# cython: boundscheck=False # cython: wraparound=False # cython: cdivision=True # # Author: Thomas Moreau # Author: Olivier Grisel # See quad_tree.pyx for details. import numpy as np cimport numpy as np ctypedef np.npy_float32 DTYPE_t # Type of X ctypedef np.npy_intp SIZE_t # Type for indices and counters ctypedef np.npy_int32 INT32_t # Signed 32 bit integer ctypedef np.npy_uint32 UINT32_t # Unsigned 32 bit integer # This is effectively an ifdef statement in Cython # It allows us to write printf debugging lines # and remove them at compile time cdef enum: DEBUGFLAG = 0 cdef float EPSILON = 1e-6 # XXX: Careful to not change the order of the arguments. It is important to # have is_leaf and max_width consecutive as it permits to avoid padding by # the compiler and keep the size coherent for both C and numpy data structures. cdef struct Cell: # Base storage structure for cells in a QuadTree object # Tree structure SIZE_t parent # Parent cell of this cell SIZE_t[8] children # Array pointing to childrens of this cell # Cell description SIZE_t cell_id # Id of the cell in the cells array in the Tree SIZE_t point_index # Index of the point at this cell (only defined # in non empty leaf) bint is_leaf # Does this cell have children? DTYPE_t squared_max_width # Squared value of the maximum width w SIZE_t depth # Depth of the cell in the tree SIZE_t cumulative_size # Number of points included in the subtree with # this cell as a root. # Internal constants DTYPE_t[3] center # Store the center for quick split of cells DTYPE_t[3] barycenter # Keep track of the center of mass of the cell # Cell boundaries DTYPE_t[3] min_bounds # Inferior boundaries of this cell (inclusive) DTYPE_t[3] max_bounds # Superior boundaries of this cell (exclusive) cdef class _QuadTree: # The QuadTree object is a quad tree structure constructed by inserting # recursively points in the tree and splitting cells in 4 so that each # leaf cell contains at most one point. # This structure also handle 3D data, inserted in trees with 8 children # for each node. # Parameters of the tree cdef public int n_dimensions # Number of dimensions in X cdef public int verbose # Verbosity of the output cdef SIZE_t n_cells_per_cell # Number of children per node. (2 ** n_dimension) # Tree inner structure cdef public SIZE_t max_depth # Max depth of the tree cdef public SIZE_t cell_count # Counter for node IDs cdef public SIZE_t capacity # Capacity of tree, in terms of nodes cdef public SIZE_t n_points # Total number of points cdef Cell* cells # Array of nodes # Point insertion methods cdef int insert_point(self, DTYPE_t[3] point, SIZE_t point_index, SIZE_t cell_id=*) nogil except -1 cdef SIZE_t _insert_point_in_new_child(self, DTYPE_t[3] point, Cell* cell, SIZE_t point_index, SIZE_t size=* ) nogil cdef SIZE_t _select_child(self, DTYPE_t[3] point, Cell* cell) nogil cdef bint _is_duplicate(self, DTYPE_t[3] point1, DTYPE_t[3] point2) nogil # Create a summary of the Tree compare to a query point cdef long summarize(self, DTYPE_t[3] point, DTYPE_t* results, float squared_theta=*, SIZE_t cell_id=*, long idx=* ) nogil # Internal cell initialization methods cdef void _init_cell(self, Cell* cell, SIZE_t parent, SIZE_t depth) nogil cdef void _init_root(self, DTYPE_t[3] min_bounds, DTYPE_t[3] max_bounds ) nogil # Private methods cdef int _check_point_in_cell(self, DTYPE_t[3] point, Cell* cell ) nogil except -1 # Private array manipulation to manage the ``cells`` array cdef int _resize(self, SIZE_t capacity) nogil except -1 cdef int _resize_c(self, SIZE_t capacity=*) nogil except -1 cdef int _get_cell(self, DTYPE_t[3] point, SIZE_t cell_id=*) nogil except -1 cdef np.ndarray _get_cell_ndarray(self)