GUDHI 2.0.1 as released by upstream in a tarball.upstream/2.0.1

3 files changed, 225 insertions, 0 deletions

diff --git a/utilities/common/CMakeLists.txt b/utilities/common/CMakeLists.txt
new file mode 100644
index 00000000..b3e4b436
--- /dev/null
+++ b/utilities/common/CMakeLists.txt
@@ -0,0 +1,17 @@
+cmake_minimum_required(VERSION 2.6)
+project(off_file_from_shape_generator)
+
+if (NOT CGAL_WITH_EIGEN3_VERSION VERSION_LESS 4.6.0)
+  add_executable ( off_file_from_shape_generator off_file_from_shape_generator.cpp )
+  add_test(NAME off_file_from_shape_generator_on_sphere_1000_3_15.2 COMMAND $<TARGET_FILE:off_file_from_shape_generator>
+      "on" "sphere" "onSphere.off" "1000" "3" "15.2")
+  add_test(NAME off_file_from_shape_generator_in_sphere_100_2 COMMAND $<TARGET_FILE:off_file_from_shape_generator>
+      "in" "sphere" "inSphere.off" "100" "2")
+
+  # on cube is not available in CGAL
+  add_test(NAME off_file_from_shape_generator_in_cube_10000_3_5.8 COMMAND $<TARGET_FILE:off_file_from_shape_generator>
+      "in" "cube" "inCube.off" "10000" "3" "5.8")
+
+  install(TARGETS off_file_from_shape_generator DESTINATION bin)
+
+endif(NOT CGAL_WITH_EIGEN3_VERSION VERSION_LESS 4.6.0)
diff --git a/utilities/common/README b/utilities/common/README
new file mode 100644
index 00000000..dc841521
--- /dev/null
+++ b/utilities/common/README
@@ -0,0 +1,19 @@
+======================= off_file_from_shape_generator ==================================
+
+Example of use :
+
+*** on|in sphere|cube|curve|torus|klein generator
+
+./off_file_from_shape_generator on sphere onSphere.off 1000 3 15.2
+
+ => generates a onSphere.off file with 1000 points randomized on a sphere of dimension 3 and radius 15.2
+
+./off_file_from_shape_generator in sphere inSphere.off 100 2
+
+ => generates a inSphere.off file with 100 points randomized in a sphere of dimension 2 (circle) and radius 1.0 (default)
+
+./off_file_from_shape_generator in cube inCube.off 10000 3 5.8
+
+ => generates a inCube.off file with 10000 points randomized in a cube of dimension 3 and side 5.8
+
+!! Warning: hypegenerator on cube is not available !!
diff --git a/utilities/common/off_file_from_shape_generator.cpp b/utilities/common/off_file_from_shape_generator.cpp
new file mode 100644
index 00000000..afcd558c
--- /dev/null
+++ b/utilities/common/off_file_from_shape_generator.cpp
@@ -0,0 +1,189 @@
+/*    This file is part of the Gudhi Library. The Gudhi library
+ *    (Geometric Understanding in Higher Dimensions) is a generic C++
+ *    library for computational topology.
+ *
+ *    Author(s):       Vincent Rouvreau
+ *
+ *    Copyright (C) 2014  INRIA Saclay (France)
+ *
+ *    This program is free software: you can redistribute it and/or modify
+ *    it under the terms of the GNU General Public License as published by
+ *    the Free Software Foundation, either version 3 of the License, or
+ *    (at your option) any later version.
+ *
+ *    This program is distributed in the hope that it will be useful,
+ *    but WITHOUT ANY WARRANTY; without even the implied warranty of
+ *    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ *    GNU General Public License for more details.
+ *
+ *    You should have received a copy of the GNU General Public License
+ *    along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ */
+
+#include <gudhi/random_point_generators.h>
+
+#include <CGAL/Epick_d.h>
+#include <CGAL/algorithm.h>
+#include <CGAL/assertions.h>
+
+#include <iostream>
+#include <iterator>
+#include <vector>
+#include <fstream>  // for std::ofstream
+#include <cstdlib>
+
+typedef CGAL::Epick_d< CGAL::Dynamic_dimension_tag > K;
+typedef K::Point_d Point;
+
+void usage(char * const progName) {
+  std::cerr << "Usage: " << progName << " in|on sphere|cube off_file_name points_number[integer > 0] " <<
+      "dimension[integer > 1] radius[double > 0.0 | default = 1.0]" << std::endl;
+  exit(-1);
+}
+
+int main(int argc, char **argv) {
+  // program args management
+  if ((argc != 6) && (argc != 7)) {
+    std::cerr << "Error: Number of arguments (" << argc << ") is not correct" << std::endl;
+    usage(argv[0]);
+  }
+
+  int points_number = atoi(argv[4]);
+  if (points_number <= 0) {
+    std::cerr << "Error: " << argv[4] << " is not correct" << std::endl;
+    usage(argv[0]);
+  }
+
+  int dimension = atoi(argv[5]);
+  if (dimension <= 0) {
+    std::cerr << "Error: " << argv[5] << " is not correct" << std::endl;
+    usage(argv[0]);
+  }
+
+  double radius = 1.0;
+  if (argc == 7) {
+    radius = atof(argv[6]);
+    if (radius <= 0.0) {
+      std::cerr << "Error: " << argv[6] << " is not correct" << std::endl;
+      usage(argv[0]);
+    }
+  }
+
+  bool in = false;
+  if (strcmp(argv[1], "in") == 0) {
+    in = true;
+  } else if (strcmp(argv[1], "on") != 0) {
+      std::cerr << "Error: " << argv[1] << " is not correct" << std::endl;
+      usage(argv[0]);
+  }
+
+  enum class Data_shape { sphere, cube, curve, torus, klein, undefined};
+
+  Data_shape shape = Data_shape::undefined;
+  if (memcmp(argv[2], "sphere", sizeof("sphere")) == 0) {
+    shape = Data_shape::sphere;
+  } else if (memcmp(argv[2], "cube", sizeof("cube")) == 0) {
+    shape = Data_shape::cube;
+  } else if (memcmp(argv[2], "curve", sizeof("curve")) == 0) {
+    shape = Data_shape::curve;
+  } else if (memcmp(argv[2], "torus", sizeof("torus")) == 0) {
+    shape = Data_shape::torus;
+  } else if (memcmp(argv[2], "klein", sizeof("klein")) == 0) {
+    shape = Data_shape::klein;
+  } else {
+      std::cerr << "Error: " << argv[2] << " is not correct" << std::endl;
+      usage(argv[0]);
+  }
+
+  std::ofstream diagram_out(argv[3]);
+  if (dimension == 3) {
+    diagram_out << "OFF" << std::endl;
+    diagram_out << points_number << " 0 0" << std::endl;
+  } else {
+    diagram_out << "nOFF" << std::endl;
+    diagram_out << dimension << " " << points_number << " 0 0" << std::endl;
+  }
+
+  if (diagram_out.is_open()) {
+    // Generate "points_number" random points in a vector
+    std::vector<Point> points;
+    if (in) {
+      switch (shape) {
+        case Data_shape::sphere:
+          points = Gudhi::generate_points_in_ball_d<K>(points_number, dimension, radius);
+        break;
+        case Data_shape::cube:
+          points = Gudhi::generate_points_in_ball_d<K>(points_number, dimension, radius);
+        break;
+        case Data_shape::curve:
+          std::cerr << "Sorry: in curve is not available" << std::endl;
+          usage(argv[0]);
+        break;
+        case Data_shape::torus:
+          std::cerr << "Sorry: in torus is not available" << std::endl;
+          usage(argv[0]);
+        break;
+        case Data_shape::klein:
+          std::cerr << "Sorry: in klein is not available" << std::endl;
+          usage(argv[0]);
+        break;
+        default:
+          usage(argv[0]);
+        break;
+      }
+    } else {  // means "on"
+      switch (shape) {
+        case Data_shape::sphere:
+          points = Gudhi::generate_points_on_sphere_d<K>(points_number, dimension, radius);
+        break;
+        case Data_shape::cube:
+          std::cerr << "Sorry: on cube is not available" << std::endl;
+          usage(argv[0]);
+        break;
+        case Data_shape::curve:
+          points = Gudhi::generate_points_on_moment_curve<K>(points_number, dimension, -radius/2., radius/2.);
+        break;
+        case Data_shape::torus:
+          if (dimension == 3)
+            points = Gudhi::generate_points_on_torus_3D<K>(points_number, dimension, radius, radius/2.);
+          else
+            points = Gudhi::generate_points_on_torus_d<K>(points_number, dimension, true);
+        break;
+        case Data_shape::klein:
+          switch (dimension) {
+            case 3:
+              points = Gudhi::generate_points_on_klein_bottle_3D<K>(points_number, radius, radius/2., true);
+            break;
+            case 4:
+              points = Gudhi::generate_points_on_klein_bottle_4D<K>(points_number, radius, radius/2., 0., true);
+            break;
+            case 5:
+              points = Gudhi::generate_points_on_klein_bottle_variant_5D<K>(points_number, radius, radius/2., true);
+            break;
+            default:
+              std::cerr << "Sorry: on klein is only available for dimension 3, 4 and 5" << std::endl;
+              usage(argv[0]);
+            break;
+          }
+        break;
+        default:
+          usage(argv[0]);
+        break;
+      }
+    }
+
+    for (auto thePoint : points) {
+      int i = 0;
+      for (; i < dimension - 1; i++) {
+        diagram_out << thePoint[i] << " ";
+      }
+      diagram_out << thePoint[i] << std::endl;  // last point + Carriage Return
+    }
+  } else {
+    std::cerr << "Error: " << argv[3] << " cannot be opened" << std::endl;
+    usage(argv[0]);
+  }
+
+  return 0;
+}
+