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# This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
# See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
# Author(s): Vincent Rouvreau
#
# Copyright (C) 2016 Inria
#
# Modification(s):
# - YYYY/MM Author: Description of the modification
from cython cimport numeric
from libcpp.vector cimport vector
from libcpp.utility cimport pair
from libcpp cimport bool
from libcpp.string cimport string
__author__ = "Vincent Rouvreau"
__copyright__ = "Copyright (C) 2016 Inria"
__license__ = "MIT"
cdef extern from "Simplex_tree_interface.h" namespace "Gudhi":
cdef cppclass Simplex_tree_options_full_featured:
pass
cdef cppclass Simplex_tree_simplex_handle "Gudhi::Simplex_tree_interface<Gudhi::Simplex_tree_options_full_featured>::Simplex_handle":
pass
cdef cppclass Simplex_tree_simplices_iterator "Gudhi::Simplex_tree_interface<Gudhi::Simplex_tree_options_full_featured>::Complex_simplex_iterator":
Simplex_tree_simplices_iterator()
Simplex_tree_simplex_handle& operator*()
Simplex_tree_simplices_iterator operator++()
bint operator!=(Simplex_tree_simplices_iterator)
cdef cppclass Simplex_tree_skeleton_iterator "Gudhi::Simplex_tree_interface<Gudhi::Simplex_tree_options_full_featured>::Skeleton_simplex_iterator":
Simplex_tree_skeleton_iterator()
Simplex_tree_simplex_handle& operator*()
Simplex_tree_skeleton_iterator operator++()
bint operator!=(Simplex_tree_skeleton_iterator)
cdef cppclass Simplex_tree_interface_full_featured "Gudhi::Simplex_tree_interface<Gudhi::Simplex_tree_options_full_featured>":
Simplex_tree()
double simplex_filtration(vector[int] simplex)
void assign_simplex_filtration(vector[int] simplex, double filtration)
void initialize_filtration()
int num_vertices()
int num_simplices()
void set_dimension(int dimension)
int dimension()
int upper_bound_dimension()
bool find_simplex(vector[int] simplex)
bool insert(vector[int] simplex, double filtration)
vector[pair[vector[int], double]] get_star(vector[int] simplex)
vector[pair[vector[int], double]] get_cofaces(vector[int] simplex,
int dimension)
void expansion(int max_dim) except +
void remove_maximal_simplex(vector[int] simplex)
bool prune_above_filtration(double filtration)
bool make_filtration_non_decreasing()
void compute_extended_filtration()
vector[vector[pair[int, pair[double, double]]]] compute_extended_persistence_subdiagrams(vector[pair[int, pair[double, double]]] dgm, double min_persistence)
# Iterators over Simplex tree
pair[vector[int], double] get_simplex_and_filtration(Simplex_tree_simplex_handle f_simplex)
Simplex_tree_simplices_iterator get_simplices_iterator_begin()
Simplex_tree_simplices_iterator get_simplices_iterator_end()
vector[Simplex_tree_simplex_handle].const_iterator get_filtration_iterator_begin()
vector[Simplex_tree_simplex_handle].const_iterator get_filtration_iterator_end()
Simplex_tree_skeleton_iterator get_skeleton_iterator_begin(int dimension)
Simplex_tree_skeleton_iterator get_skeleton_iterator_end(int dimension)
cdef extern from "Persistent_cohomology_interface.h" namespace "Gudhi":
cdef cppclass Simplex_tree_persistence_interface "Gudhi::Persistent_cohomology_interface<Gudhi::Simplex_tree<Gudhi::Simplex_tree_options_full_featured>>":
Simplex_tree_persistence_interface(Simplex_tree_interface_full_featured * st, bool persistence_dim_max)
void compute_persistence(int homology_coeff_field, double min_persistence)
vector[pair[int, pair[double, double]]] get_persistence()
vector[int] betti_numbers()
vector[int] persistent_betti_numbers(double from_value, double to_value)
vector[pair[double,double]] intervals_in_dimension(int dimension)
void write_output_diagram(string diagram_file_name) except +
vector[pair[vector[int], vector[int]]] persistence_pairs()
pair[vector[vector[int]], vector[vector[int]]] lower_star_generators()
pair[vector[vector[int]], vector[vector[int]]] flag_generators()
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