multipers 2.3.3b6__cp311-cp311-macosx_11_0_arm64.whl

multipers/gudhi/Simplex_tree_multi_interface.h

@@ -0,0 +1,551 @@
+/*    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):
+ *		- 2022/11 David Loiseaux, Hannah Schreiber : adapt for
+ *multipersistence.
+ *      - YYYY/MM Author: Description of the modification
+ */
+
+#pragma once
+
+#include "Simplex_tree_interface.h"
+#include <cstddef>
+#include <cstdint>
+#include <gudhi/Simplex_tree_multi.h>
+// #include <gudhi/Simplex_tree/multi_filtrations/Finitely_critical_filtrations.h>
+#include "multiparameter_module_approximation/format_python-cpp.h"
+
+#include <iostream>
+#include <ranges>
+#include <stdexcept>
+#include <utility>  // std::pair
+#include <vector>
+#include <limits>  // has_quiet_NaN
+
+namespace Gudhi {
+namespace multiparameter {
+namespace python_interface {
+
+using interface_std = Simplex_tree<Simplex_tree_options_for_python>;  // Interface not necessary
+                                                                      // (smaller so should do less
+                                                                      // segfaults)
+
+template <class simplextreeinterface>
+simplextreeinterface &get_simplextree_from_pointer(const uintptr_t splxptr) {  // DANGER
+  simplextreeinterface &st = *(simplextreeinterface *)(splxptr);
+  return st;
+}
+
+template <typename Filtration, typename value_type = typename Filtration::value_type>
+class Simplex_tree_multi_interface
+    : public Simplex_tree_interface<
+          Gudhi::multi_persistence::Simplex_tree_options_multidimensional_filtration<Filtration>> {
+ public:
+  using SimplexTreeOptions = Gudhi::multi_persistence::Simplex_tree_options_multidimensional_filtration<Filtration>;
+  using Python_filtration_type = std::vector<typename SimplexTreeOptions::value_type>;  // TODO :
+                                                                                        // std::conditional
+  using Base = Simplex_tree<SimplexTreeOptions>;
+  using Filtration_value = typename Base::Filtration_value;
+  using Vertex_handle = typename Base::Vertex_handle;
+  using Simplex_handle = typename Base::Simplex_handle;
+  using Insertion_result = typename std::pair<Simplex_handle, bool>;
+  using Simplex = std::vector<Vertex_handle>;
+  using Simplex_and_filtration = std::pair<Simplex, Filtration_value *>;
+  using Filtered_simplices = std::vector<Simplex_and_filtration>;
+  using Skeleton_simplex_iterator = typename Base::Skeleton_simplex_iterator;
+  using Complex_simplex_iterator = typename Base::Complex_simplex_iterator;
+  using Extended_filtration_data = typename Base::Extended_filtration_data;
+  using Boundary_simplex_iterator = typename Base::Boundary_simplex_iterator;
+  typedef bool (*blocker_func_t)(Simplex simplex, void *user_data);
+  using euler_chars_type = std::vector<int>;
+
+ public:
+  static_assert(std::is_same_v<typename Base::Filtration_value, Filtration_value>,
+                "value_type has to be the same as Filtration::value_type. This is only a hack for python");
+  Extended_filtration_data efd;
+
+  bool find_simplex(const Simplex &simplex) { return (Base::find(simplex) != Base::null_simplex()); }
+
+  void assign_simplex_filtration(const Simplex &simplex, const Filtration_value &filtration) {
+    Base::assign_filtration(Base::find(simplex), filtration);
+    Base::clear_filtration();
+  }
+
+  bool insert(const Simplex &simplex, const Filtration_value &filtration) {
+    Insertion_result result = Base::insert_simplex_and_subfaces(simplex, filtration);
+    if (result.first != Base::null_simplex()) Base::clear_filtration();
+    return (result.second);
+  }
+
+  // Do not interface this function, only used in alpha complex interface for
+  // complex creation
+  bool insert_simplex(const Simplex &simplex, const Filtration_value &filtration) {
+    Insertion_result result = Base::insert_simplex(simplex, filtration);
+    return (result.second);
+  }
+
+  //   bool insert_simplex(const Simplex& simplex, const Python_filtration_type&
+  //   filtration ) {
+  // 	Filtration_value& filtration_ = *(Filtration_value*)(&filtration); //
+  // Jardinage for no copy. 	Insertion_result result =
+  // Base::insert_simplex(simplex, filtration); 	return (result.second);
+  //   }
+
+  // Do not interface this function, only used in interface for complex creation
+  bool insert_simplex_and_subfaces(const Simplex &simplex, const Filtration_value &filtration) {
+    Insertion_result result = Base::insert_simplex_and_subfaces(simplex, filtration);
+    return (result.second);
+  }
+
+  //   bool insert_simplex_and_subfaces(const Simplex& simplex, const
+  //   Python_filtration_type& filtration ) {
+  // 	Filtration_value& filtration_ = *(Filtration_value*)(&filtration); //
+  // Jardinage for no copy. 	Insertion_result result =
+  // Base::insert_simplex_and_subfaces(simplex, filtration); 	return
+  // (result.second);
+  //   }
+
+  // Do not interface this function, only used in strong witness interface for
+  // complex creation
+  bool insert_simplex(const std::vector<std::size_t> &simplex, const typename Filtration_value::Generator &filtration) {
+    Insertion_result result = Base::insert_simplex(simplex, filtration);
+    return (result.second);
+  }
+
+  // Do not interface this function, only used in strong witness interface for
+  // complex creation
+  bool insert_simplex_and_subfaces(const std::vector<std::size_t> &simplex, const Filtration_value &filtration) {
+    Insertion_result result = Base::insert_simplex_and_subfaces(simplex, filtration);
+    return (result.second);
+  }
+
+  typename SimplexTreeOptions::Filtration_value *simplex_filtration(const Simplex &simplex) {
+    auto &filtration = Base::filtration_mutable(Base::find(simplex));
+    return &filtration;  // We return the pointer to get a numpy view
+                         // afterward
+  }
+
+  Simplex_and_filtration get_simplex_and_filtration(Simplex_handle f_simplex) {
+    // Simplex simplex;
+    // for (auto vertex : Base::simplex_vertex_range(f_simplex)) {
+    // //   simplex.insert(simplex.begin(), vertex); // why not push back ?
+    // }
+    auto it = Base::simplex_vertex_range(f_simplex);
+    Simplex simplex(it.begin(), it.end());
+    std::reverse(simplex.begin(), simplex.end());
+    return std::make_pair(std::move(simplex), &Base::filtration_mutable(f_simplex));
+  }
+
+  Filtered_simplices get_star(const Simplex &simplex) {
+    Filtered_simplices star;
+    for (auto f_simplex : Base::star_simplex_range(Base::find(simplex))) {
+      Simplex simplex_star;
+      for (auto vertex : Base::simplex_vertex_range(f_simplex)) {
+        simplex_star.insert(simplex_star.begin(), vertex);
+      }
+      star.push_back(std::make_pair(simplex_star, &Base::filtration_mutable(f_simplex)));
+    }
+    return star;
+  }
+
+  Filtered_simplices get_cofaces(const Simplex &simplex, int dimension) {
+    Filtered_simplices cofaces;
+    for (auto f_simplex : Base::cofaces_simplex_range(Base::find(simplex), dimension)) {
+      Simplex simplex_coface;
+      for (auto vertex : Base::simplex_vertex_range(f_simplex)) {
+        simplex_coface.insert(simplex_coface.begin(), vertex);
+      }
+      cofaces.push_back(std::make_pair(simplex_coface, &Base::filtration_mutable(f_simplex)));
+    }
+    return cofaces;
+  }
+
+  void compute_extended_filtration() { throw std::logic_error("Incompatible with multipers"); }
+
+  Simplex_tree_multi_interface *collapse_edges([[maybe_unused]] int nb_collapse_iteration) {
+    throw std::logic_error("Incompatible with multipers");
+  }
+
+  // ######################## MULTIPERS STUFF
+  void set_keys_to_enumerate() {
+    int count = 0;
+    for (auto sh : Base::filtration_simplex_range()) Base::assign_key(sh, count++);
+  }
+
+  int get_key(const Simplex &simplex) { return Base::key(Base::find(simplex)); }
+
+  void set_key(const Simplex &simplex, int key) {
+    Base::assign_key(Base::find(simplex), key);
+    return;
+  }
+
+  // Fills a parameter with a lower-star filtration
+  void fill_lowerstar(const std::vector<typename Filtration::value_type> &filtration, int axis) {
+    /* constexpr value_type minus_inf =
+     * -1*std::numeric_limits<value_type>::infinity(); */
+    std::vector<value_type> filtration_values_of_vertex;
+    for (auto &SimplexHandle : Base::complex_simplex_range()) {
+      auto &current_birth = Base::filtration_mutable(SimplexHandle);
+      /* value_type to_assign = minus_inf; */
+      filtration_values_of_vertex.clear();
+      for (auto vertex : Base::simplex_vertex_range(SimplexHandle)) {
+        if constexpr (std::numeric_limits<typename Filtration::value_type>::has_quiet_NaN)
+          /* to_assign = std::max(filtration[vertex], to_assign); */
+          if (std::isnan(filtration[vertex]))
+            std::cerr << "Invalid filtration for vertex " << vertex << " !!" << std::endl;
+        filtration_values_of_vertex.push_back(filtration[vertex]);
+      }
+      value_type to_assign = *std::max_element(filtration_values_of_vertex.begin(), filtration_values_of_vertex.end());
+      /* if (to_assign >10 || to_assign < -10 ) */
+      /*   std::cout <<"to_assign : "<< to_assign << std::endl; */
+      current_birth[axis] = to_assign;
+      // Base::assign_filtration(SimplexHandle, current_birth);
+    }
+  }
+
+  using simplices_list = std::vector<std::vector<int>>;
+
+  simplices_list get_simplices_of_dimension(int dimension) {
+    simplices_list simplex_list;
+    simplex_list.reserve(Base::num_simplices());
+    for (auto simplexhandle : Base::skeleton_simplex_range(dimension)) {
+      if (Base::dimension(simplexhandle) == dimension) {
+        std::vector<int> simplex;
+        simplex.reserve(dimension + 1);
+        for (int vertex : Base::simplex_vertex_range(simplexhandle)) simplex.push_back(vertex);
+        simplex_list.push_back(simplex);
+      }
+    }
+    /*	simplex_list.shrink_to_fit();*/
+    return simplex_list;
+  }
+
+  using edge_list = std::vector<std::pair<std::pair<int, int>, std::pair<double, double>>>;
+
+  edge_list get_edge_list() {
+    edge_list simplex_list;
+    simplex_list.reserve(Base::num_simplices());
+    for (auto &simplexHandle : Base::skeleton_simplex_range(1)) {
+      if (Base::dimension(simplexHandle) == 1) {
+        std::pair<int, int> simplex;
+        auto it = Base::simplex_vertex_range(simplexHandle).begin();
+        simplex = {*it, *(++it)};
+        const auto &f = Base::filtration(simplexHandle);
+        simplex_list.push_back({simplex, {static_cast<double>(f[0]), static_cast<double>(f[1])}});
+      }
+    }
+    return simplex_list;
+  }
+
+  void resize_all_filtrations(int num) {
+    if (num < 0) return;
+    for (const auto &SimplexHandle : Base::complex_simplex_range()) {
+      if constexpr (Filtration::is_multi_critical) {
+        for (auto &stuff : Base::filtration_mutable(SimplexHandle)) stuff.resize(num);
+      } else
+        Base::filtration_mutable(SimplexHandle).resize(num);
+    }
+  }
+
+  void from_std(char *buffer_start, std::size_t buffer_size, int dimension, const Filtration &default_values) {
+    interface_std st;
+    st.deserialize(buffer_start, buffer_size);
+    Gudhi::multi_persistence::multify(st, *this, dimension, default_values);
+  }
+
+  template <typename Line_like>
+  void to_std(intptr_t ptr, const Line_like &line, int dimension) {
+    interface_std &st = get_simplextree_from_pointer<interface_std>(ptr);
+
+    for (const auto &simplex_handle : this->complex_simplex_range()) {
+      std::vector<int> simplex;
+      for (auto vertex : this->simplex_vertex_range(simplex_handle)) simplex.push_back(vertex);
+
+      // Filtration as double
+      const auto &f = this->filtration(simplex_handle).template as_type<typename interface_std::Filtration_value>();
+
+      typename interface_std::Filtration_value new_filtration = line[line.compute_forward_intersection(f)][dimension];
+      st.insert_simplex(simplex, new_filtration);
+    }
+  }
+
+  void to_std_linear_projection(intptr_t ptr, std::vector<double> linear_form) {
+    interface_std &st = get_simplextree_from_pointer<interface_std>(ptr);
+    Gudhi::multi_persistence::linear_projection(st, *this, linear_form);
+  }
+
+  void squeeze_filtration_inplace(const std::vector<std::vector<double>> &grid, const bool coordinate_values = true) {
+    std::size_t num_parameters = this->get_number_of_parameters();
+    if (grid.size() != num_parameters) {
+      throw std::invalid_argument("Grid and simplextree do not agree on number of parameters.");
+    }
+    for (const auto &simplex_handle : this->complex_simplex_range()) {
+      auto &simplex_filtration = this->filtration_mutable(simplex_handle);
+      const auto &coords = compute_coordinates_in_grid(simplex_filtration, grid);
+      if (coordinate_values)
+        simplex_filtration = coords.template as_type<value_type>();
+      else
+        simplex_filtration = evaluate_coordinates_in_grid(coords, grid).template as_type<value_type>();
+    }
+  }
+
+  void unsqueeze_filtration(const intptr_t grid_st_ptr,
+                            const std::vector<std::vector<double>> &grid) {  // TODO : this is const but GUDHI
+    if constexpr (Filtration::is_multicritical())
+      throw std::invalid_argument("Multicritical not supported yet");
+    else {
+      constexpr const bool verbose = false;
+      using int_fil_type = decltype(std::declval<Filtration>().template as_type<std::int32_t>());
+      using st_coord_type = Simplex_tree_multi_interface<int_fil_type, int32_t>;
+      st_coord_type &grid_st = *(st_coord_type *)grid_st_ptr;  // TODO : maybe fix this.
+      std::vector<int> simplex_vertex;
+      int num_parameters = grid_st.get_number_of_parameters();
+      for (auto &simplex_handle : grid_st.complex_simplex_range()) {
+        const auto &simplex_filtration = grid_st.filtration(simplex_handle);
+        if constexpr (verbose) std::cout << "Filtration " << simplex_filtration << "\n";
+        Filtration splx_filtration(simplex_filtration.size(), 1.);
+        if (simplex_filtration.is_finite()) {
+          for (auto i : std::views::iota(num_parameters)) splx_filtration[i] = grid[i][simplex_filtration[i]];
+        } else if (simplex_filtration.is_plus_inf()) {
+          splx_filtration = Filtration().inf();
+        } else if (simplex_filtration.is_minus_inf()) {
+          splx_filtration = Filtration().minus_inf();
+        } else if (simplex_filtration.is_nan()) {
+          splx_filtration = Filtration().nan();
+        }
+        if constexpr (verbose) std::cout << "Filtration " << splx_filtration << "\n";
+        for (const auto s : grid_st.simplex_vertex_range(simplex_handle)) simplex_vertex.push_back(s);
+        this->insert_simplex(simplex_vertex, splx_filtration);
+        if constexpr (verbose) std::cout << "Coords in st" << this->filtration(this->find(simplex_vertex)) << std::endl;
+        simplex_vertex.clear();
+      }
+    }
+  }
+
+  void squeeze_filtration(const intptr_t outptr,
+                          const std::vector<std::vector<double>> &grid) {  // TODO : this is const but GUDHI
+    constexpr const bool verbose = false;
+    using int_fil_type = decltype(std::declval<Filtration>().template as_type<std::int32_t>());
+    using st_coord_type = Simplex_tree_multi_interface<int_fil_type, int32_t>;
+    st_coord_type &out = *(st_coord_type *)outptr;  // TODO : maybe fix this.
+    std::vector<int> simplex_vertex;
+    for (const auto &simplex_handle : this->complex_simplex_range()) {
+      const auto &simplex_filtration = this->filtration(simplex_handle);
+      if constexpr (verbose) std::cout << "Filtration " << simplex_filtration << "\n";
+      const auto &coords = compute_coordinates_in_grid(simplex_filtration, grid);
+      if constexpr (verbose) std::cout << "Coords " << coords << "\n";
+      for (auto s : this->simplex_vertex_range(simplex_handle)) simplex_vertex.push_back(s);
+      out.insert_simplex(simplex_vertex, coords);
+      if constexpr (verbose) std::cout << "Coords in st" << out.filtration(out.find(simplex_vertex)) << std::endl;
+      simplex_vertex.clear();
+    }
+  }
+
+  std::vector<std::vector<std::vector<value_type>>>  // dim, pts, param
+  get_filtration_values(const std::vector<int> &degrees) {
+    using multi_filtration_grid = std::vector<std::vector<value_type>>;
+    int num_parameters = this->get_number_of_parameters();
+    std::vector<multi_filtration_grid> out(degrees.size(), multi_filtration_grid(num_parameters));
+    std::vector<int> degree_index(this->dimension() + 1);
+    int count = 0;
+    for (auto degree : degrees) {
+      degree_index[degree] = count++;
+      out[degree_index[degree]].reserve(this->num_simplices());
+    }
+
+    for (const auto &simplex_handle : this->complex_simplex_range()) {
+      const auto &filtration = this->filtration(simplex_handle);
+      const auto degree = this->dimension(simplex_handle);
+      if (std::find(degrees.begin(), degrees.end(), degree) == degrees.end()) continue;
+      // for (int parameter = 0; parameter < num_parameters; parameter++) {
+      //   out[degree_index[degree]][parameter].push_back(filtration[parameter]);
+      // }
+      if constexpr (Filtration::is_multi_critical)
+        for (std::size_t i = 0; i < filtration.num_generators(); i++)
+          for (int parameter = 0; parameter < num_parameters; parameter++)
+            out[degree_index[degree]][parameter].push_back(filtration[i][parameter]);
+      else
+        for (int parameter = 0; parameter < num_parameters; parameter++)
+          out[degree_index[degree]][parameter].push_back(filtration[parameter]);
+    }
+    return out;
+  }
+
+  using boundary_type = std::vector<unsigned int>;
+  using boundary_matrix = std::vector<boundary_type>;
+
+  using scc_type = mma::scc_type<SimplexTreeOptions>;
+
+  scc_type inline simplextree_to_scc() { return Gudhi::multiparameter::mma::simplextree_to_scc(*this); }
+
+  using kscc_type = mma::kscc_type<SimplexTreeOptions>;
+
+  kscc_type inline kcritical_simplextree_to_scc() {
+    if constexpr (SimplexTreeOptions::Filtration_value::is_multi_critical)
+      return Gudhi::multiparameter::mma::kcritical_simplextree_to_scc(*this);
+    else
+      return {};
+  }
+
+  using function_scc_type = std::vector<std::pair<std::vector<std::vector<std::vector<value_type>>>, boundary_matrix>>;
+
+  function_scc_type inline function_simplextree_to_scc() {
+    return Gudhi::multiparameter::mma::function_simplextree_to_scc(*this);
+  }
+
+  using flattened_scc_type = std::pair<std::vector<std::vector<value_type>>, std::vector<std::vector<unsigned int>>>;
+
+  flattened_scc_type inline simplextree_to_ordered_bf() {
+    return Gudhi::multiparameter::mma::simplextree_to_ordered_bf(*this);
+  }
+
+  // Diff / grid stuff
+
+  using idx_map_type = std::vector<std::map<typename Filtration::value_type, int32_t>>;
+
+  inline idx_map_type build_idx_map(const std::vector<int> &simplices_dimensions) {
+    static_assert(!Filtration::is_multi_critical, "Multicritical not supported yet");
+    auto num_parameters = this->get_number_of_parameters();
+    if (static_cast<int>(simplices_dimensions.size()) < num_parameters) throw;
+    int max_dim = *std::max_element(simplices_dimensions.begin(), simplices_dimensions.end());
+    int min_dim = *std::min_element(simplices_dimensions.begin(), simplices_dimensions.end());
+    max_dim = min_dim >= 0 ? max_dim : this->dimension();
+
+    idx_map_type idx_map(num_parameters);
+    auto splx_idx = 0u;
+    for (auto sh : this->complex_simplex_range()) {  // order has to be retrieved later, so I'm
+                                                     // not sure that skeleton iterator is well
+                                                     // suited
+      const auto &splx_filtration = this->filtration(sh);
+      const auto splx_dim = this->dimension(sh);
+      if (splx_dim <= max_dim)
+        for (auto i = 0u; i < splx_filtration.size(); i++) {
+          if (simplices_dimensions[i] != splx_dim && simplices_dimensions[i] != -1) continue;
+          auto f = splx_filtration[i];
+          idx_map[i].try_emplace(f, splx_idx);
+        }
+      splx_idx++;
+    }
+    return idx_map;
+  };
+
+  using pts_indices_type = std::vector<std::vector<int32_t>>;
+
+  static std::pair<pts_indices_type, pts_indices_type> inline get_pts_indices(
+      const idx_map_type &idx_map,
+      const std::vector<std::vector<typename Filtration::value_type>> &pts) {
+    static_assert(!Filtration::is_multi_critical, "Multicritical not supported yet");
+    std::size_t num_pts = pts.size();
+    std::size_t num_parameters = idx_map.size();
+    pts_indices_type out_indices(num_pts,
+                                 std::vector<int32_t>(num_parameters,
+                                                      -1));  // -1 to be able from indicies to
+                                                             // get if the pt is found or not
+    pts_indices_type out_unmapped_values;
+    for (auto pt_idx = 0u; pt_idx < num_pts; pt_idx++) {
+      auto &pt = pts[pt_idx];
+      auto &pt_indices = out_indices[pt_idx];
+
+      for (std::size_t parameter = 0u; parameter < num_parameters; parameter++) {
+        value_type f = pt[parameter];
+        const std::map<value_type, int32_t> &parameter_map = idx_map[parameter];
+        auto it = parameter_map.find(f);
+        if (it == parameter_map.end())
+          out_unmapped_values.push_back({static_cast<int32_t>(pt_idx), static_cast<int32_t>(parameter)});
+        else
+          pt_indices[parameter] = it->second;
+      }
+    }
+    return {out_indices, out_unmapped_values};  // TODO return a ptr for python
+  }
+
+  std::pair<pts_indices_type, pts_indices_type> inline pts_to_indices(
+      const std::vector<std::vector<typename Filtration::value_type>> &pts,
+      const std::vector<int> &simplices_dimensions) {
+    return get_pts_indices(this->build_idx_map(simplices_dimensions), pts);
+  }
+};
+
+template <typename Filtration>
+using interface_multi = Simplex_tree_multi_interface<
+    Gudhi::multi_persistence::Simplex_tree_options_multidimensional_filtration<Filtration>>;
+
+// Wrappers of the functions in Simplex_tree_multi.h, to deal with the "pointer
+// only" python interface
+template <typename Filtration>
+void inline flatten_diag_from_ptr(const uintptr_t splxptr,
+                                  const uintptr_t newsplxptr,
+                                  const std::vector<typename Filtration::value_type> basepoint,
+                                  int dimension) {  // for python
+  auto &st = get_simplextree_from_pointer<interface_std>(newsplxptr);
+  auto &st_multi = get_simplextree_from_pointer<interface_multi<Filtration>>(splxptr);
+  flatten_diag(st, st_multi, basepoint, dimension);
+}
+
+template <typename Filtration>
+void inline multify_from_ptr(uintptr_t splxptr,
+                             uintptr_t newsplxptr,
+                             const int dimension,
+                             const Filtration &default_values) {  // for python
+  auto &st = get_simplextree_from_pointer<interface_std>(splxptr);
+  auto &st_multi = get_simplextree_from_pointer<interface_multi<Filtration>>(newsplxptr);
+  Gudhi::multi_persistence::multify(st, st_multi, dimension, default_values);
+}
+
+template <typename Filtration>
+void inline flatten_from_ptr(uintptr_t splxptr,
+                             uintptr_t newsplxptr,
+                             const int dimension = 0) {  // for python
+  auto &st = get_simplextree_from_pointer<interface_std>(newsplxptr);
+  auto &st_multi = get_simplextree_from_pointer<interface_multi<Filtration>>(splxptr);
+  Gudhi::multi_persistence::flatten(st, st_multi, dimension);
+}
+
+template <typename Filtration, typename... Args>
+void inline linear_projection_from_ptr(const uintptr_t ptr, const uintptr_t ptr_multi, Args... args) {
+  auto &st = get_simplextree_from_pointer<interface_std>(ptr);
+  auto &st_multi = get_simplextree_from_pointer<interface_multi<Filtration>>(ptr_multi);
+  Gudhi::multi_persistence::linear_projection(st, st_multi, args...);
+}
+
+template <typename Filtration = typename Gudhi::multi_filtration::One_critical_filtration<float>>
+using options_multi = Gudhi::multi_persistence::Simplex_tree_options_multidimensional_filtration<Filtration>;
+
+template <typename Filtration, typename... Args>
+void inline squeeze_filtration_from_ptr(uintptr_t splxptr, Args... args) {
+  Simplex_tree<options_multi<Filtration>> &st_multi = *(Gudhi::Simplex_tree<options_multi<Filtration>> *)(splxptr);
+  squeeze_filtration(st_multi, args...);
+  return;
+}
+
+template <typename Filtration, typename... Args>
+inline std::vector<std::vector<std::vector<Filtration>>> get_filtration_values_from_ptr(uintptr_t splxptr,
+                                                                                        Args... args) {
+  Simplex_tree<options_multi<Filtration>> &st_multi = *(Gudhi::Simplex_tree<options_multi<Filtration>> *)(splxptr);
+  return get_filtration_values(st_multi, args...);
+}
+
+// Final types
+//
+//
+
+template <typename Filtration>
+using Simplex_tree_multi_simplex_handle = typename Simplex_tree_multi_interface<Filtration>::Simplex_handle;
+
+template <typename Filtration>
+using Simplex_tree_multi_simplices_iterator =
+    typename Simplex_tree_multi_interface<Filtration>::Complex_simplex_iterator;
+template <typename Filtration>
+using Simplex_tree_multi_skeleton_iterator =
+    typename Simplex_tree_multi_interface<Filtration>::Skeleton_simplex_iterator;
+template <typename Filtration>
+using Simplex_tree_multi_boundary_iterator =
+    typename Simplex_tree_multi_interface<Filtration>::Boundary_simplex_iterator;
+}  // namespace python_interface
+}  // namespace multiparameter
+}  // namespace Gudhi

multipers/gudhi/cubical_to_boundary.h

@@ -0,0 +1,59 @@
+#ifndef MULTIPERS_CUBICAL_CONV_H
+#define MULTIPERS_CUBICAL_CONV_H
+
+#include <vector>
+#include <set>
+
+#include <gudhi/Bitmap_cubical_complex.h>
+
+inline void _to_boundary(const std::vector<unsigned int>& shape,
+                         std::vector<std::vector<unsigned int> >& generator_maps,
+                         std::vector<int>& generator_dimensions) {
+  using Bitmap_cubical_complex_base = Gudhi::cubical_complex::Bitmap_cubical_complex_base<char>;
+  using Bitmap_cubical_complex = Gudhi::cubical_complex::Bitmap_cubical_complex<Bitmap_cubical_complex_base>;
+  using Simplex_handle = Bitmap_cubical_complex::Simplex_handle;
+
+  if (shape.empty()) return;
+
+  unsigned int size = 1;
+  for (auto v : shape) size *= v;
+
+  std::vector<char> vertices(size);
+  Bitmap_cubical_complex cub(shape, vertices, false);
+
+  unsigned int dimMax = shape.size();
+  std::vector<std::vector<Simplex_handle> > faces(dimMax + 1);
+  unsigned int numberOfSimplices = 0;
+  for (unsigned int d = 0; d < dimMax + 1; ++d) {
+    for ([[maybe_unused]] auto sh : cub.skeleton_simplex_range(d)) {
+      ++numberOfSimplices;
+    }
+  }
+
+  generator_dimensions.resize(numberOfSimplices);
+  generator_maps.resize(numberOfSimplices);
+  unsigned int i = 0;
+  for (unsigned int d = 0; d < dimMax + 1; ++d) {
+    for (auto sh : cub.skeleton_simplex_range(d)) {
+      cub.assign_key(sh, i);
+      generator_dimensions[i] = d;
+      auto& col = generator_maps[i];
+      for (auto b : cub.boundary_simplex_range(sh)) col.push_back(cub.key(b));
+      std::sort(col.begin(), col.end());
+      ++i;
+    }
+  }
+};
+
+inline void get_vertices(unsigned int i,
+                         std::set<unsigned int>& vertices,
+                         const std::vector<std::vector<unsigned int> >& generator_maps) {
+  if (generator_maps[i].empty()) {
+    vertices.insert(i);
+    return;
+  }
+
+  for (auto v : generator_maps[i]) get_vertices(v, vertices, generator_maps);
+}
+
+#endif  // MULTIPERS_CUBICAL_CONV_H