multipers 2.2.3__cp310-cp310-win_amd64.whl → 2.3.0__cp310-cp310-win_amd64.whl
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- multipers/__init__.py +33 -31
- multipers/_signed_measure_meta.py +430 -430
- multipers/_slicer_meta.py +211 -212
- multipers/data/MOL2.py +458 -458
- multipers/data/UCR.py +18 -18
- multipers/data/graphs.py +466 -466
- multipers/data/immuno_regions.py +27 -27
- multipers/data/pytorch2simplextree.py +90 -90
- multipers/data/shape3d.py +101 -101
- multipers/data/synthetic.py +113 -111
- multipers/distances.py +198 -198
- multipers/filtration_conversions.pxd.tp +84 -84
- multipers/filtrations/__init__.py +18 -0
- multipers/filtrations/filtrations.py +289 -0
- multipers/filtrations.pxd +224 -224
- multipers/function_rips.cp310-win_amd64.pyd +0 -0
- multipers/function_rips.pyx +105 -105
- multipers/grids.cp310-win_amd64.pyd +0 -0
- multipers/grids.pyx +350 -350
- multipers/gudhi/Persistence_slices_interface.h +132 -132
- multipers/gudhi/Simplex_tree_interface.h +239 -245
- multipers/gudhi/Simplex_tree_multi_interface.h +516 -561
- multipers/gudhi/cubical_to_boundary.h +59 -59
- multipers/gudhi/gudhi/Bitmap_cubical_complex.h +450 -450
- multipers/gudhi/gudhi/Bitmap_cubical_complex_base.h +1070 -1070
- multipers/gudhi/gudhi/Bitmap_cubical_complex_periodic_boundary_conditions_base.h +579 -579
- multipers/gudhi/gudhi/Debug_utils.h +45 -45
- multipers/gudhi/gudhi/Fields/Multi_field.h +484 -484
- multipers/gudhi/gudhi/Fields/Multi_field_operators.h +455 -455
- multipers/gudhi/gudhi/Fields/Multi_field_shared.h +450 -450
- multipers/gudhi/gudhi/Fields/Multi_field_small.h +531 -531
- multipers/gudhi/gudhi/Fields/Multi_field_small_operators.h +507 -507
- multipers/gudhi/gudhi/Fields/Multi_field_small_shared.h +531 -531
- multipers/gudhi/gudhi/Fields/Z2_field.h +355 -355
- multipers/gudhi/gudhi/Fields/Z2_field_operators.h +376 -376
- multipers/gudhi/gudhi/Fields/Zp_field.h +420 -420
- multipers/gudhi/gudhi/Fields/Zp_field_operators.h +400 -400
- multipers/gudhi/gudhi/Fields/Zp_field_shared.h +418 -418
- multipers/gudhi/gudhi/Flag_complex_edge_collapser.h +337 -337
- multipers/gudhi/gudhi/Matrix.h +2107 -2107
- multipers/gudhi/gudhi/Multi_critical_filtration.h +1038 -1038
- multipers/gudhi/gudhi/Multi_persistence/Box.h +171 -171
- multipers/gudhi/gudhi/Multi_persistence/Line.h +282 -282
- multipers/gudhi/gudhi/Off_reader.h +173 -173
- multipers/gudhi/gudhi/One_critical_filtration.h +1432 -1431
- multipers/gudhi/gudhi/Persistence_matrix/Base_matrix.h +769 -769
- multipers/gudhi/gudhi/Persistence_matrix/Base_matrix_with_column_compression.h +686 -686
- multipers/gudhi/gudhi/Persistence_matrix/Boundary_matrix.h +842 -842
- multipers/gudhi/gudhi/Persistence_matrix/Chain_matrix.h +1350 -1350
- multipers/gudhi/gudhi/Persistence_matrix/Id_to_index_overlay.h +1105 -1105
- multipers/gudhi/gudhi/Persistence_matrix/Position_to_index_overlay.h +859 -859
- multipers/gudhi/gudhi/Persistence_matrix/RU_matrix.h +910 -910
- multipers/gudhi/gudhi/Persistence_matrix/allocators/entry_constructors.h +139 -139
- multipers/gudhi/gudhi/Persistence_matrix/base_pairing.h +230 -230
- multipers/gudhi/gudhi/Persistence_matrix/base_swap.h +211 -211
- multipers/gudhi/gudhi/Persistence_matrix/boundary_cell_position_to_id_mapper.h +60 -60
- multipers/gudhi/gudhi/Persistence_matrix/boundary_face_position_to_id_mapper.h +60 -60
- multipers/gudhi/gudhi/Persistence_matrix/chain_pairing.h +136 -136
- multipers/gudhi/gudhi/Persistence_matrix/chain_rep_cycles.h +190 -190
- multipers/gudhi/gudhi/Persistence_matrix/chain_vine_swap.h +616 -616
- multipers/gudhi/gudhi/Persistence_matrix/columns/chain_column_extra_properties.h +150 -150
- multipers/gudhi/gudhi/Persistence_matrix/columns/column_dimension_holder.h +106 -106
- multipers/gudhi/gudhi/Persistence_matrix/columns/column_utilities.h +219 -219
- multipers/gudhi/gudhi/Persistence_matrix/columns/entry_types.h +327 -327
- multipers/gudhi/gudhi/Persistence_matrix/columns/heap_column.h +1140 -1140
- multipers/gudhi/gudhi/Persistence_matrix/columns/intrusive_list_column.h +934 -934
- multipers/gudhi/gudhi/Persistence_matrix/columns/intrusive_set_column.h +934 -934
- multipers/gudhi/gudhi/Persistence_matrix/columns/list_column.h +980 -980
- multipers/gudhi/gudhi/Persistence_matrix/columns/naive_vector_column.h +1092 -1092
- multipers/gudhi/gudhi/Persistence_matrix/columns/row_access.h +192 -192
- multipers/gudhi/gudhi/Persistence_matrix/columns/set_column.h +921 -921
- multipers/gudhi/gudhi/Persistence_matrix/columns/small_vector_column.h +1093 -1093
- multipers/gudhi/gudhi/Persistence_matrix/columns/unordered_set_column.h +1012 -1012
- multipers/gudhi/gudhi/Persistence_matrix/columns/vector_column.h +1244 -1244
- multipers/gudhi/gudhi/Persistence_matrix/matrix_dimension_holders.h +186 -186
- multipers/gudhi/gudhi/Persistence_matrix/matrix_row_access.h +164 -164
- multipers/gudhi/gudhi/Persistence_matrix/ru_pairing.h +156 -156
- multipers/gudhi/gudhi/Persistence_matrix/ru_rep_cycles.h +376 -376
- multipers/gudhi/gudhi/Persistence_matrix/ru_vine_swap.h +540 -540
- multipers/gudhi/gudhi/Persistent_cohomology/Field_Zp.h +118 -118
- multipers/gudhi/gudhi/Persistent_cohomology/Multi_field.h +173 -173
- multipers/gudhi/gudhi/Persistent_cohomology/Persistent_cohomology_column.h +128 -128
- multipers/gudhi/gudhi/Persistent_cohomology.h +745 -745
- multipers/gudhi/gudhi/Points_off_io.h +171 -171
- multipers/gudhi/gudhi/Simple_object_pool.h +69 -69
- multipers/gudhi/gudhi/Simplex_tree/Simplex_tree_iterators.h +463 -463
- multipers/gudhi/gudhi/Simplex_tree/Simplex_tree_node_explicit_storage.h +83 -83
- multipers/gudhi/gudhi/Simplex_tree/Simplex_tree_siblings.h +106 -106
- multipers/gudhi/gudhi/Simplex_tree/Simplex_tree_star_simplex_iterators.h +277 -277
- multipers/gudhi/gudhi/Simplex_tree/hooks_simplex_base.h +62 -62
- multipers/gudhi/gudhi/Simplex_tree/indexing_tag.h +27 -27
- multipers/gudhi/gudhi/Simplex_tree/serialization_utils.h +62 -62
- multipers/gudhi/gudhi/Simplex_tree/simplex_tree_options.h +157 -157
- multipers/gudhi/gudhi/Simplex_tree.h +2794 -2794
- multipers/gudhi/gudhi/Simplex_tree_multi.h +152 -163
- multipers/gudhi/gudhi/distance_functions.h +62 -62
- multipers/gudhi/gudhi/graph_simplicial_complex.h +104 -104
- multipers/gudhi/gudhi/persistence_interval.h +253 -253
- multipers/gudhi/gudhi/persistence_matrix_options.h +170 -170
- multipers/gudhi/gudhi/reader_utils.h +367 -367
- multipers/gudhi/mma_interface_coh.h +256 -255
- multipers/gudhi/mma_interface_h0.h +223 -231
- multipers/gudhi/mma_interface_matrix.h +284 -282
- multipers/gudhi/naive_merge_tree.h +536 -575
- multipers/gudhi/scc_io.h +310 -289
- multipers/gudhi/truc.h +890 -888
- multipers/io.cp310-win_amd64.pyd +0 -0
- multipers/io.pyx +711 -711
- multipers/ml/accuracies.py +90 -90
- multipers/ml/convolutions.py +520 -520
- multipers/ml/invariants_with_persistable.py +79 -79
- multipers/ml/kernels.py +176 -176
- multipers/ml/mma.py +713 -714
- multipers/ml/one.py +472 -472
- multipers/ml/point_clouds.py +352 -346
- multipers/ml/signed_measures.py +1589 -1589
- multipers/ml/sliced_wasserstein.py +461 -461
- multipers/ml/tools.py +113 -113
- multipers/mma_structures.cp310-win_amd64.pyd +0 -0
- multipers/mma_structures.pxd +127 -127
- multipers/mma_structures.pyx +4 -4
- multipers/mma_structures.pyx.tp +1085 -1085
- multipers/multi_parameter_rank_invariant/diff_helpers.h +84 -93
- multipers/multi_parameter_rank_invariant/euler_characteristic.h +97 -97
- multipers/multi_parameter_rank_invariant/function_rips.h +322 -322
- multipers/multi_parameter_rank_invariant/hilbert_function.h +769 -769
- multipers/multi_parameter_rank_invariant/persistence_slices.h +148 -148
- multipers/multi_parameter_rank_invariant/rank_invariant.h +369 -369
- multipers/multiparameter_edge_collapse.py +41 -41
- multipers/multiparameter_module_approximation/approximation.h +2296 -2295
- multipers/multiparameter_module_approximation/combinatory.h +129 -129
- multipers/multiparameter_module_approximation/debug.h +107 -107
- multipers/multiparameter_module_approximation/format_python-cpp.h +286 -286
- multipers/multiparameter_module_approximation/heap_column.h +238 -238
- multipers/multiparameter_module_approximation/images.h +79 -79
- multipers/multiparameter_module_approximation/list_column.h +174 -174
- multipers/multiparameter_module_approximation/list_column_2.h +232 -232
- multipers/multiparameter_module_approximation/ru_matrix.h +347 -347
- multipers/multiparameter_module_approximation/set_column.h +135 -135
- multipers/multiparameter_module_approximation/structure_higher_dim_barcode.h +36 -36
- multipers/multiparameter_module_approximation/unordered_set_column.h +166 -166
- multipers/multiparameter_module_approximation/utilities.h +403 -419
- multipers/multiparameter_module_approximation/vector_column.h +223 -223
- multipers/multiparameter_module_approximation/vector_matrix.h +331 -331
- multipers/multiparameter_module_approximation/vineyards.h +464 -464
- multipers/multiparameter_module_approximation/vineyards_trajectories.h +649 -649
- multipers/multiparameter_module_approximation.cp310-win_amd64.pyd +0 -0
- multipers/multiparameter_module_approximation.pyx +216 -217
- multipers/pickle.py +90 -53
- multipers/plots.py +342 -334
- multipers/point_measure.cp310-win_amd64.pyd +0 -0
- multipers/point_measure.pyx +322 -320
- multipers/simplex_tree_multi.cp310-win_amd64.pyd +0 -0
- multipers/simplex_tree_multi.pxd +133 -133
- multipers/simplex_tree_multi.pyx +18 -15
- multipers/simplex_tree_multi.pyx.tp +1939 -1935
- multipers/slicer.cp310-win_amd64.pyd +0 -0
- multipers/slicer.pxd +81 -20
- multipers/slicer.pxd.tp +215 -214
- multipers/slicer.pyx +1091 -308
- multipers/slicer.pyx.tp +924 -914
- multipers/tensor/tensor.h +672 -672
- multipers/tensor.pxd +13 -13
- multipers/test.pyx +44 -44
- multipers/tests/__init__.py +57 -57
- multipers/torch/diff_grids.py +217 -217
- multipers/torch/rips_density.py +310 -304
- {multipers-2.2.3.dist-info → multipers-2.3.0.dist-info}/LICENSE +21 -21
- {multipers-2.2.3.dist-info → multipers-2.3.0.dist-info}/METADATA +21 -11
- multipers-2.3.0.dist-info/RECORD +182 -0
- multipers/tests/test_diff_helper.py +0 -73
- multipers/tests/test_hilbert_function.py +0 -82
- multipers/tests/test_mma.py +0 -83
- multipers/tests/test_point_clouds.py +0 -49
- multipers/tests/test_python-cpp_conversion.py +0 -82
- multipers/tests/test_signed_betti.py +0 -181
- multipers/tests/test_signed_measure.py +0 -89
- multipers/tests/test_simplextreemulti.py +0 -221
- multipers/tests/test_slicer.py +0 -221
- multipers-2.2.3.dist-info/RECORD +0 -189
- {multipers-2.2.3.dist-info → multipers-2.3.0.dist-info}/WHEEL +0 -0
- {multipers-2.2.3.dist-info → multipers-2.3.0.dist-info}/top_level.txt +0 -0
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/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
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* See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
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* Author(s): Hannah Schreiber
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* Copyright (C) 2022-23 Inria
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* Modification(s):
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* - YYYY/MM Author: Description of the modification
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*/
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/**
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* @file base_swap.h
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* @author Hannah Schreiber
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* @brief Contains the @ref Gudhi::persistence_matrix::Base_swap class and
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* @ref Gudhi::persistence_matrix::Dummy_base_swap structure.
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*/
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#ifndef PM_BASE_SWAP_H
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#define PM_BASE_SWAP_H
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#include <utility> //std::swap, std::move & std::exchange
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#include <algorithm> //std::max
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namespace Gudhi {
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namespace persistence_matrix {
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/**
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* @ingroup persistence_matrix
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*
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* @brief Empty structure.
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* Inherited instead of @ref Base_swap, when the column and row swaps are not enabled.
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*/
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struct Dummy_base_swap {
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friend void swap([[maybe_unused]] Dummy_base_swap& d1, [[maybe_unused]] Dummy_base_swap& d2) {}
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Dummy_base_swap([[maybe_unused]] unsigned int numberOfColumns = 0) {}
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};
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/**
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* @class Base_swap base_swap.h gudhi/Persistence_matrix/base_swap.h
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* @ingroup persistence_matrix
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*
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* @brief Class managing the column and row swaps in @ref Base_matrix and @ref Boundary_matrix.
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*
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* @tparam Master_matrix An instantiation of @ref Matrix from which all types and options are deduced.
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* @tparam Base_matrix Either @ref Base_matrix or @ref Boundary_matrix.
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*/
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template <class Master_matrix, class Base_matrix>
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class Base_swap {
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public:
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using Column_container = typename Master_matrix::Column_container; /**< Column container type. */
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using Index = typename Master_matrix::Index; /**< Container index type. */
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using ID_index = typename Master_matrix::ID_index; /**< @ref IDIdx index type. */
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/**
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* @brief Default constructor.
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*/
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Base_swap();
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/**
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* @brief As default constructor, but reserves spaces for @p numberOfColumns columns.
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*
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*/
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Base_swap(unsigned int numberOfColumns);
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* @brief Copy constructor.
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*
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Base_swap(const Base_swap& matrixToCopy) = default;
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* @brief Move constructor.
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*
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*/
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* @brief Swaps the two columns at given indices in the column container. Does not updates the column index value,
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* @brief Swaps the two rows at the given indices, but in a lazy manner. That is, the swap is registered but not
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* executed. The reordering will be done when calling `_orderRows()`.
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void swap_rows(ID_index rowIndex1, ID_index rowIndex2);
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friend void swap(Base_swap& base1, Base_swap& base2) {
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base1.indexToRow_.swap(base2.indexToRow_);
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base1.rowToIndex_.swap(base2.rowToIndex_);
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std::swap(base1.rowSwapped_, base2.rowSwapped_);
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}
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protected:
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using Index_dictionary = typename Master_matrix::template Dictionary<Index>;
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using Row_dictionary = typename Master_matrix::template Dictionary<ID_index>;
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Index_dictionary indexToRow_; /**< Map from row index to actual index in row container. */
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void _orderRows();
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//access to inheriting matrix class
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constexpr Base_matrix* _matrix() { return static_cast<Base_matrix*>(this); }
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constexpr const Base_matrix* _matrix() const { return static_cast<const Base_matrix*>(this); }
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};
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template <class Master_matrix, class Base_matrix>
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inline Base_swap<Master_matrix, Base_matrix>::Base_swap() : rowSwapped_(false)
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{}
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template <class Master_matrix, class Base_matrix>
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inline Base_swap<Master_matrix, Base_matrix>::Base_swap(unsigned int numberOfColumns)
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: indexToRow_(numberOfColumns), rowToIndex_(numberOfColumns), rowSwapped_(false)
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{
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for (Index i = 0; i < numberOfColumns; i++) {
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indexToRow_[i] = i;
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rowToIndex_[i] = i;
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}
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}
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template <class Master_matrix, class Base_matrix>
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inline Base_swap<Master_matrix, Base_matrix>::Base_swap(Base_swap&& other) noexcept
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: indexToRow_(std::move(other.indexToRow_)),
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rowToIndex_(std::move(other.rowToIndex_)),
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rowSwapped_(std::exchange(other.rowSwapped_, 0))
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{}
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template <class Master_matrix, class Base_matrix>
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inline void Base_swap<Master_matrix, Base_matrix>::swap_columns(Index columnIndex1, Index columnIndex2)
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{
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swap(_matrix()->matrix_.at(columnIndex1), _matrix()->matrix_.at(columnIndex2));
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if constexpr (Master_matrix::Option_list::has_row_access) rowSwapped_ = true; //to update column index in entries.
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}
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template <class Master_matrix, class Base_matrix>
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inline void Base_swap<Master_matrix, Base_matrix>::swap_rows(ID_index rowIndex1, ID_index rowIndex2)
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{
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rowSwapped_ = true;
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if constexpr (Master_matrix::Option_list::has_map_column_container) {
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auto it1 = indexToRow_.find(rowIndex1);
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auto it2 = indexToRow_.find(rowIndex2);
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if (it1 == indexToRow_.end() && it2 == indexToRow_.end()) return;
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if (it1 == indexToRow_.end()) {
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indexToRow_.emplace(rowIndex1, it2->second);
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rowToIndex_.at(it2->second) = rowIndex1;
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indexToRow_.erase(it2->second);
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return;
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}
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if (it2 == indexToRow_.end()) {
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indexToRow_.emplace(rowIndex2, it1->second);
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rowToIndex_.at(it1->second) = rowIndex2;
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indexToRow_.erase(it1);
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return;
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}
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std::swap(rowToIndex_.at(it1->second), rowToIndex_.at(it2->second));
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std::swap(it1->second, it2->second);
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} else {
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for (auto i = indexToRow_.size(); i <= std::max(rowIndex1, rowIndex2); ++i) indexToRow_.push_back(i);
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std::swap(rowToIndex_[indexToRow_[rowIndex1]], rowToIndex_[indexToRow_[rowIndex2]]);
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std::swap(indexToRow_[rowIndex1], indexToRow_[rowIndex2]);
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}
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}
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template <class Master_matrix, class Base_matrix>
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inline Base_swap<Master_matrix, Base_matrix>& Base_swap<Master_matrix, Base_matrix>::operator=(Base_swap other)
|
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{
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indexToRow_.swap(other.indexToRow_);
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rowToIndex_.swap(other.rowToIndex_);
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std::swap(rowSwapped_, other.rowSwapped_);
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return *this;
|
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}
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-
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template <class Master_matrix, class Base_matrix>
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inline void Base_swap<Master_matrix, Base_matrix>::_orderRows()
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{
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for (unsigned int i = 0; i < _matrix()->get_number_of_columns(); i++) {
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_matrix()->matrix_.at(i).reorder(rowToIndex_, i);
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}
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for (Index i = 0; i < _matrix()->get_number_of_columns(); i++) {
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indexToRow_[i] = i;
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rowToIndex_[i] = i;
|
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}
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|
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rowSwapped_ = false;
|
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206
|
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}
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-
|
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208
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} // namespace persistence_matrix
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209
|
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} // namespace Gudhi
|
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#endif // PM_BASE_SWAP_H
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1
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+
/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
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|
2
|
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* See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
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3
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+
* Author(s): Hannah Schreiber
|
|
4
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+
*
|
|
5
|
+
* Copyright (C) 2022-23 Inria
|
|
6
|
+
*
|
|
7
|
+
* Modification(s):
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+
* - YYYY/MM Author: Description of the modification
|
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9
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+
*/
|
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10
|
+
|
|
11
|
+
/**
|
|
12
|
+
* @file base_swap.h
|
|
13
|
+
* @author Hannah Schreiber
|
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14
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+
* @brief Contains the @ref Gudhi::persistence_matrix::Base_swap class and
|
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15
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+
* @ref Gudhi::persistence_matrix::Dummy_base_swap structure.
|
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16
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+
*/
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+
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18
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+
#ifndef PM_BASE_SWAP_H
|
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19
|
+
#define PM_BASE_SWAP_H
|
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20
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+
|
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21
|
+
#include <utility> //std::swap, std::move & std::exchange
|
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22
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+
#include <algorithm> //std::max
|
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23
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+
|
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24
|
+
namespace Gudhi {
|
|
25
|
+
namespace persistence_matrix {
|
|
26
|
+
|
|
27
|
+
/**
|
|
28
|
+
* @ingroup persistence_matrix
|
|
29
|
+
*
|
|
30
|
+
* @brief Empty structure.
|
|
31
|
+
* Inherited instead of @ref Base_swap, when the column and row swaps are not enabled.
|
|
32
|
+
*/
|
|
33
|
+
struct Dummy_base_swap {
|
|
34
|
+
friend void swap([[maybe_unused]] Dummy_base_swap& d1, [[maybe_unused]] Dummy_base_swap& d2) {}
|
|
35
|
+
|
|
36
|
+
Dummy_base_swap([[maybe_unused]] unsigned int numberOfColumns = 0) {}
|
|
37
|
+
};
|
|
38
|
+
|
|
39
|
+
/**
|
|
40
|
+
* @class Base_swap base_swap.h gudhi/Persistence_matrix/base_swap.h
|
|
41
|
+
* @ingroup persistence_matrix
|
|
42
|
+
*
|
|
43
|
+
* @brief Class managing the column and row swaps in @ref Base_matrix and @ref Boundary_matrix.
|
|
44
|
+
*
|
|
45
|
+
* @tparam Master_matrix An instantiation of @ref Matrix from which all types and options are deduced.
|
|
46
|
+
* @tparam Base_matrix Either @ref Base_matrix or @ref Boundary_matrix.
|
|
47
|
+
*/
|
|
48
|
+
template <class Master_matrix, class Base_matrix>
|
|
49
|
+
class Base_swap {
|
|
50
|
+
public:
|
|
51
|
+
using Column_container = typename Master_matrix::Column_container; /**< Column container type. */
|
|
52
|
+
using Index = typename Master_matrix::Index; /**< Container index type. */
|
|
53
|
+
using ID_index = typename Master_matrix::ID_index; /**< @ref IDIdx index type. */
|
|
54
|
+
|
|
55
|
+
/**
|
|
56
|
+
* @brief Default constructor.
|
|
57
|
+
*/
|
|
58
|
+
Base_swap();
|
|
59
|
+
/**
|
|
60
|
+
* @brief As default constructor, but reserves spaces for @p numberOfColumns columns.
|
|
61
|
+
*
|
|
62
|
+
* @param numberOfColumns Number of columns to reserve space for.
|
|
63
|
+
*/
|
|
64
|
+
Base_swap(unsigned int numberOfColumns);
|
|
65
|
+
/**
|
|
66
|
+
* @brief Copy constructor.
|
|
67
|
+
*
|
|
68
|
+
* @param matrixToCopy Matrix to copy.
|
|
69
|
+
*/
|
|
70
|
+
Base_swap(const Base_swap& matrixToCopy) = default;
|
|
71
|
+
/**
|
|
72
|
+
* @brief Move constructor.
|
|
73
|
+
*
|
|
74
|
+
* @param other Matrix to move.
|
|
75
|
+
*/
|
|
76
|
+
Base_swap(Base_swap&& other) noexcept;
|
|
77
|
+
|
|
78
|
+
/**
|
|
79
|
+
* @brief Swaps the two columns at given indices in the column container. Does not updates the column index value,
|
|
80
|
+
* potentially stored in the entries. This will be done when calling `_orderRows()`.
|
|
81
|
+
*
|
|
82
|
+
* @param columnIndex1 First @ref MatIdx column index.
|
|
83
|
+
* @param columnIndex2 Second @ref MatIdx column index.
|
|
84
|
+
*/
|
|
85
|
+
void swap_columns(Index columnIndex1, Index columnIndex2);
|
|
86
|
+
/**
|
|
87
|
+
* @brief Swaps the two rows at the given indices, but in a lazy manner. That is, the swap is registered but not
|
|
88
|
+
* executed. The reordering will be done when calling `_orderRows()`.
|
|
89
|
+
*
|
|
90
|
+
* @param rowIndex1 First row index.
|
|
91
|
+
* @param rowIndex2 Second row index.
|
|
92
|
+
*/
|
|
93
|
+
void swap_rows(ID_index rowIndex1, ID_index rowIndex2);
|
|
94
|
+
|
|
95
|
+
/**
|
|
96
|
+
* @brief Assign operator.
|
|
97
|
+
*/
|
|
98
|
+
Base_swap& operator=(Base_swap other);
|
|
99
|
+
/**
|
|
100
|
+
* @brief Swap operator.
|
|
101
|
+
*/
|
|
102
|
+
friend void swap(Base_swap& base1, Base_swap& base2) {
|
|
103
|
+
base1.indexToRow_.swap(base2.indexToRow_);
|
|
104
|
+
base1.rowToIndex_.swap(base2.rowToIndex_);
|
|
105
|
+
std::swap(base1.rowSwapped_, base2.rowSwapped_);
|
|
106
|
+
}
|
|
107
|
+
|
|
108
|
+
protected:
|
|
109
|
+
using Index_dictionary = typename Master_matrix::template Dictionary<Index>;
|
|
110
|
+
using Row_dictionary = typename Master_matrix::template Dictionary<ID_index>;
|
|
111
|
+
|
|
112
|
+
Index_dictionary indexToRow_; /**< Map from row index to actual index in row container. */
|
|
113
|
+
Row_dictionary rowToIndex_; /**< Map from index in row container to "public" row index. */
|
|
114
|
+
bool rowSwapped_; /**< True if any rows were swapped since last call to `_orderRows()`. */
|
|
115
|
+
|
|
116
|
+
void _orderRows();
|
|
117
|
+
|
|
118
|
+
//access to inheriting matrix class
|
|
119
|
+
constexpr Base_matrix* _matrix() { return static_cast<Base_matrix*>(this); }
|
|
120
|
+
constexpr const Base_matrix* _matrix() const { return static_cast<const Base_matrix*>(this); }
|
|
121
|
+
};
|
|
122
|
+
|
|
123
|
+
template <class Master_matrix, class Base_matrix>
|
|
124
|
+
inline Base_swap<Master_matrix, Base_matrix>::Base_swap() : rowSwapped_(false)
|
|
125
|
+
{}
|
|
126
|
+
|
|
127
|
+
template <class Master_matrix, class Base_matrix>
|
|
128
|
+
inline Base_swap<Master_matrix, Base_matrix>::Base_swap(unsigned int numberOfColumns)
|
|
129
|
+
: indexToRow_(numberOfColumns), rowToIndex_(numberOfColumns), rowSwapped_(false)
|
|
130
|
+
{
|
|
131
|
+
for (Index i = 0; i < numberOfColumns; i++) {
|
|
132
|
+
indexToRow_[i] = i;
|
|
133
|
+
rowToIndex_[i] = i;
|
|
134
|
+
}
|
|
135
|
+
}
|
|
136
|
+
|
|
137
|
+
template <class Master_matrix, class Base_matrix>
|
|
138
|
+
inline Base_swap<Master_matrix, Base_matrix>::Base_swap(Base_swap&& other) noexcept
|
|
139
|
+
: indexToRow_(std::move(other.indexToRow_)),
|
|
140
|
+
rowToIndex_(std::move(other.rowToIndex_)),
|
|
141
|
+
rowSwapped_(std::exchange(other.rowSwapped_, 0))
|
|
142
|
+
{}
|
|
143
|
+
|
|
144
|
+
template <class Master_matrix, class Base_matrix>
|
|
145
|
+
inline void Base_swap<Master_matrix, Base_matrix>::swap_columns(Index columnIndex1, Index columnIndex2)
|
|
146
|
+
{
|
|
147
|
+
swap(_matrix()->matrix_.at(columnIndex1), _matrix()->matrix_.at(columnIndex2));
|
|
148
|
+
if constexpr (Master_matrix::Option_list::has_row_access) rowSwapped_ = true; //to update column index in entries.
|
|
149
|
+
}
|
|
150
|
+
|
|
151
|
+
template <class Master_matrix, class Base_matrix>
|
|
152
|
+
inline void Base_swap<Master_matrix, Base_matrix>::swap_rows(ID_index rowIndex1, ID_index rowIndex2)
|
|
153
|
+
{
|
|
154
|
+
rowSwapped_ = true;
|
|
155
|
+
|
|
156
|
+
if constexpr (Master_matrix::Option_list::has_map_column_container) {
|
|
157
|
+
auto it1 = indexToRow_.find(rowIndex1);
|
|
158
|
+
auto it2 = indexToRow_.find(rowIndex2);
|
|
159
|
+
|
|
160
|
+
if (it1 == indexToRow_.end() && it2 == indexToRow_.end()) return;
|
|
161
|
+
|
|
162
|
+
if (it1 == indexToRow_.end()) {
|
|
163
|
+
indexToRow_.emplace(rowIndex1, it2->second);
|
|
164
|
+
rowToIndex_.at(it2->second) = rowIndex1;
|
|
165
|
+
indexToRow_.erase(it2->second);
|
|
166
|
+
return;
|
|
167
|
+
}
|
|
168
|
+
|
|
169
|
+
if (it2 == indexToRow_.end()) {
|
|
170
|
+
indexToRow_.emplace(rowIndex2, it1->second);
|
|
171
|
+
rowToIndex_.at(it1->second) = rowIndex2;
|
|
172
|
+
indexToRow_.erase(it1);
|
|
173
|
+
return;
|
|
174
|
+
}
|
|
175
|
+
|
|
176
|
+
std::swap(rowToIndex_.at(it1->second), rowToIndex_.at(it2->second));
|
|
177
|
+
std::swap(it1->second, it2->second);
|
|
178
|
+
} else {
|
|
179
|
+
for (auto i = indexToRow_.size(); i <= std::max(rowIndex1, rowIndex2); ++i) indexToRow_.push_back(i);
|
|
180
|
+
|
|
181
|
+
std::swap(rowToIndex_[indexToRow_[rowIndex1]], rowToIndex_[indexToRow_[rowIndex2]]);
|
|
182
|
+
std::swap(indexToRow_[rowIndex1], indexToRow_[rowIndex2]);
|
|
183
|
+
}
|
|
184
|
+
}
|
|
185
|
+
|
|
186
|
+
template <class Master_matrix, class Base_matrix>
|
|
187
|
+
inline Base_swap<Master_matrix, Base_matrix>& Base_swap<Master_matrix, Base_matrix>::operator=(Base_swap other)
|
|
188
|
+
{
|
|
189
|
+
indexToRow_.swap(other.indexToRow_);
|
|
190
|
+
rowToIndex_.swap(other.rowToIndex_);
|
|
191
|
+
std::swap(rowSwapped_, other.rowSwapped_);
|
|
192
|
+
return *this;
|
|
193
|
+
}
|
|
194
|
+
|
|
195
|
+
template <class Master_matrix, class Base_matrix>
|
|
196
|
+
inline void Base_swap<Master_matrix, Base_matrix>::_orderRows()
|
|
197
|
+
{
|
|
198
|
+
for (unsigned int i = 0; i < _matrix()->get_number_of_columns(); i++) {
|
|
199
|
+
_matrix()->matrix_.at(i).reorder(rowToIndex_, i);
|
|
200
|
+
}
|
|
201
|
+
for (Index i = 0; i < _matrix()->get_number_of_columns(); i++) {
|
|
202
|
+
indexToRow_[i] = i;
|
|
203
|
+
rowToIndex_[i] = i;
|
|
204
|
+
}
|
|
205
|
+
rowSwapped_ = false;
|
|
206
|
+
}
|
|
207
|
+
|
|
208
|
+
} // namespace persistence_matrix
|
|
209
|
+
} // namespace Gudhi
|
|
210
|
+
|
|
211
|
+
#endif // PM_BASE_SWAP_H
|
|
@@ -1,60 +1,60 @@
|
|
|
1
|
-
/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
|
|
2
|
-
* See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
|
|
3
|
-
* Author(s): Hannah Schreiber
|
|
4
|
-
*
|
|
5
|
-
* Copyright (C) 2022-24 Inria
|
|
6
|
-
*
|
|
7
|
-
* Modification(s):
|
|
8
|
-
* - YYYY/MM Author: Description of the modification
|
|
9
|
-
*/
|
|
10
|
-
|
|
11
|
-
/**
|
|
12
|
-
* @file boundary_cell_position_to_id_mapper.h
|
|
13
|
-
* @author Hannah Schreiber
|
|
14
|
-
* @brief Contains the @ref Gudhi::persistence_matrix::Cell_position_to_ID_mapper class and
|
|
15
|
-
* @ref Gudhi::persistence_matrix::Dummy_pos_mapper structure.
|
|
16
|
-
*/
|
|
17
|
-
|
|
18
|
-
#ifndef PM_ID_POS_MAPPER_H
|
|
19
|
-
#define PM_ID_POS_MAPPER_H
|
|
20
|
-
|
|
21
|
-
#include <unordered_map>
|
|
22
|
-
|
|
23
|
-
namespace Gudhi {
|
|
24
|
-
namespace persistence_matrix {
|
|
25
|
-
|
|
26
|
-
/**
|
|
27
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* @private
|
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* @ingroup persistence_matrix
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*
|
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* @brief Empty structure.
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* Inherited instead of @ref Cell_position_to_ID_mapper.
|
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*/
|
|
33
|
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struct Dummy_pos_mapper {
|
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34
|
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friend void swap([[maybe_unused]] Dummy_pos_mapper& d1, [[maybe_unused]] Dummy_pos_mapper& d2) {}
|
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35
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-
};
|
|
36
|
-
|
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37
|
-
/**
|
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38
|
-
* @private
|
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39
|
-
* @ingroup persistence_matrix
|
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40
|
-
*
|
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41
|
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* @brief Map from cell position to cell ID. Only stores a pair if ID != position and has_removable_column is true.
|
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42
|
-
*
|
|
43
|
-
* @tparam ID_index @ref IDIdx index type
|
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-
* @tparam Pos_index @ref PosIdx index type
|
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45
|
-
*/
|
|
46
|
-
template<typename ID_index, typename Pos_index>
|
|
47
|
-
struct Cell_position_to_ID_mapper {
|
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48
|
-
using Index_map = std::unordered_map<Pos_index,ID_index>; //TODO: test other map types
|
|
49
|
-
|
|
50
|
-
Index_map map_;
|
|
51
|
-
|
|
52
|
-
friend void swap(Cell_position_to_ID_mapper& mapper1, Cell_position_to_ID_mapper& mapper2) {
|
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53
|
-
mapper1.map_.swap(mapper2.map_);
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-
}
|
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55
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};
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56
|
-
|
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57
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} // namespace persistence_matrix
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-
} // namespace Gudhi
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#endif // PM_ID_POS_MAPPER_H
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1
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+
/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
|
|
2
|
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* See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
|
|
3
|
+
* Author(s): Hannah Schreiber
|
|
4
|
+
*
|
|
5
|
+
* Copyright (C) 2022-24 Inria
|
|
6
|
+
*
|
|
7
|
+
* Modification(s):
|
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8
|
+
* - YYYY/MM Author: Description of the modification
|
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9
|
+
*/
|
|
10
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+
|
|
11
|
+
/**
|
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12
|
+
* @file boundary_cell_position_to_id_mapper.h
|
|
13
|
+
* @author Hannah Schreiber
|
|
14
|
+
* @brief Contains the @ref Gudhi::persistence_matrix::Cell_position_to_ID_mapper class and
|
|
15
|
+
* @ref Gudhi::persistence_matrix::Dummy_pos_mapper structure.
|
|
16
|
+
*/
|
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+
|
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18
|
+
#ifndef PM_ID_POS_MAPPER_H
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+
#define PM_ID_POS_MAPPER_H
|
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|
+
|
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21
|
+
#include <unordered_map>
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+
|
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+
namespace Gudhi {
|
|
24
|
+
namespace persistence_matrix {
|
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+
|
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26
|
+
/**
|
|
27
|
+
* @private
|
|
28
|
+
* @ingroup persistence_matrix
|
|
29
|
+
*
|
|
30
|
+
* @brief Empty structure.
|
|
31
|
+
* Inherited instead of @ref Cell_position_to_ID_mapper.
|
|
32
|
+
*/
|
|
33
|
+
struct Dummy_pos_mapper {
|
|
34
|
+
friend void swap([[maybe_unused]] Dummy_pos_mapper& d1, [[maybe_unused]] Dummy_pos_mapper& d2) {}
|
|
35
|
+
};
|
|
36
|
+
|
|
37
|
+
/**
|
|
38
|
+
* @private
|
|
39
|
+
* @ingroup persistence_matrix
|
|
40
|
+
*
|
|
41
|
+
* @brief Map from cell position to cell ID. Only stores a pair if ID != position and has_removable_column is true.
|
|
42
|
+
*
|
|
43
|
+
* @tparam ID_index @ref IDIdx index type
|
|
44
|
+
* @tparam Pos_index @ref PosIdx index type
|
|
45
|
+
*/
|
|
46
|
+
template<typename ID_index, typename Pos_index>
|
|
47
|
+
struct Cell_position_to_ID_mapper {
|
|
48
|
+
using Index_map = std::unordered_map<Pos_index,ID_index>; //TODO: test other map types
|
|
49
|
+
|
|
50
|
+
Index_map map_;
|
|
51
|
+
|
|
52
|
+
friend void swap(Cell_position_to_ID_mapper& mapper1, Cell_position_to_ID_mapper& mapper2) {
|
|
53
|
+
mapper1.map_.swap(mapper2.map_);
|
|
54
|
+
}
|
|
55
|
+
};
|
|
56
|
+
|
|
57
|
+
} // namespace persistence_matrix
|
|
58
|
+
} // namespace Gudhi
|
|
59
|
+
|
|
60
|
+
#endif // PM_ID_POS_MAPPER_H
|
|
@@ -1,60 +1,60 @@
|
|
|
1
|
-
/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
|
|
2
|
-
* See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
|
|
3
|
-
* Author(s): Hannah Schreiber
|
|
4
|
-
*
|
|
5
|
-
* Copyright (C) 2022-24 Inria
|
|
6
|
-
*
|
|
7
|
-
* Modification(s):
|
|
8
|
-
* - YYYY/MM Author: Description of the modification
|
|
9
|
-
*/
|
|
10
|
-
|
|
11
|
-
/**
|
|
12
|
-
* @file base_pairing.h
|
|
13
|
-
* @author Hannah Schreiber
|
|
14
|
-
* @brief Contains the @ref Gudhi::persistence_matrix::Base_pairing class and
|
|
15
|
-
* @ref Gudhi::persistence_matrix::Dummy_base_pairing structure.
|
|
16
|
-
*/
|
|
17
|
-
|
|
18
|
-
#ifndef PM_ID_POS_MAPPER_H
|
|
19
|
-
#define PM_ID_POS_MAPPER_H
|
|
20
|
-
|
|
21
|
-
#include <unordered_map>
|
|
22
|
-
|
|
23
|
-
namespace Gudhi {
|
|
24
|
-
namespace persistence_matrix {
|
|
25
|
-
|
|
26
|
-
/**
|
|
27
|
-
* @private
|
|
28
|
-
* @ingroup persistence_matrix
|
|
29
|
-
*
|
|
30
|
-
* @brief Empty structure.
|
|
31
|
-
* Inherited instead of @ref Face_position_to_ID_mapper.
|
|
32
|
-
*/
|
|
33
|
-
struct Dummy_pos_mapper {
|
|
34
|
-
friend void swap([[maybe_unused]] Dummy_pos_mapper& d1, [[maybe_unused]] Dummy_pos_mapper& d2) {}
|
|
35
|
-
};
|
|
36
|
-
|
|
37
|
-
/**
|
|
38
|
-
* @private
|
|
39
|
-
* @ingroup persistence_matrix
|
|
40
|
-
*
|
|
41
|
-
* @brief Map from face position to face ID. Only stores a pair if ID != position and has_removable_column is true.
|
|
42
|
-
*
|
|
43
|
-
* @tparam ID_index @ref IDIdx index type
|
|
44
|
-
* @tparam Pos_index @ref PosIdx index type
|
|
45
|
-
*/
|
|
46
|
-
template<typename ID_index, typename Pos_index>
|
|
47
|
-
struct Face_position_to_ID_mapper {
|
|
48
|
-
using Index_map = std::unordered_map<Pos_index,ID_index>; //TODO: test other map types
|
|
49
|
-
|
|
50
|
-
Index_map map_;
|
|
51
|
-
|
|
52
|
-
friend void swap(Face_position_to_ID_mapper& mapper1, Face_position_to_ID_mapper& mapper2) {
|
|
53
|
-
mapper1.map_.swap(mapper2.map_);
|
|
54
|
-
}
|
|
55
|
-
};
|
|
56
|
-
|
|
57
|
-
} // namespace persistence_matrix
|
|
58
|
-
} // namespace Gudhi
|
|
59
|
-
|
|
60
|
-
#endif // PM_ID_POS_MAPPER_H
|
|
1
|
+
/* This file is part of the Gudhi Library - https://gudhi.inria.fr/ - which is released under MIT.
|
|
2
|
+
* See file LICENSE or go to https://gudhi.inria.fr/licensing/ for full license details.
|
|
3
|
+
* Author(s): Hannah Schreiber
|
|
4
|
+
*
|
|
5
|
+
* Copyright (C) 2022-24 Inria
|
|
6
|
+
*
|
|
7
|
+
* Modification(s):
|
|
8
|
+
* - YYYY/MM Author: Description of the modification
|
|
9
|
+
*/
|
|
10
|
+
|
|
11
|
+
/**
|
|
12
|
+
* @file base_pairing.h
|
|
13
|
+
* @author Hannah Schreiber
|
|
14
|
+
* @brief Contains the @ref Gudhi::persistence_matrix::Base_pairing class and
|
|
15
|
+
* @ref Gudhi::persistence_matrix::Dummy_base_pairing structure.
|
|
16
|
+
*/
|
|
17
|
+
|
|
18
|
+
#ifndef PM_ID_POS_MAPPER_H
|
|
19
|
+
#define PM_ID_POS_MAPPER_H
|
|
20
|
+
|
|
21
|
+
#include <unordered_map>
|
|
22
|
+
|
|
23
|
+
namespace Gudhi {
|
|
24
|
+
namespace persistence_matrix {
|
|
25
|
+
|
|
26
|
+
/**
|
|
27
|
+
* @private
|
|
28
|
+
* @ingroup persistence_matrix
|
|
29
|
+
*
|
|
30
|
+
* @brief Empty structure.
|
|
31
|
+
* Inherited instead of @ref Face_position_to_ID_mapper.
|
|
32
|
+
*/
|
|
33
|
+
struct Dummy_pos_mapper {
|
|
34
|
+
friend void swap([[maybe_unused]] Dummy_pos_mapper& d1, [[maybe_unused]] Dummy_pos_mapper& d2) {}
|
|
35
|
+
};
|
|
36
|
+
|
|
37
|
+
/**
|
|
38
|
+
* @private
|
|
39
|
+
* @ingroup persistence_matrix
|
|
40
|
+
*
|
|
41
|
+
* @brief Map from face position to face ID. Only stores a pair if ID != position and has_removable_column is true.
|
|
42
|
+
*
|
|
43
|
+
* @tparam ID_index @ref IDIdx index type
|
|
44
|
+
* @tparam Pos_index @ref PosIdx index type
|
|
45
|
+
*/
|
|
46
|
+
template<typename ID_index, typename Pos_index>
|
|
47
|
+
struct Face_position_to_ID_mapper {
|
|
48
|
+
using Index_map = std::unordered_map<Pos_index,ID_index>; //TODO: test other map types
|
|
49
|
+
|
|
50
|
+
Index_map map_;
|
|
51
|
+
|
|
52
|
+
friend void swap(Face_position_to_ID_mapper& mapper1, Face_position_to_ID_mapper& mapper2) {
|
|
53
|
+
mapper1.map_.swap(mapper2.map_);
|
|
54
|
+
}
|
|
55
|
+
};
|
|
56
|
+
|
|
57
|
+
} // namespace persistence_matrix
|
|
58
|
+
} // namespace Gudhi
|
|
59
|
+
|
|
60
|
+
#endif // PM_ID_POS_MAPPER_H
|