFrame_New( tstate, /*PyThreadState *tstate,*/ py_code, /*PyCodeObject *code,*/ __pyx_d, /*PyObject *globals,*/ 0 /*PyObject *locals*/ ); if (!py_frame) goto bad; __Pyx_PyFrame_SetLineNumber(py_frame, py_line); PyTraceBack_Here(py_frame); bad: Py_XDECREF(py_code); Py_XDECREF(py_frame); } #if PY_MAJOR_VERSION < 3 static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) { if (PyObject_CheckBuffer(obj)) return PyObject_GetBuffer(obj, view, flags); if (__Pyx_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) return __pyx_pw_5numpy_7ndarray_1__getbuffer__(obj, view, flags); PyErr_Format(PyExc_TypeError, "'%.200s' does not have the buffer interface", Py_TYPE(obj)->tp_name); return -1; } static void __Pyx_ReleaseBuffer(Py_buffer *view) { PyObject *obj = view->obj; if (!obj) return; if (PyObject_CheckBuffer(obj)) { PyBuffer_Release(view); return; } if ((0)) {} else if (__Pyx_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) __pyx_pw_5numpy_7ndarray_3__releasebuffer__(obj, view); view->obj = NULL; Py_DECREF(obj); } #endif /* CIntFromPyVerify */ #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0) #define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\ __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1) #define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\ {\ func_type value = func_value;\ if (sizeof(target_type) < sizeof(func_type)) {\ if (unlikely(value != (func_type) (target_type) value)) {\ func_type zero = 0;\ if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\ return (target_type) -1;\ if (is_unsigned && unlikely(value < zero))\ goto raise_neg_overflow;\ else\ goto raise_overflow;\ }\ }\ return (target_type) value;\ } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_uint32_t(uint32_t value) { const uint32_t neg_one = (uint32_t) -1, const_zero = (uint32_t) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(uint32_t) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(uint32_t) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(uint32_t) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(uint32_t) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(uint32_t) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(uint32_t), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int8_t(int8_t value) { const int8_t neg_one = (int8_t) -1, const_zero = (int8_t) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int8_t) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int8_t) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int8_t) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int8_t) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int8_t) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int8_t), little, !is_unsigned); } } /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return ::std::complex< float >(x, y); } #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { return x + y*(__pyx_t_float_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { __pyx_t_float_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sum_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_diff_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prod_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabsf(b.real) >= fabsf(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { float r = b.imag / b.real; float s = 1.0 / (b.real + b.imag * r); return __pyx_t_float_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { float r = b.real / b.imag; float s = 1.0 / (b.imag + b.real * r); return __pyx_t_float_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quot_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { if (b.imag == 0) { return __pyx_t_float_complex_from_parts(a.real / b.real, a.imag / b.real); } else { float denom = b.real * b.real + b.imag * b.imag; return __pyx_t_float_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_neg_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_float(__pyx_t_float_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conj_float(__pyx_t_float_complex a) { __pyx_t_float_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE float __Pyx_c_abs_float(__pyx_t_float_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrtf(z.real*z.real + z.imag*z.imag); #else return hypotf(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_pow_float(__pyx_t_float_complex a, __pyx_t_float_complex b) { __pyx_t_float_complex z; float r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { float denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(a, a); case 3: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, a); case 4: z = __Pyx_c_prod_float(a, a); return __Pyx_c_prod_float(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = powf(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2f(0, -1); } } else { r = __Pyx_c_abs_float(a); theta = atan2f(a.imag, a.real); } lnr = logf(r); z_r = expf(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cosf(z_theta); z.imag = z_r * sinf(z_theta); return z; } #endif #endif /* Declarations */ #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return ::std::complex< double >(x, y); } #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { return x + y*(__pyx_t_double_complex)_Complex_I; } #endif #else static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { __pyx_t_double_complex z; z.real = x; z.imag = y; return z; } #endif /* Arithmetic */ #if CYTHON_CCOMPLEX #else static CYTHON_INLINE int __Pyx_c_eq_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { return (a.real == b.real) && (a.imag == b.imag); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real + b.real; z.imag = a.imag + b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real - b.real; z.imag = a.imag - b.imag; return z; } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; z.real = a.real * b.real - a.imag * b.imag; z.imag = a.real * b.imag + a.imag * b.real; return z; } #if 1 static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else if (fabs(b.real) >= fabs(b.imag)) { if (b.real == 0 && b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.imag); } else { double r = b.imag / b.real; double s = 1.0 / (b.real + b.imag * r); return __pyx_t_double_complex_from_parts( (a.real + a.imag * r) * s, (a.imag - a.real * r) * s); } } else { double r = b.real / b.imag; double s = 1.0 / (b.imag + b.real * r); return __pyx_t_double_complex_from_parts( (a.real * r + a.imag) * s, (a.imag * r - a.real) * s); } } #else static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { if (b.imag == 0) { return __pyx_t_double_complex_from_parts(a.real / b.real, a.imag / b.real); } else { double denom = b.real * b.real + b.imag * b.imag; return __pyx_t_double_complex_from_parts( (a.real * b.real + a.imag * b.imag) / denom, (a.imag * b.real - a.real * b.imag) / denom); } } #endif static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = -a.real; z.imag = -a.imag; return z; } static CYTHON_INLINE int __Pyx_c_is_zero_double(__pyx_t_double_complex a) { return (a.real == 0) && (a.imag == 0); } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj_double(__pyx_t_double_complex a) { __pyx_t_double_complex z; z.real = a.real; z.imag = -a.imag; return z; } #if 1 static CYTHON_INLINE double __Pyx_c_abs_double(__pyx_t_double_complex z) { #if !defined(HAVE_HYPOT) || defined(_MSC_VER) return sqrt(z.real*z.real + z.imag*z.imag); #else return hypot(z.real, z.imag); #endif } static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow_double(__pyx_t_double_complex a, __pyx_t_double_complex b) { __pyx_t_double_complex z; double r, lnr, theta, z_r, z_theta; if (b.imag == 0 && b.real == (int)b.real) { if (b.real < 0) { double denom = a.real * a.real + a.imag * a.imag; a.real = a.real / denom; a.imag = -a.imag / denom; b.real = -b.real; } switch ((int)b.real) { case 0: z.real = 1; z.imag = 0; return z; case 1: return a; case 2: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(a, a); case 3: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, a); case 4: z = __Pyx_c_prod_double(a, a); return __Pyx_c_prod_double(z, z); } } if (a.imag == 0) { if (a.real == 0) { return a; } else if (b.imag == 0) { z.real = pow(a.real, b.real); z.imag = 0; return z; } else if (a.real > 0) { r = a.real; theta = 0; } else { r = -a.real; theta = atan2(0, -1); } } else { r = __Pyx_c_abs_double(a); theta = atan2(a.imag, a.real); } lnr = log(r); z_r = exp(lnr * b.real - theta * b.imag); z_theta = theta * b.real + lnr * b.imag; z.real = z_r * cos(z_theta); z.imag = z_r * sin(z_theta); return z; } #endif #endif /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(int) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(int) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(int) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(int), little, !is_unsigned); } } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_enum__NPY_TYPES(enum NPY_TYPES value) { const enum NPY_TYPES neg_one = (enum NPY_TYPES) -1, const_zero = (enum NPY_TYPES) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(enum NPY_TYPES) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(enum NPY_TYPES) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(enum NPY_TYPES) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(enum NPY_TYPES), little, !is_unsigned); } } /* CIntFromPy */ static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { const int neg_one = (int) -1, const_zero = (int) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(int) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (int) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case 1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0]) case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) { return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) { return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) { return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (int) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(int) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (int) 0; case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(int, digit, +digits[0]) case -2: if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 2: if (8 * sizeof(int) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -3: if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 3: if (8 * sizeof(int) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case -4: if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; case 4: if (8 * sizeof(int) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) { return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]))); } } break; } #endif if (sizeof(int) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else int val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (int) -1; } } else { int val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (int) -1; val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to int"); return (int) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to int"); return (int) -1; } /* CIntFromPy */ static CYTHON_INLINE uint32_t __Pyx_PyInt_As_uint32_t(PyObject *x) { const uint32_t neg_one = (uint32_t) -1, const_zero = (uint32_t) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(uint32_t) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(uint32_t, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (uint32_t) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (uint32_t) 0; case 1: __PYX_VERIFY_RETURN_INT(uint32_t, digit, digits[0]) case 2: if (8 * sizeof(uint32_t) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) >= 2 * PyLong_SHIFT) { return (uint32_t) (((((uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0])); } } break; case 3: if (8 * sizeof(uint32_t) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) >= 3 * PyLong_SHIFT) { return (uint32_t) (((((((uint32_t)digits[2]) << PyLong_SHIFT) | (uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0])); } } break; case 4: if (8 * sizeof(uint32_t) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) >= 4 * PyLong_SHIFT) { return (uint32_t) (((((((((uint32_t)digits[3]) << PyLong_SHIFT) | (uint32_t)digits[2]) << PyLong_SHIFT) | (uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (uint32_t) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(uint32_t) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(uint32_t, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(uint32_t) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(uint32_t, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (uint32_t) 0; case -1: __PYX_VERIFY_RETURN_INT(uint32_t, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(uint32_t, digit, +digits[0]) case -2: if (8 * sizeof(uint32_t) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) - 1 > 2 * PyLong_SHIFT) { return (uint32_t) (((uint32_t)-1)*(((((uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0]))); } } break; case 2: if (8 * sizeof(uint32_t) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) - 1 > 2 * PyLong_SHIFT) { return (uint32_t) ((((((uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0]))); } } break; case -3: if (8 * sizeof(uint32_t) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) - 1 > 3 * PyLong_SHIFT) { return (uint32_t) (((uint32_t)-1)*(((((((uint32_t)digits[2]) << PyLong_SHIFT) | (uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0]))); } } break; case 3: if (8 * sizeof(uint32_t) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) - 1 > 3 * PyLong_SHIFT) { return (uint32_t) ((((((((uint32_t)digits[2]) << PyLong_SHIFT) | (uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0]))); } } break; case -4: if (8 * sizeof(uint32_t) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) - 1 > 4 * PyLong_SHIFT) { return (uint32_t) (((uint32_t)-1)*(((((((((uint32_t)digits[3]) << PyLong_SHIFT) | (uint32_t)digits[2]) << PyLong_SHIFT) | (uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0]))); } } break; case 4: if (8 * sizeof(uint32_t) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(uint32_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(uint32_t) - 1 > 4 * PyLong_SHIFT) { return (uint32_t) ((((((((((uint32_t)digits[3]) << PyLong_SHIFT) | (uint32_t)digits[2]) << PyLong_SHIFT) | (uint32_t)digits[1]) << PyLong_SHIFT) | (uint32_t)digits[0]))); } } break; } #endif if (sizeof(uint32_t) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(uint32_t, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(uint32_t) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(uint32_t, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else uint32_t val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (uint32_t) -1; } } else { uint32_t val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (uint32_t) -1; val = __Pyx_PyInt_As_uint32_t(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to uint32_t"); return (uint32_t) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to uint32_t"); return (uint32_t) -1; } /* CIntToPy */ static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; if (is_unsigned) { if (sizeof(long) < sizeof(long)) { return PyInt_FromLong((long) value); } else if (sizeof(long) <= sizeof(unsigned long)) { return PyLong_FromUnsignedLong((unsigned long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value); #endif } } else { if (sizeof(long) <= sizeof(long)) { return PyInt_FromLong((long) value); #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { return PyLong_FromLongLong((PY_LONG_LONG) value); #endif } } { int one = 1; int little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(long), little, !is_unsigned); } } /* CIntFromPy */ static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { const long neg_one = (long) -1, const_zero = (long) 0; const int is_unsigned = neg_one > const_zero; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { if (sizeof(long) < sizeof(long)) { __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) } else { long val = PyInt_AS_LONG(x); if (is_unsigned && unlikely(val < 0)) { goto raise_neg_overflow; } return (long) val; } } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case 1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0]) case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) { return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) { return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) { return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])); } } break; } #endif #if CYTHON_COMPILING_IN_CPYTHON if (unlikely(Py_SIZE(x) < 0)) { goto raise_neg_overflow; } #else { int result = PyObject_RichCompareBool(x, Py_False, Py_LT); if (unlikely(result < 0)) return (long) -1; if (unlikely(result == 1)) goto raise_neg_overflow; } #endif if (sizeof(long) <= sizeof(unsigned long)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x)) #endif } } else { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)x)->ob_digit; switch (Py_SIZE(x)) { case 0: return (long) 0; case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0])) case 1: __PYX_VERIFY_RETURN_INT(long, digit, +digits[0]) case -2: if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 2: if (8 * sizeof(long) > 1 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -3: if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 3: if (8 * sizeof(long) > 2 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case -4: if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; case 4: if (8 * sizeof(long) > 3 * PyLong_SHIFT) { if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) { __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]))) } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) { return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]))); } } break; } #endif if (sizeof(long) <= sizeof(long)) { __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x)) #ifdef HAVE_LONG_LONG } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) { __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x)) #endif } } { #if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) PyErr_SetString(PyExc_RuntimeError, "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); #else long val; PyObject *v = __Pyx_PyNumber_IntOrLong(x); #if PY_MAJOR_VERSION < 3 if (likely(v) && !PyLong_Check(v)) { PyObject *tmp = v; v = PyNumber_Long(tmp); Py_DECREF(tmp); } #endif if (likely(v)) { int one = 1; int is_little = (int)*(unsigned char *)&one; unsigned char *bytes = (unsigned char *)&val; int ret = _PyLong_AsByteArray((PyLongObject *)v, bytes, sizeof(val), is_little, !is_unsigned); Py_DECREF(v); if (likely(!ret)) return val; } #endif return (long) -1; } } else { long val; PyObject *tmp = __Pyx_PyNumber_IntOrLong(x); if (!tmp) return (long) -1; val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } raise_overflow: PyErr_SetString(PyExc_OverflowError, "value too large to convert to long"); return (long) -1; raise_neg_overflow: PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); return (long) -1; } /* FastTypeChecks */ #if CYTHON_COMPILING_IN_CPYTHON static int __Pyx_InBases(PyTypeObject *a, PyTypeObject *b) { while (a) { a = a->tp_base; if (a == b) return 1; } return b == &PyBaseObject_Type; } static CYTHON_INLINE int __Pyx_IsSubtype(PyTypeObject *a, PyTypeObject *b) { PyObject *mro; if (a == b) return 1; mro = a->tp_mro; if (likely(mro)) { Py_ssize_t i, n; n = PyTuple_GET_SIZE(mro); for (i = 0; i < n; i++) { if (PyTuple_GET_ITEM(mro, i) == (PyObject *)b) return 1; } return 0; } return __Pyx_InBases(a, b); } #if PY_MAJOR_VERSION == 2 static int __Pyx_inner_PyErr_GivenExceptionMatches2(PyObject *err, PyObject* exc_type1, PyObject* exc_type2) { PyObject *exception, *value, *tb; int res; __Pyx_PyThreadState_declare __Pyx_PyThreadState_assign __Pyx_ErrFetch(&exception, &value, &tb); res = exc_type1 ? PyObject_IsSubclass(err, exc_type1) : 0; if (unlikely(res == -1)) { PyErr_WriteUnraisable(err); res = 0; } if (!res) { res = PyObject_IsSubclass(err, exc_type2); if (unlikely(res == -1)) { PyErr_WriteUnraisable(err); res = 0; } } __Pyx_ErrRestore(exception, value, tb); return res; } #else static CYTHON_INLINE int __Pyx_inner_PyErr_GivenExceptionMatches2(PyObject *err, PyObject* exc_type1, PyObject *exc_type2) { int res = exc_type1 ? __Pyx_IsSubtype((PyTypeObject*)err, (PyTypeObject*)exc_type1) : 0; if (!res) { res = __Pyx_IsSubtype((PyTypeObject*)err, (PyTypeObject*)exc_type2); } return res; } #endif static CYTHON_INLINE int __Pyx_PyErr_GivenExceptionMatches(PyObject *err, PyObject* exc_type) { if (likely(err == exc_type)) return 1; if (likely(PyExceptionClass_Check(err))) { return __Pyx_inner_PyErr_GivenExceptionMatches2(err, NULL, exc_type); } return PyErr_GivenExceptionMatches(err, exc_type); } static CYTHON_INLINE int __Pyx_PyErr_GivenExceptionMatches2(PyObject *err, PyObject *exc_type1, PyObject *exc_type2) { if (likely(err == exc_type1 || err == exc_type2)) return 1; if (likely(PyExceptionClass_Check(err))) { return __Pyx_inner_PyErr_GivenExceptionMatches2(err, exc_type1, exc_type2); } return (PyErr_GivenExceptionMatches(err, exc_type1) || PyErr_GivenExceptionMatches(err, exc_type2)); } #endif /* CheckBinaryVersion */ static int __Pyx_check_binary_version(void) { char ctversion[4], rtversion[4]; PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { char message[200]; PyOS_snprintf(message, sizeof(message), "compiletime version %s of module '%.100s' " "does not match runtime version %s", ctversion, __Pyx_MODULE_NAME, rtversion); return PyErr_WarnEx(NULL, message, 1); } return 0; } /* ModuleImport */ #ifndef __PYX_HAVE_RT_ImportModule #define __PYX_HAVE_RT_ImportModule static PyObject *__Pyx_ImportModule(const char *name) { PyObject *py_name = 0; PyObject *py_module = 0; py_name = __Pyx_PyIdentifier_FromString(name); if (!py_name) goto bad; py_module = PyImport_Import(py_name); Py_DECREF(py_name); return py_module; bad: Py_XDECREF(py_name); return 0; } #endif /* TypeImport */ #ifndef __PYX_HAVE_RT_ImportType #define __PYX_HAVE_RT_ImportType static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict) { PyObject *py_module = 0; PyObject *result = 0; PyObject *py_name = 0; char warning[200]; Py_ssize_t basicsize; #ifdef Py_LIMITED_API PyObject *py_basicsize; #endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; py_name = __Pyx_PyIdentifier_FromString(class_name); if (!py_name) goto bad; result = PyObject_GetAttr(py_module, py_name); Py_DECREF(py_name); py_name = 0; Py_DECREF(py_module); py_module = 0; if (!result) goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } #ifndef Py_LIMITED_API basicsize = ((PyTypeObject *)result)->tp_basicsize; #else py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); if (!py_basicsize) goto bad; basicsize = PyLong_AsSsize_t(py_basicsize); Py_DECREF(py_basicsize); py_basicsize = 0; if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) goto bad; #endif if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd", module_name, class_name, basicsize, size); if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; } else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd", module_name, class_name, basicsize, size); goto bad; } return (PyTypeObject *)result; bad: Py_XDECREF(py_module); Py_XDECREF(result); return NULL; } #endif /* InitStrings */ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { while (t->p) { #if PY_MAJOR_VERSION < 3 if (t->is_unicode) { *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); } else if (t->intern) { *t->p = PyString_InternFromString(t->s); } else { *t->p = PyString_FromStringAndSize(t->s, t->n - 1); } #else if (t->is_unicode | t->is_str) { if (t->intern) { *t->p = PyUnicode_InternFromString(t->s); } else if (t->encoding) { *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); } else { *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); } } else { *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); } #endif if (!*t->p) return -1; if (PyObject_Hash(*t->p) == -1) PyErr_Clear(); ++t; } return 0; } static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); } static CYTHON_INLINE const char* __Pyx_PyObject_AsString(PyObject* o) { Py_ssize_t ignore; return __Pyx_PyObject_AsStringAndSize(o, &ignore); } #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT #if !CYTHON_PEP393_ENABLED static const char* __Pyx_PyUnicode_AsStringAndSize(PyObject* o, Py_ssize_t *length) { char* defenc_c; PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); if (!defenc) return NULL; defenc_c = PyBytes_AS_STRING(defenc); #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII { char* end = defenc_c + PyBytes_GET_SIZE(defenc); char* c; for (c = defenc_c; c < end; c++) { if ((unsigned char) (*c) >= 128) { PyUnicode_AsASCIIString(o); return NULL; } } } #endif *length = PyBytes_GET_SIZE(defenc); return defenc_c; } #else static CYTHON_INLINE const char* __Pyx_PyUnicode_AsStringAndSize(PyObject* o, Py_ssize_t *length) { if (unlikely(__Pyx_PyUnicode_READY(o) == -1)) return NULL; #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII if (likely(PyUnicode_IS_ASCII(o))) { *length = PyUnicode_GET_LENGTH(o); return PyUnicode_AsUTF8(o); } else { PyUnicode_AsASCIIString(o); return NULL; } #else return PyUnicode_AsUTF8AndSize(o, length); #endif } #endif #endif static CYTHON_INLINE const char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { #if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT if ( #if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII __Pyx_sys_getdefaultencoding_not_ascii && #endif PyUnicode_Check(o)) { return __Pyx_PyUnicode_AsStringAndSize(o, length); } else #endif #if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE)) if (PyByteArray_Check(o)) { *length = PyByteArray_GET_SIZE(o); return PyByteArray_AS_STRING(o); } else #endif { char* result; int r = PyBytes_AsStringAndSize(o, &result, length); if (unlikely(r < 0)) { return NULL; } else { return result; } } } static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } static PyObject* __Pyx_PyNumber_IntOrLongWrongResultType(PyObject* result, const char* type_name) { #if PY_MAJOR_VERSION >= 3 if (PyLong_Check(result)) { if (PyErr_WarnFormat(PyExc_DeprecationWarning, 1, "__int__ returned non-int (type %.200s). " "The ability to return an instance of a strict subclass of int " "is deprecated, and may be removed in a future version of Python.", Py_TYPE(result)->tp_name)) { Py_DECREF(result); return NULL; } return result; } #endif PyErr_Format(PyExc_TypeError, "__%.4s__ returned non-%.4s (type %.200s)", type_name, type_name, Py_TYPE(result)->tp_name); Py_DECREF(result); return NULL; } static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) { #if CYTHON_USE_TYPE_SLOTS PyNumberMethods *m; #endif const char *name = NULL; PyObject *res = NULL; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x) || PyLong_Check(x))) #else if (likely(PyLong_Check(x))) #endif return __Pyx_NewRef(x); #if CYTHON_USE_TYPE_SLOTS m = Py_TYPE(x)->tp_as_number; #if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = m->nb_int(x); } else if (m && m->nb_long) { name = "long"; res = m->nb_long(x); } #else if (likely(m && m->nb_int)) { name = "int"; res = m->nb_int(x); } #endif #else if (!PyBytes_CheckExact(x) && !PyUnicode_CheckExact(x)) { res = PyNumber_Int(x); } #endif if (likely(res)) { #if PY_MAJOR_VERSION < 3 if (unlikely(!PyInt_Check(res) && !PyLong_Check(res))) { #else if (unlikely(!PyLong_CheckExact(res))) { #endif return __Pyx_PyNumber_IntOrLongWrongResultType(res, name); } } else if (!PyErr_Occurred()) { PyErr_SetString(PyExc_TypeError, "an integer is required"); } return res; } static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; PyObject *x; #if PY_MAJOR_VERSION < 3 if (likely(PyInt_CheckExact(b))) { if (sizeof(Py_ssize_t) >= sizeof(long)) return PyInt_AS_LONG(b); else return PyInt_AsSsize_t(x); } #endif if (likely(PyLong_CheckExact(b))) { #if CYTHON_USE_PYLONG_INTERNALS const digit* digits = ((PyLongObject*)b)->ob_digit; const Py_ssize_t size = Py_SIZE(b); if (likely(__Pyx_sst_abs(size) <= 1)) { ival = likely(size) ? digits[0] : 0; if (size == -1) ival = -ival; return ival; } else { switch (size) { case 2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -2: if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) { return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -3: if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case 4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; case -4: if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) { return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])); } break; } } #endif return PyLong_AsSsize_t(b); } x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { return PyInt_FromSize_t(ival); } #endif /* Py_PYTHON_H */ pykdtree-1.3.1/pykdtree/test_tree.py0000664017154600037200000003521013313135672021047 0ustar a001673smhiprimgrp00000000000000import numpy as np from pykdtree.kdtree import KDTree data_pts_real = np.array([[ 790535.062, -369324.656, 6310963.5 ], [ 790024.312, -365155.688, 6311270. ], [ 789515.75 , -361009.469, 6311572. ], [ 789011. , -356886.562, 6311869.5 ], [ 788508.438, -352785.969, 6312163. ], [ 788007.25 , -348707.219, 6312452. ], [ 787509.188, -344650.875, 6312737. ], [ 787014.438, -340616.906, 6313018. ], [ 786520.312, -336604.156, 6313294.5 ], [ 786030.312, -332613.844, 6313567. ], [ 785541.562, -328644.375, 6313835.5 ], [ 785054.75 , -324696.031, 6314100.5 ], [ 784571.188, -320769.5 , 6314361.5 ], [ 784089.312, -316863.562, 6314618.5 ], [ 783610.562, -312978.719, 6314871.5 ], [ 783133. , -309114.312, 6315121. ], [ 782658.25 , -305270.531, 6315367. ], [ 782184.312, -301446.719, 6315609. ], [ 781715.062, -297643.844, 6315847.5 ], [ 781246.188, -293860.281, 6316083. ], [ 780780.125, -290096.938, 6316314.5 ], [ 780316.312, -286353.469, 6316542.5 ], [ 779855.625, -282629.75 , 6316767.5 ], [ 779394.75 , -278924.781, 6316988.5 ], [ 778937.312, -275239.625, 6317206.5 ], [ 778489.812, -271638.094, 6317418. ], [ 778044.688, -268050.562, 6317626. ], [ 777599.688, -264476.75 , 6317831.5 ], [ 777157.625, -260916.859, 6318034. ], [ 776716.688, -257371.125, 6318233.5 ], [ 776276.812, -253838.891, 6318430.5 ], [ 775838.125, -250320.266, 6318624.5 ], [ 775400.75 , -246815.516, 6318816.5 ], [ 774965.312, -243324.953, 6319005. ], [ 774532.062, -239848.25 , 6319191. ], [ 774100.25 , -236385.516, 6319374.5 ], [ 773667.875, -232936.016, 6319555.5 ], [ 773238.562, -229500.812, 6319734. ], [ 772810.938, -226079.562, 6319909.5 ], [ 772385.25 , -222672.219, 6320082.5 ], [ 771960. , -219278.5 , 6320253. ], [ 771535.938, -215898.609, 6320421. ], [ 771114. , -212532.625, 6320587. ], [ 770695. , -209180.859, 6320749.5 ], [ 770275.25 , -205842.562, 6320910.5 ], [ 769857.188, -202518.125, 6321068.5 ], [ 769442.312, -199207.844, 6321224.5 ], [ 769027.812, -195911.203, 6321378. ], [ 768615.938, -192628.859, 6321529. ], [ 768204.688, -189359.969, 6321677.5 ], [ 767794.062, -186104.844, 6321824. ], [ 767386.25 , -182864.016, 6321968.5 ], [ 766980.062, -179636.969, 6322110. ], [ 766575.625, -176423.75 , 6322249.5 ], [ 766170.688, -173224.172, 6322387. ], [ 765769.812, -170038.984, 6322522.5 ], [ 765369.5 , -166867.312, 6322655. ], [ 764970.562, -163709.594, 6322786. ], [ 764573. , -160565.781, 6322914.5 ], [ 764177.75 , -157435.938, 6323041. ], [ 763784.188, -154320.062, 6323165.5 ], [ 763392.375, -151218.047, 6323288. ], [ 763000.938, -148129.734, 6323408. ], [ 762610.812, -145055.344, 6323526.5 ], [ 762224.188, -141995.141, 6323642.5 ], [ 761847.188, -139025.734, 6323754. ], [ 761472.375, -136066.312, 6323863.5 ], [ 761098.125, -133116.859, 6323971.5 ], [ 760725.25 , -130177.484, 6324077.5 ], [ 760354. , -127247.984, 6324181.5 ], [ 759982.812, -124328.336, 6324284.5 ], [ 759614. , -121418.844, 6324385. ], [ 759244.688, -118519.102, 6324484.5 ], [ 758877.125, -115629.305, 6324582. ], [ 758511.562, -112749.648, 6324677.5 ], [ 758145.625, -109879.82 , 6324772.5 ], [ 757781.688, -107019.953, 6324865. ], [ 757418.438, -104170.047, 6324956. ], [ 757056.562, -101330.125, 6325045.5 ], [ 756697. , -98500.266, 6325133.5 ], [ 756337.375, -95680.289, 6325219.5 ], [ 755978.062, -92870.148, 6325304.5 ], [ 755621.188, -90070.109, 6325387.5 ], [ 755264.625, -87280.008, 6325469. ], [ 754909.188, -84499.828, 6325549. ], [ 754555.062, -81729.609, 6325628. ], [ 754202.938, -78969.43 , 6325705. ], [ 753850.688, -76219.133, 6325781. ], [ 753499.875, -73478.836, 6325855. ], [ 753151.375, -70748.578, 6325927.5 ], [ 752802.312, -68028.188, 6325999. ], [ 752455.75 , -65317.871, 6326068.5 ], [ 752108.625, -62617.344, 6326137.5 ], [ 751764.125, -59926.969, 6326204.5 ], [ 751420.125, -57246.434, 6326270. ], [ 751077.438, -54575.902, 6326334.5 ], [ 750735.312, -51915.363, 6326397.5 ], [ 750396.188, -49264.852, 6326458.5 ], [ 750056.375, -46624.227, 6326519. ], [ 749718.875, -43993.633, 6326578. ]]) def test1d(): data_pts = np.arange(1000) kdtree = KDTree(data_pts, leafsize=15) query_pts = np.arange(400, 300, -10) dist, idx = kdtree.query(query_pts) assert idx[0] == 400 assert dist[0] == 0 assert idx[1] == 390 def test3d(): #7, 93, 45 query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real) dist, idx = kdtree.query(query_pts, sqr_dists=True) epsilon = 1e-5 assert idx[0] == 7 assert idx[1] == 93 assert idx[2] == 45 assert dist[0] == 0 assert abs(dist[1] - 3.) < epsilon * dist[1] assert abs(dist[2] - 20001.) < epsilon * dist[2] def test3d_float32(): #7, 93, 45 query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]], dtype=np.float32) kdtree = KDTree(data_pts_real.astype(np.float32)) dist, idx = kdtree.query(query_pts, sqr_dists=True) epsilon = 1e-5 assert idx[0] == 7 assert idx[1] == 93 assert idx[2] == 45 assert dist[0] == 0 assert abs(dist[1] - 3.) < epsilon * dist[1] assert abs(dist[2] - 20001.) < epsilon * dist[2] assert kdtree.data_pts.dtype == np.float32 def test3d_float32_mismatch(): #7, 93, 45 query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]], dtype=np.float32) kdtree = KDTree(data_pts_real) dist, idx = kdtree.query(query_pts, sqr_dists=True) def test3d_float32_mismatch2(): #7, 93, 45 query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real.astype(np.float32)) try: dist, idx = kdtree.query(query_pts, sqr_dists=True) assert False except TypeError: assert True def test3d_8n(): query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real) dist, idx = kdtree.query(query_pts, k=8) exp_dist = np.array([[ 0.00000000e+00, 4.05250235e+03, 4.07389794e+03, 8.08201128e+03, 8.17063009e+03, 1.20904577e+04, 1.22902057e+04, 1.60775136e+04], [ 1.73205081e+00, 2.70216896e+03, 2.71431274e+03, 5.39537066e+03, 5.43793210e+03, 8.07855631e+03, 8.17119970e+03, 1.07513693e+04], [ 1.41424892e+02, 3.25500021e+03, 3.44284958e+03, 6.58019346e+03, 6.81038455e+03, 9.89140135e+03, 1.01918659e+04, 1.31892516e+04]]) exp_idx = np.array([[ 7, 8, 6, 9, 5, 10, 4, 11], [93, 94, 92, 95, 91, 96, 90, 97], [45, 46, 44, 47, 43, 48, 42, 49]]) assert np.array_equal(idx, exp_idx) assert np.allclose(dist, exp_dist) def test3d_8n_ub(): query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real) dist, idx = kdtree.query(query_pts, k=8, distance_upper_bound=10e3, sqr_dists=False) exp_dist = np.array([[ 0.00000000e+00, 4.05250235e+03, 4.07389794e+03, 8.08201128e+03, 8.17063009e+03, np.Inf, np.Inf, np.Inf], [ 1.73205081e+00, 2.70216896e+03, 2.71431274e+03, 5.39537066e+03, 5.43793210e+03, 8.07855631e+03, 8.17119970e+03, np.Inf], [ 1.41424892e+02, 3.25500021e+03, 3.44284958e+03, 6.58019346e+03, 6.81038455e+03, 9.89140135e+03, np.Inf, np.Inf]]) n = 100 exp_idx = np.array([[ 7, 8, 6, 9, 5, n, n, n], [93, 94, 92, 95, 91, 96, 90, n], [45, 46, 44, 47, 43, 48, n, n]]) assert np.array_equal(idx, exp_idx) assert np.allclose(dist, exp_dist) def test3d_8n_ub_leaf20(): query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real, leafsize=20) dist, idx = kdtree.query(query_pts, k=8, distance_upper_bound=10e3, sqr_dists=False) exp_dist = np.array([[ 0.00000000e+00, 4.05250235e+03, 4.07389794e+03, 8.08201128e+03, 8.17063009e+03, np.Inf, np.Inf, np.Inf], [ 1.73205081e+00, 2.70216896e+03, 2.71431274e+03, 5.39537066e+03, 5.43793210e+03, 8.07855631e+03, 8.17119970e+03, np.Inf], [ 1.41424892e+02, 3.25500021e+03, 3.44284958e+03, 6.58019346e+03, 6.81038455e+03, 9.89140135e+03, np.Inf, np.Inf]]) n = 100 exp_idx = np.array([[ 7, 8, 6, 9, 5, n, n, n], [93, 94, 92, 95, 91, 96, 90, n], [45, 46, 44, 47, 43, 48, n, n]]) assert np.array_equal(idx, exp_idx) assert np.allclose(dist, exp_dist) def test3d_8n_ub_eps(): query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real) dist, idx = kdtree.query(query_pts, k=8, eps=0.1, distance_upper_bound=10e3, sqr_dists=False) exp_dist = np.array([[ 0.00000000e+00, 4.05250235e+03, 4.07389794e+03, 8.08201128e+03, 8.17063009e+03, np.Inf, np.Inf, np.Inf], [ 1.73205081e+00, 2.70216896e+03, 2.71431274e+03, 5.39537066e+03, 5.43793210e+03, 8.07855631e+03, 8.17119970e+03, np.Inf], [ 1.41424892e+02, 3.25500021e+03, 3.44284958e+03, 6.58019346e+03, 6.81038455e+03, 9.89140135e+03, np.Inf, np.Inf]]) n = 100 exp_idx = np.array([[ 7, 8, 6, 9, 5, n, n, n], [93, 94, 92, 95, 91, 96, 90, n], [45, 46, 44, 47, 43, 48, n, n]]) assert np.array_equal(idx, exp_idx) assert np.allclose(dist, exp_dist) def test3d_large_query(): # Target idxs: 7, 93, 45 query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) # Repeat the same points multiple times to get 60000 query points n = 20000 query_pts = np.repeat(query_pts, n, axis=0) kdtree = KDTree(data_pts_real) dist, idx = kdtree.query(query_pts, sqr_dists=True) epsilon = 1e-5 assert np.all(idx[:n] == 7) assert np.all(idx[n:2*n] == 93) assert np.all(idx[2*n:] == 45) assert np.all(dist[:n] == 0) assert np.all(abs(dist[n:2*n] - 3.) < epsilon * dist[n:2*n]) assert np.all(abs(dist[2*n:] - 20001.) < epsilon * dist[2*n:]) def test_scipy_comp(): query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real) assert id(kdtree.data) == id(kdtree.data_pts) def test1d_mask(): data_pts = np.arange(1000) # put the input locations in random order np.random.shuffle(data_pts) bad_idx = np.nonzero(data_pts == 400) nearest_idx_1 = np.nonzero(data_pts == 399) nearest_idx_2 = np.nonzero(data_pts == 390) kdtree = KDTree(data_pts, leafsize=15) # shift the query points just a little bit for known neighbors # we want 399 as a result, not 401, when we query for ~400 query_pts = np.arange(399.9, 299.9, -10) query_mask = np.zeros(data_pts.shape[0]).astype(bool) query_mask[bad_idx] = True dist, idx = kdtree.query(query_pts, mask=query_mask) assert idx[0] == nearest_idx_1 # 399, would be 400 if no mask assert np.isclose(dist[0], 0.9) assert idx[1] == nearest_idx_2 # 390 assert np.isclose(dist[1], 0.1) def test1d_all_masked(): data_pts = np.arange(1000) np.random.shuffle(data_pts) kdtree = KDTree(data_pts, leafsize=15) query_pts = np.arange(400, 300, -10) query_mask = np.ones(data_pts.shape[0]).astype(bool) dist, idx = kdtree.query(query_pts, mask=query_mask) # all invalid assert np.all(i >= 1000 for i in idx) assert np.all(d >= 1001 for d in dist) def test3d_mask(): #7, 93, 45 query_pts = np.array([[ 787014.438, -340616.906, 6313018.], [751763.125, -59925.969, 6326205.5], [769957.188, -202418.125, 6321069.5]]) kdtree = KDTree(data_pts_real) query_mask = np.zeros(data_pts_real.shape[0]) query_mask[6:10] = True dist, idx = kdtree.query(query_pts, sqr_dists=True, mask=query_mask) epsilon = 1e-5 assert idx[0] == 5 # would be 7 if no mask assert idx[1] == 93 assert idx[2] == 45 # would be 0 if no mask assert abs(dist[0] - 66759196.1053) < epsilon * dist[0] assert abs(dist[1] - 3.) < epsilon * dist[1] assert abs(dist[2] - 20001.) < epsilon * dist[2] pykdtree-1.3.1/pykdtree.egg-info/0000775017154600037200000000000013313136240020160 5ustar a001673smhiprimgrp00000000000000pykdtree-1.3.1/pykdtree.egg-info/PKG-INFO0000664017154600037200000000116113313136240021254 0ustar a001673smhiprimgrp00000000000000Metadata-Version: 1.2 Name: pykdtree Version: 1.3.1 Summary: Fast kd-tree implementation with OpenMP-enabled queries Home-page: UNKNOWN Author: Esben S. Nielsen Author-email: storpipfugl@gmail.com License: UNKNOWN Description: UNKNOWN Platform: UNKNOWN Classifier: Development Status :: 5 - Production/Stable Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3) Classifier: Programming Language :: Python Classifier: Operating System :: OS Independent Classifier: Intended Audience :: Science/Research Classifier: Topic :: Scientific/Engineering Requires-Python: >=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.* pykdtree-1.3.1/pykdtree.egg-info/SOURCES.txt0000664017154600037200000000050413313136240022043 0ustar a001673smhiprimgrp00000000000000LICENSE.txt MANIFEST.in README setup.cfg setup.py pykdtree/__init__.py pykdtree/_kdtree_core.c pykdtree/kdtree.c pykdtree/test_tree.py pykdtree.egg-info/PKG-INFO pykdtree.egg-info/SOURCES.txt pykdtree.egg-info/dependency_links.txt pykdtree.egg-info/not-zip-safe pykdtree.egg-info/requires.txt pykdtree.egg-info/top_level.txtpykdtree-1.3.1/pykdtree.egg-info/dependency_links.txt0000664017154600037200000000000113313136240024226 0ustar a001673smhiprimgrp00000000000000 pykdtree-1.3.1/pykdtree.egg-info/not-zip-safe0000664017154600037200000000000112667272556022434 0ustar a001673smhiprimgrp00000000000000 pykdtree-1.3.1/pykdtree.egg-info/requires.txt0000664017154600037200000000000613313136240022554 0ustar a001673smhiprimgrp00000000000000numpy pykdtree-1.3.1/pykdtree.egg-info/top_level.txt0000664017154600037200000000001113313136240022702 0ustar a001673smhiprimgrp00000000000000pykdtree pykdtree-1.3.1/LICENSE.txt0000664017154600037200000001675113304226164016501 0ustar a001673smhiprimgrp00000000000000 GNU LESSER GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007, 2015 Free Software Foundation, Inc. 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Each version is given a distinguishing version number. If the Library as you received it specifies that a certain numbered version of the GNU Lesser General Public License "or any later version" applies to it, you have the option of following the terms and conditions either of that published version or of any later version published by the Free Software Foundation. If the Library as you received it does not specify a version number of the GNU Lesser General Public License, you may choose any version of the GNU Lesser General Public License ever published by the Free Software Foundation. If the Library as you received it specifies that a proxy can decide whether future versions of the GNU Lesser General Public License shall apply, that proxy's public statement of acceptance of any version is permanent authorization for you to choose that version for the Library. pykdtree-1.3.1/MANIFEST.in0000664017154600037200000000007013313135672016402 0ustar a001673smhiprimgrp00000000000000exclude pykdtree/render_template.py include LICENSE.txt pykdtree-1.3.1/README0000664017154600037200000001430313313135565015531 0ustar a001673smhiprimgrp00000000000000.. image:: https://travis-ci.org/storpipfugl/pykdtree.svg?branch=master :target: https://travis-ci.org/storpipfugl/pykdtree .. image:: https://ci.appveyor.com/api/projects/status/ubo92368ktt2d25g/branch/master :target: https://ci.appveyor.com/project/storpipfugl/pykdtree ======== pykdtree ======== Objective --------- pykdtree is a kd-tree implementation for fast nearest neighbour search in Python. The aim is to be the fastest implementation around for common use cases (low dimensions and low number of neighbours) for both tree construction and queries. The implementation is based on scipy.spatial.cKDTree and libANN by combining the best features from both and focus on implementation efficiency. The interface is similar to that of scipy.spatial.cKDTree except only Euclidean distance measure is supported. Queries are optionally multithreaded using OpenMP. Installation ------------ Default build of pykdtree with OpenMP enabled queries using libgomp .. code-block:: bash $ cd $ python setup.py install If it fails with undefined compiler flags or you want to use another OpenMP implementation please modify setup.py at the indicated point to match your system. Building without OpenMP support is controlled by the USE_OMP environment variable .. code-block:: bash $ cd $ export USE_OMP=0 $ python setup.py install Note evironment variables are by default not exported when using sudo so in this case do .. code-block:: bash $ USE_OMP=0 sudo -E python setup.py install Usage ----- The usage of pykdtree is similar to scipy.spatial.cKDTree so for now refer to its documentation >>> from pykdtree.kdtree import KDTree >>> kd_tree = KDTree(data_pts) >>> dist, idx = kd_tree.query(query_pts, k=8) The number of threads to be used in OpenMP enabled queries can be controlled with the standard OpenMP environment variable OMP_NUM_THREADS. The **leafsize** argument (number of data points per leaf) for the tree creation can be used to control the memory overhead of the kd-tree. pykdtree uses a default **leafsize=16**. Increasing **leafsize** will reduce the memory overhead and construction time but increase query time. pykdtree accepts data in double precision (numpy.float64) or single precision (numpy.float32) floating point. If data of another type is used an internal copy in double precision is made resulting in a memory overhead. If the kd-tree is constructed on single precision data the query points must be single precision as well. Benchmarks ---------- Comparison with scipy.spatial.cKDTree and libANN. This benchmark is on geospatial 3D data with 10053632 data points and 4276224 query points. The results are indexed relative to the construction time of scipy.spatial.cKDTree. A leafsize of 10 (scipy.spatial.cKDTree default) is used. Note: libANN is *not* thread safe. In this benchmark libANN is compiled with "-O3 -funroll-loops -ffast-math -fprefetch-loop-arrays" in order to achieve optimum performance. ================== ===================== ====== ======== ================== Operation scipy.spatial.cKDTree libANN pykdtree pykdtree 4 threads ------------------ --------------------- ------ -------- ------------------ Construction 100 304 96 96 query 1 neighbour 1267 294 223 70 Total 1 neighbour 1367 598 319 166 query 8 neighbours 2193 625 449 143 Total 8 neighbours 2293 929 545 293 ================== ===================== ====== ======== ================== Looking at the combined construction and query this gives the following performance improvement relative to scipy.spatial.cKDTree ========== ====== ======== ================== Neighbours libANN pykdtree pykdtree 4 threads ---------- ------ -------- ------------------ 1 129% 329% 723% 8 147% 320% 682% ========== ====== ======== ================== Note: mileage will vary with the dataset at hand and computer architecture. Test ---- Run the unit tests using nosetest .. code-block:: bash $ cd $ python setup.py nosetests Installing on AppVeyor ---------------------- Pykdtree requires the "stdint.h" header file which is not available on certain versions of Windows or certain Windows compilers including those on the continuous integration platform AppVeyor. To get around this the header file(s) can be downloaded and placed in the correct "include" directory. This can be done by adding the `anaconda/missing-headers.ps1` script to your repository and running it the install step of `appveyor.yml`: # install missing headers that aren't included with MSVC 2008 # https://github.com/omnia-md/conda-recipes/pull/524 - "powershell ./appveyor/missing-headers.ps1" In addition to this, AppVeyor does not support OpenMP so this feature must be turned off by adding the following to `appveyor.yml` in the `environment` section: environment: global: # Don't build with openmp because it isn't supported in appveyor's compilers USE_OMP: "0" Changelog --------- v1.3.1 : Fix masking in the "query" method introduced in 1.3.0 v1.3.0 : Keyword argument "mask" added to "query" method. OpenMP compilation now works for MS Visual Studio compiler v1.2.2 : Build process fixes v1.2.1 : Fixed OpenMP thread safety issue introduced in v1.2.0 v1.2.0 : 64 and 32 bit MSVC Windows support added v1.1.1 : Same as v1.1 release due to incorrect pypi release v1.1 : Build process improvements. Add data attribute to kdtree class for scipy interface compatibility v1.0 : Switched license from GPLv3 to LGPLv3 v0.3 : Avoid zipping of installed egg v0.2 : Reduced memory footprint. Can now handle single precision data internally avoiding copy conversion to double precision. Default leafsize changed from 10 to 16 as this reduces the memory footprint and makes it a cache line multiplum (negligible if any query performance observed in benchmarks). Reduced memory allocation for leaf nodes. Applied patch for building on OS X. v0.1 : Initial version. pykdtree-1.3.1/setup.cfg0000664017154600037200000000012013313136240016451 0ustar a001673smhiprimgrp00000000000000[bdist_rpm] requires = numpy release = 1 [egg_info] tag_build = tag_date = 0 pykdtree-1.3.1/setup.py0000664017154600037200000000723013313135672016363 0ustar a001673smhiprimgrp00000000000000#pykdtree, Fast kd-tree implementation with OpenMP-enabled queries # #Copyright (C) 2013 - present Esben S. Nielsen # # This program is free software: you can redistribute it and/or modify it under # the terms of the GNU Lesser General Public License as published by the Free # Software Foundation, either version 3 of the License, or #(at your option) any later version. # # This program 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 Lesser General Public License for more # details. # # You should have received a copy of the GNU Lesser General Public License along # with this program. If not, see . import os from setuptools import setup, Extension from setuptools.command.build_ext import build_ext # Get OpenMP setting from environment try: use_omp = int(os.environ['USE_OMP']) except KeyError: use_omp = True def set_builtin(name, value): if isinstance(__builtins__, dict): __builtins__[name] = value else: setattr(__builtins__, name, value) # Custom builder to handler compiler flags. Edit if needed. class build_ext_subclass(build_ext): def build_extensions(self): comp = self.compiler.compiler_type if comp in ('unix', 'cygwin', 'mingw32'): # Check if build is with OpenMP if use_omp: extra_compile_args = ['-std=c99', '-O3', '-fopenmp'] extra_link_args=['-lgomp'] else: extra_compile_args = ['-std=c99', '-O3'] extra_link_args = [] elif comp == 'msvc': extra_compile_args = ['/Ox'] extra_link_args = [] if use_omp: extra_compile_args.append('/openmp') else: # Add support for more compilers here raise ValueError('Compiler flags undefined for %s. Please modify setup.py and add compiler flags' % comp) self.extensions[0].extra_compile_args = extra_compile_args self.extensions[0].extra_link_args = extra_link_args build_ext.build_extensions(self) def finalize_options(self): ''' In order to avoid premature import of numpy before it gets installed as a dependency get numpy include directories during the extensions building process http://stackoverflow.com/questions/19919905/how-to-bootstrap-numpy-installation-in-setup-py ''' build_ext.finalize_options(self) # Prevent numpy from thinking it is still in its setup process: set_builtin('__NUMPY_SETUP__', False) import numpy self.include_dirs.append(numpy.get_include()) setup( name='pykdtree', version='1.3.1', description='Fast kd-tree implementation with OpenMP-enabled queries', author='Esben S. Nielsen', author_email='storpipfugl@gmail.com', packages = ['pykdtree'], python_requires='>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*', install_requires=['numpy'], setup_requires=['numpy'], tests_require=['nose'], zip_safe=False, test_suite = 'nose.collector', ext_modules = [Extension('pykdtree.kdtree', ['pykdtree/kdtree.c', 'pykdtree/_kdtree_core.c'])], cmdclass = {'build_ext': build_ext_subclass }, classifiers=[ 'Development Status :: 5 - Production/Stable', 'License :: OSI Approved :: GNU General Public License v3 (GPLv3)', 'Programming Language :: Python', 'Operating System :: OS Independent', 'Intended Audience :: Science/Research', 'Topic :: Scientific/Engineering' ] ) pykdtree-1.3.1/PKG-INFO0000664017154600037200000000116113313136240015733 0ustar a001673smhiprimgrp00000000000000Metadata-Version: 1.2 Name: pykdtree Version: 1.3.1 Summary: Fast kd-tree implementation with OpenMP-enabled queries Home-page: UNKNOWN Author: Esben S. Nielsen Author-email: storpipfugl@gmail.com License: UNKNOWN Description: UNKNOWN Platform: UNKNOWN Classifier: Development Status :: 5 - Production/Stable Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3) Classifier: Programming Language :: Python Classifier: Operating System :: OS Independent Classifier: Intended Audience :: Science/Research Classifier: Topic :: Scientific/Engineering Requires-Python: >=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*