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-rw-r--r--src/Rips_complex/example/CMakeLists.txt5
-rw-r--r--src/Rips_complex/include/gudhi/Sparse_rips_complex.h14
-rw-r--r--src/Rips_complex/utilities/CMakeLists.txt67
3 files changed, 40 insertions, 46 deletions
diff --git a/src/Rips_complex/example/CMakeLists.txt b/src/Rips_complex/example/CMakeLists.txt
index 244a93ec..206f4c11 100644
--- a/src/Rips_complex/example/CMakeLists.txt
+++ b/src/Rips_complex/example/CMakeLists.txt
@@ -72,8 +72,3 @@ if (DIFF_PATH)
endif()
-install(TARGETS Rips_complex_example_from_off DESTINATION bin)
-install(TARGETS Rips_complex_example_one_skeleton_from_points DESTINATION bin)
-install(TARGETS Rips_complex_example_one_skeleton_from_distance_matrix DESTINATION bin)
-install(TARGETS Rips_complex_example_from_csv_distance_matrix DESTINATION bin)
-install(TARGETS Rips_complex_example_one_skeleton_rips_from_correlation_matrix DESTINATION bin)
diff --git a/src/Rips_complex/include/gudhi/Sparse_rips_complex.h b/src/Rips_complex/include/gudhi/Sparse_rips_complex.h
index 1b250818..a5501004 100644
--- a/src/Rips_complex/include/gudhi/Sparse_rips_complex.h
+++ b/src/Rips_complex/include/gudhi/Sparse_rips_complex.h
@@ -67,8 +67,7 @@ class Sparse_rips_complex {
: epsilon_(epsilon) {
GUDHI_CHECK(epsilon > 0, "epsilon must be positive");
auto dist_fun = [&](Vertex_handle i, Vertex_handle j) { return distance(points[i], points[j]); };
- Ker<decltype(dist_fun)> kernel(dist_fun);
- subsampling::choose_n_farthest_points(kernel, boost::irange<Vertex_handle>(0, boost::size(points)), -1, -1,
+ subsampling::choose_n_farthest_points(dist_fun, boost::irange<Vertex_handle>(0, boost::size(points)), -1, -1,
std::back_inserter(sorted_points), std::back_inserter(params));
compute_sparse_graph(dist_fun, epsilon, mini, maxi);
}
@@ -128,17 +127,6 @@ class Sparse_rips_complex {
}
private:
- // choose_n_farthest_points wants the distance function in this form...
- template <class Distance>
- struct Ker {
- typedef std::size_t Point_d; // index into point range
- Ker(Distance& d) : dist(d) {}
- // Despite the name, this is not squared...
- typedef Distance Squared_distance_d;
- Squared_distance_d& squared_distance_d_object() const { return dist; }
- Distance& dist;
- };
-
// PointRange must be random access.
template <typename Distance>
void compute_sparse_graph(Distance& dist, double epsilon, Filtration_value mini, Filtration_value maxi) {
diff --git a/src/Rips_complex/utilities/CMakeLists.txt b/src/Rips_complex/utilities/CMakeLists.txt
index d2448d7b..d8c8e0b8 100644
--- a/src/Rips_complex/utilities/CMakeLists.txt
+++ b/src/Rips_complex/utilities/CMakeLists.txt
@@ -1,34 +1,45 @@
project(Rips_complex_utilities)
-add_executable(rips_distance_matrix_persistence rips_distance_matrix_persistence.cpp)
-target_link_libraries(rips_distance_matrix_persistence Boost::program_options)
-
-add_executable(rips_persistence rips_persistence.cpp)
-target_link_libraries(rips_persistence Boost::program_options)
-
-add_executable(rips_correlation_matrix_persistence rips_correlation_matrix_persistence.cpp)
-target_link_libraries(rips_correlation_matrix_persistence Boost::system Boost::program_options)
-
-add_executable(sparse_rips_persistence sparse_rips_persistence.cpp)
-target_link_libraries(sparse_rips_persistence Boost::program_options)
+if(TARGET Boost::program_options)
+ add_executable(rips_distance_matrix_persistence rips_distance_matrix_persistence.cpp)
+ target_link_libraries(rips_distance_matrix_persistence Boost::program_options)
+ if (TBB_FOUND)
+ target_link_libraries(rips_distance_matrix_persistence ${TBB_LIBRARIES})
+ endif()
+ add_test(NAME Rips_complex_utility_from_rips_distance_matrix COMMAND $<TARGET_FILE:rips_distance_matrix_persistence>
+ "${CMAKE_SOURCE_DIR}/data/distance_matrix/full_square_distance_matrix.csv" "-r" "1.0" "-d" "3" "-p" "3" "-m" "0")
+ install(TARGETS rips_distance_matrix_persistence DESTINATION bin)
+endif()
-if (TBB_FOUND)
- target_link_libraries(rips_distance_matrix_persistence ${TBB_LIBRARIES})
- target_link_libraries(rips_persistence ${TBB_LIBRARIES})
- target_link_libraries(rips_correlation_matrix_persistence ${TBB_LIBRARIES})
- target_link_libraries(sparse_rips_persistence ${TBB_LIBRARIES})
+if(TARGET Boost::program_options)
+ add_executable(rips_persistence rips_persistence.cpp)
+ target_link_libraries(rips_persistence Boost::program_options)
+ if (TBB_FOUND)
+ target_link_libraries(rips_persistence ${TBB_LIBRARIES})
+ endif()
+ add_test(NAME Rips_complex_utility_from_rips_on_tore_3D COMMAND $<TARGET_FILE:rips_persistence>
+ "${CMAKE_SOURCE_DIR}/data/points/tore3D_1307.off" "-r" "0.25" "-m" "0.5" "-d" "3" "-p" "3")
+ install(TARGETS rips_persistence DESTINATION bin)
endif()
-add_test(NAME Rips_complex_utility_from_rips_distance_matrix COMMAND $<TARGET_FILE:rips_distance_matrix_persistence>
- "${CMAKE_SOURCE_DIR}/data/distance_matrix/full_square_distance_matrix.csv" "-r" "1.0" "-d" "3" "-p" "3" "-m" "0")
-add_test(NAME Rips_complex_utility_from_rips_on_tore_3D COMMAND $<TARGET_FILE:rips_persistence>
- "${CMAKE_SOURCE_DIR}/data/points/tore3D_1307.off" "-r" "0.25" "-m" "0.5" "-d" "3" "-p" "3")
-add_test(NAME Rips_complex_utility_from_rips_correlation_matrix COMMAND $<TARGET_FILE:rips_correlation_matrix_persistence>
- "${CMAKE_SOURCE_DIR}/data/correlation_matrix/lower_triangular_correlation_matrix.csv" "-c" "0.3" "-d" "3" "-p" "3" "-m" "0")
-add_test(NAME Sparse_rips_complex_utility_on_tore_3D COMMAND $<TARGET_FILE:sparse_rips_persistence>
- "${CMAKE_SOURCE_DIR}/data/points/tore3D_300.off" "-e" "0.5" "-m" "0.2" "-d" "3" "-p" "2")
+if(TARGET Boost::program_options)
+ add_executable(rips_correlation_matrix_persistence rips_correlation_matrix_persistence.cpp)
+ target_link_libraries(rips_correlation_matrix_persistence Boost::program_options)
+ if (TBB_FOUND)
+ target_link_libraries(rips_correlation_matrix_persistence ${TBB_LIBRARIES})
+ endif()
+ add_test(NAME Rips_complex_utility_from_rips_correlation_matrix COMMAND $<TARGET_FILE:rips_correlation_matrix_persistence>
+ "${CMAKE_SOURCE_DIR}/data/correlation_matrix/lower_triangular_correlation_matrix.csv" "-c" "0.3" "-d" "3" "-p" "3" "-m" "0")
+ install(TARGETS rips_correlation_matrix_persistence DESTINATION bin)
+endif()
-install(TARGETS rips_distance_matrix_persistence DESTINATION bin)
-install(TARGETS rips_persistence DESTINATION bin)
-install(TARGETS rips_correlation_matrix_persistence DESTINATION bin)
-install(TARGETS sparse_rips_persistence DESTINATION bin)
+if(TARGET Boost::program_options)
+ add_executable(sparse_rips_persistence sparse_rips_persistence.cpp)
+ target_link_libraries(sparse_rips_persistence Boost::program_options)
+ if (TBB_FOUND)
+ target_link_libraries(sparse_rips_persistence ${TBB_LIBRARIES})
+ endif()
+ add_test(NAME Sparse_rips_complex_utility_on_tore_3D COMMAND $<TARGET_FILE:sparse_rips_persistence>
+ "${CMAKE_SOURCE_DIR}/data/points/tore3D_300.off" "-e" "0.5" "-m" "0.2" "-d" "3" "-p" "2")
+ install(TARGETS sparse_rips_persistence DESTINATION bin)
+endif()