diff options
author | Hind-M <hind.montassif@gmail.com> | 2021-07-01 15:56:11 +0200 |
---|---|---|
committer | Hind-M <hind.montassif@gmail.com> | 2021-07-01 15:56:11 +0200 |
commit | 62b63fd55442b152b934dc0c9ed662970ddb32dc (patch) | |
tree | 2761d546ba943a40a2973b499e884e7d21442c07 | |
parent | 68031184fb94cf19c8b3c6f0de122db447693847 (diff) |
Move primality test to Field_Zp::init
Throw exception when not prime
Add tests
7 files changed, 43 insertions, 26 deletions
diff --git a/src/Persistent_cohomology/example/CMakeLists.txt b/src/Persistent_cohomology/example/CMakeLists.txt index c68c6524..3e7e9369 100644 --- a/src/Persistent_cohomology/example/CMakeLists.txt +++ b/src/Persistent_cohomology/example/CMakeLists.txt @@ -11,7 +11,7 @@ if (TBB_FOUND) target_link_libraries(persistence_from_simple_simplex_tree ${TBB_LIBRARIES}) endif() add_test(NAME Persistent_cohomology_example_from_simple_simplex_tree COMMAND $<TARGET_FILE:persistence_from_simple_simplex_tree> - "1" "0") + "2" "0") if(TARGET Boost::program_options) add_executable(rips_persistence_step_by_step rips_persistence_step_by_step.cpp) diff --git a/src/Persistent_cohomology/include/gudhi/Persistent_cohomology/Field_Zp.h b/src/Persistent_cohomology/include/gudhi/Persistent_cohomology/Field_Zp.h index 0673625c..4bfd95c0 100644 --- a/src/Persistent_cohomology/include/gudhi/Persistent_cohomology/Field_Zp.h +++ b/src/Persistent_cohomology/include/gudhi/Persistent_cohomology/Field_Zp.h @@ -13,6 +13,8 @@ #include <utility> #include <vector> +#include <stdexcept> +#include <cmath> namespace Gudhi { @@ -34,15 +36,30 @@ class Field_Zp { void init(int charac) { assert(charac > 0); // division by zero + non negative values + Prime = charac; + + // Check for primality + if ((Prime == 0) || (Prime == 1) || ((Prime > 3) && ((Prime % 2 == 0) || (Prime % 3 == 0)))) + throw std::invalid_argument("homology_coeff_field must be a prime number"); + inverse_.clear(); inverse_.reserve(charac); inverse_.push_back(0); for (int i = 1; i < Prime; ++i) { int inv = 1; - while (((inv * i) % Prime) != 1) + int mult = inv * i; + while ( (mult % Prime) != 1) { ++inv; + if(mult == Prime) + throw std::invalid_argument("homology_coeff_field must be a prime number"); + mult = inv * i; + } inverse_.push_back(inv); + if ( (i <= std::sqrt(Prime)) && (((i-5)%6) == 0) ) { + if ((Prime % i == 0) || (Prime % (i + 2) == 0)) + throw std::invalid_argument("homology_coeff_field must be a prime number"); + } } } diff --git a/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp b/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp index fe3f8517..9559b842 100644 --- a/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp +++ b/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp @@ -146,9 +146,14 @@ void test_rips_persistence_in_dimension(int dimension) { std::clog << "str_rips_persistence=" << str_rips_persistence << std::endl; } +BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_0 ) +{ + BOOST_CHECK_THROW(test_rips_persistence_in_dimension(0), std::invalid_argument); +} + BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_1 ) { - test_rips_persistence_in_dimension(1); + BOOST_CHECK_THROW(test_rips_persistence_in_dimension(1), std::invalid_argument); } BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_2 ) @@ -161,11 +166,26 @@ BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_3 ) test_rips_persistence_in_dimension(3); } +BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_4 ) +{ + BOOST_CHECK_THROW(test_rips_persistence_in_dimension(4), std::invalid_argument); +} + BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_5 ) { test_rips_persistence_in_dimension(5); } +BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_11 ) +{ + test_rips_persistence_in_dimension(11); +} + +BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_13 ) +{ + test_rips_persistence_in_dimension(13); +} + // TODO(VR): not working from 6 // std::string str_rips_persistence = test_rips_persistence(6, 0); // TODO(VR): division by zero diff --git a/src/python/gudhi/cubical_complex.pyx b/src/python/gudhi/cubical_complex.pyx index 28fbe3af..adc40499 100644 --- a/src/python/gudhi/cubical_complex.pyx +++ b/src/python/gudhi/cubical_complex.pyx @@ -35,7 +35,7 @@ cdef extern from "Cubical_complex_interface.h" namespace "Gudhi": cdef extern from "Persistent_cohomology_interface.h" namespace "Gudhi": cdef cppclass Cubical_complex_persistence_interface "Gudhi::Persistent_cohomology_interface<Gudhi::Cubical_complex::Cubical_complex_interface<>>": Cubical_complex_persistence_interface(Bitmap_cubical_complex_base_interface * st, bool persistence_dim_max) nogil - void compute_persistence(int homology_coeff_field, double min_persistence) nogil + void compute_persistence(int homology_coeff_field, double min_persistence) nogil except+ vector[pair[int, pair[double, double]]] get_persistence() nogil vector[vector[int]] cofaces_of_cubical_persistence_pairs() nogil vector[int] betti_numbers() nogil diff --git a/src/python/gudhi/periodic_cubical_complex.pyx b/src/python/gudhi/periodic_cubical_complex.pyx index d353d2af..0eaa5867 100644 --- a/src/python/gudhi/periodic_cubical_complex.pyx +++ b/src/python/gudhi/periodic_cubical_complex.pyx @@ -32,7 +32,7 @@ cdef extern from "Cubical_complex_interface.h" namespace "Gudhi": cdef extern from "Persistent_cohomology_interface.h" namespace "Gudhi": cdef cppclass Periodic_cubical_complex_persistence_interface "Gudhi::Persistent_cohomology_interface<Gudhi::Cubical_complex::Cubical_complex_interface<Gudhi::cubical_complex::Bitmap_cubical_complex_periodic_boundary_conditions_base<double>>>": Periodic_cubical_complex_persistence_interface(Periodic_cubical_complex_base_interface * st, bool persistence_dim_max) nogil - void compute_persistence(int homology_coeff_field, double min_persistence) nogil + void compute_persistence(int homology_coeff_field, double min_persistence) nogil except + vector[pair[int, pair[double, double]]] get_persistence() nogil vector[vector[int]] cofaces_of_cubical_persistence_pairs() nogil vector[int] betti_numbers() nogil diff --git a/src/python/gudhi/simplex_tree.pxd b/src/python/gudhi/simplex_tree.pxd index 3b8ea4f9..006a24ed 100644 --- a/src/python/gudhi/simplex_tree.pxd +++ b/src/python/gudhi/simplex_tree.pxd @@ -78,7 +78,7 @@ cdef extern from "Simplex_tree_interface.h" namespace "Gudhi": 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) nogil - void compute_persistence(int homology_coeff_field, double min_persistence) nogil + void compute_persistence(int homology_coeff_field, double min_persistence) nogil except + vector[pair[int, pair[double, double]]] get_persistence() nogil vector[int] betti_numbers() nogil vector[int] persistent_betti_numbers(double from_value, double to_value) nogil diff --git a/src/python/include/Persistent_cohomology_interface.h b/src/python/include/Persistent_cohomology_interface.h index 6877f190..e5a3dfba 100644 --- a/src/python/include/Persistent_cohomology_interface.h +++ b/src/python/include/Persistent_cohomology_interface.h @@ -43,21 +43,6 @@ persistent_cohomology::Persistent_cohomology<FilteredComplex, persistent_cohomol } }; - bool is_prime(int n) { - // Primality test using 6k+-1 optimization. - if (n <= 3) - return n > 1; - if ((n % 2 == 0) || (n % 3 == 0)) - return false; - int i = 5; - while (i*i <= n) { - if ((n % i == 0) || (n % (i + 2) == 0)) - return false; - i += 6; - } - return true; - } - public: Persistent_cohomology_interface(FilteredComplex* stptr, bool persistence_dim_max=false) : Base(*stptr, persistence_dim_max), @@ -65,11 +50,6 @@ persistent_cohomology::Persistent_cohomology<FilteredComplex, persistent_cohomol // TODO: move to the constructors? void compute_persistence(int homology_coeff_field, double min_persistence) { - // Check that homology_coeff_field is a prime number (including not null) - if(!is_prime(homology_coeff_field)) { - std::cerr << "Warning: The persistence was not computed ; homology_coeff_field must be a prime number"; - return; - } Base::init_coefficients(homology_coeff_field); Base::compute_persistent_cohomology(min_persistence); } |