diff options
Diffstat (limited to 'src/cython/gudhi.pyx')
| -rw-r--r-- | src/cython/gudhi.pyx | 156 |
1 files changed, 1 insertions, 155 deletions
diff --git a/src/cython/gudhi.pyx b/src/cython/gudhi.pyx index c5757039..551226c5 100644 --- a/src/cython/gudhi.pyx +++ b/src/cython/gudhi.pyx @@ -1,155 +1 @@ -from cython cimport numeric -from libcpp.vector cimport vector -from libcpp.utility cimport pair - -cimport cgudhi - - -# SimplexTree python interface -cdef class SimplexTree: - cdef cgudhi.Simplex_tree_interface[cgudhi.Simplex_tree_options_full_featured] *thisptr - def __cinit__(self, points=None, max_dimension=3, max_edge_length=float('inf')): - self.thisptr = new cgudhi.Simplex_tree_interface[cgudhi.Simplex_tree_options_full_featured]() - # Constructor from graph expansion - if points is not None: - self.thisptr.graph_expansion(points,max_dimension,max_edge_length) - def __dealloc__(self): - if self.thisptr != NULL: - del self.thisptr - def get_filtration(self): - return self.thisptr.filtration() - def filtration(self, simplex): - return self.thisptr.simplex_filtration(simplex) - def set_filtration(self, filtration): - self.thisptr.set_filtration(<double>filtration) - def initialize_filtration(self): - self.thisptr.initialize_filtration() - def num_vertices(self): - return self.thisptr.num_vertices() - def num_simplices(self): - return self.thisptr.num_simplices() - def dimension(self): - return self.thisptr.dimension() - def set_dimension(self, dim): - self.thisptr.set_dimension(<int>dim) - def find(self, simplex): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - return self.thisptr.find_simplex(complex) - def insert(self, simplex, filtration = 0.0): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - return self.thisptr.insert_simplex_and_subfaces(complex, <double>filtration) - def get_filtered_tree(self): - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_filtered_tree() - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - def get_skeleton_tree(self, dim): - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_skeleton_tree(<int>dim) - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - def get_star_tree(self, simplex): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_star_tree(complex) - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - def get_coface_tree(self, simplex, dim): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_coface_tree(complex, <int>dim) - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - - -cdef class MiniSimplexTree: - cdef cgudhi.Simplex_tree_interface[cgudhi.Simplex_tree_options_mini] *thisptr - def __cinit__(self): - self.thisptr = new cgudhi.Simplex_tree_interface[cgudhi.Simplex_tree_options_mini]() - def __dealloc__(self): - if self.thisptr != NULL: - del self.thisptr - def num_vertices(self): - return self.thisptr.num_vertices() - def num_simplices(self): - return self.thisptr.num_simplices() - def dimension(self): - return self.thisptr.dimension() - def set_dimension(self, dim): - self.thisptr.set_dimension(<int>dim) - def find(self, simplex): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - return self.thisptr.find_simplex(complex) - def insert(self, simplex, filtration = 0.0): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - return self.thisptr.insert_simplex_and_subfaces(complex, <double>filtration) - def get_filtered_tree(self): - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_filtered_tree() - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - def get_skeleton_tree(self, dim): - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_skeleton_tree(<int>dim) - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - def get_star_tree(self, simplex): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_star_tree(complex) - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct - def get_coface_tree(self, simplex, dim): - cdef vector[int] complex - for i in simplex: - complex.push_back(i) - cdef vector[pair[vector[int], double]] coface_tree = self.thisptr.get_coface_tree(complex, <int>dim) - ct = [] - for filtered_complex in coface_tree: - v = [] - for vertex in filtered_complex.first: - v.append(vertex) - ct.append((v,filtered_complex.second)) - return ct +include "src/cython/Simplex_tree.pyx" |