Add persistent unit test - warning fix - cpplint fix

git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/cpplint_test@346 636b058d-ea47-450e-bf9e-a15bfbe3eedb

Former-commit-id: 9ef774de762c68a449b2a9791085f58c39a0705e

1 files changed, 170 insertions, 0 deletions

diff --git a/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp b/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp
new file mode 100644
index 00000000..e180bea3
--- /dev/null
+++ b/src/Persistent_cohomology/test/persistent_cohomology_unit_test.cpp
@@ -0,0 +1,170 @@
+#define BOOST_TEST_MODULE const_string test
+#include <boost/test/included/unit_test.hpp>
+#include <boost/system/error_code.hpp>
+#include <boost/chrono/thread_clock.hpp>
+#include <iostream>
+#include <string>
+
+#include <utility> // std::pair, std::make_pair
+
+#include <cmath> // float comparison
+#include <limits>
+
+#include "gudhi/graph_simplicial_complex.h"
+#include "gudhi/reader_utils.h"
+#include "gudhi/Simplex_tree.h"
+#include "gudhi/Persistent_cohomology.h"
+
+using namespace Gudhi;
+
+typedef Simplex_tree<> typeST;
+
+std::string test_rips_persistence(int coefficient, int min_persistence) {
+  const std::string inputFile("simplex_tree_file_for_unit_test.txt");
+  std::ifstream simplex_tree_stream;
+  simplex_tree_stream.open(inputFile.c_str());
+  typeST st;
+  simplex_tree_stream >> st;
+  simplex_tree_stream.close();
+
+  // Display the Simplex_tree
+  std::cout << "The complex contains " << st.num_simplices() << " simplices" << " - dimension= " << st.dimension()
+      << " - filtration= " << st.filtration() << std::endl;
+
+  // Check
+  BOOST_CHECK(st.num_simplices() == 98);
+  BOOST_CHECK(st.dimension() == 3);
+  BOOST_CHECK(st.filtration() == 1.89);
+
+  // Sort the simplices in the order of the filtration
+  st.initialize_filtration();
+
+  // Compute the persistence diagram of the complex
+  Persistent_cohomology<Simplex_tree<>, Field_Zp> pcoh(st);
+
+  pcoh.init_coefficients( coefficient );  // initializes the coefficient field for homology
+  // Check infinite rips
+  pcoh.compute_persistent_cohomology( min_persistence );  // Minimal lifetime of homology feature to be recorded.
+  std::ostringstream ossInfinite;
+
+  pcoh.output_diagram(ossInfinite);
+  std::string strInfinite = ossInfinite.str();
+  return strInfinite;
+}
+
+void test_rips_persistence_in_dimension(int dimension) {
+  std::string value0("  0 0.02 1.12");
+  std::string value1("  0 0.03 1.13");
+  std::string value2("  0 0.04 1.14");
+  std::string value3("  0 0.05 1.15");
+  std::string value4("  0 0.06 1.16");
+  std::string value5("  0 0.07 1.17");
+  std::string value6("  0 0.08 1.18");
+  std::string value7("  0 0.09 1.19");
+  std::string value8("  0 0 inf"    );
+  std::string value9("  0 0.01 inf" );
+
+  value0.insert(0,std::to_string(dimension));
+  value1.insert(0,std::to_string(dimension));
+  value2.insert(0,std::to_string(dimension));
+  value3.insert(0,std::to_string(dimension));
+  value4.insert(0,std::to_string(dimension));
+  value5.insert(0,std::to_string(dimension));
+  value6.insert(0,std::to_string(dimension));
+  value7.insert(0,std::to_string(dimension));
+  value8.insert(0,std::to_string(dimension));
+  value9.insert(0,std::to_string(dimension));
+
+  std::cout << "********************************************************************" << std::endl;
+  std::cout << "TEST OF RIPS_PERSISTENT_COHOMOLOGY_SINGLE_FIELD DIM=" << dimension << " MIN_PERS=0" << std::endl;
+
+  std::string str_rips_persistence = test_rips_persistence(dimension, 0);
+
+  BOOST_CHECK(str_rips_persistence.find(value0) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value1) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value2) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value3) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value4) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value5) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value6) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value7) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value8) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value9) != std::string::npos); // Check found
+  std::cout << "str_rips_persistence=" << str_rips_persistence << std::endl;
+
+  std::cout << "********************************************************************" << std::endl;
+  std::cout << "TEST OF RIPS_PERSISTENT_COHOMOLOGY_SINGLE_FIELD DIM=" << dimension << " MIN_PERS=1" << std::endl;
+
+  str_rips_persistence = test_rips_persistence(dimension, 1);
+
+  BOOST_CHECK(str_rips_persistence.find(value0) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value1) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value2) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value3) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value4) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value5) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value6) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value7) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value8) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value9) != std::string::npos); // Check found
+  std::cout << "str_rips_persistence=" << str_rips_persistence << std::endl;
+
+  std::cout << "********************************************************************" << std::endl;
+  std::cout << "TEST OF RIPS_PERSISTENT_COHOMOLOGY_SINGLE_FIELD DIM=" << dimension << " MIN_PERS=2" << std::endl;
+
+  str_rips_persistence = test_rips_persistence(dimension, 2);
+
+  BOOST_CHECK(str_rips_persistence.find(value0) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value1) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value2) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value3) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value4) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value5) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value6) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value7) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value8) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value9) != std::string::npos); // Check found
+  std::cout << "str_rips_persistence=" << str_rips_persistence << std::endl;
+
+  std::cout << "********************************************************************" << std::endl;
+  std::cout << "TEST OF RIPS_PERSISTENT_COHOMOLOGY_SINGLE_FIELD DIM=" << dimension << " MIN_PERS=Inf" << std::endl;
+
+  str_rips_persistence = test_rips_persistence(dimension, std::numeric_limits<int>::max());
+
+  BOOST_CHECK(str_rips_persistence.find(value0) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value1) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value2) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value3) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value4) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value5) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value6) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value7) == std::string::npos); // Check not found
+  BOOST_CHECK(str_rips_persistence.find(value8) != std::string::npos); // Check found
+  BOOST_CHECK(str_rips_persistence.find(value9) != std::string::npos); // Check found
+  std::cout << "str_rips_persistence=" << str_rips_persistence << std::endl;
+}
+
+BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_1 )
+{
+  test_rips_persistence_in_dimension(1);
+}
+
+BOOST_AUTO_TEST_CASE( rips_persistent_cohomology_single_field_dim_2 )
+{
+  test_rips_persistence_in_dimension(2);
+}
+
+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_5 )
+{
+  test_rips_persistence_in_dimension(5);
+}
+
+// TODO(VR): not working from 6
+// std::string str_rips_persistence = test_rips_persistence(6, 0);
+// TODO(VR): division by zero
+// std::string str_rips_persistence = test_rips_persistence(0, 0);