# 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_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_simplex_and_subfaces(vector[int] simplex,
                                         double filtration)
        vector[pair[vector[int], double]] get_filtration()
        vector[pair[vector[int], double]] get_skeleton(int dimension)
        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)
        void remove_maximal_simplex(vector[int] simplex)
        bool prune_above_filtration(double filtration)
        bool make_filtration_non_decreasing()

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)
        vector[pair[int, pair[double, double]]] get_persistence(int homology_coeff_field, double min_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)
        vector[pair[vector[int], vector[int]]] persistence_pairs()