Fix interface for Alpha complex and Tangential complex

git-svn-id: svn+ssh://scm.gforge.inria.fr/svnroot/gudhi/branches/ST_cythonize@1801 636b058d-ea47-450e-bf9e-a15bfbe3eedb

Former-commit-id: 995b53c7f65057ec155988b90f17299665eab4ae

3 files changed, 51 insertions, 19 deletions

diff --git a/src/cython/doc/alpha_complex_user.rst b/src/cython/doc/alpha_complex_user.rst
index 5ad3a9e7..ed2a470c 100644
--- a/src/cython/doc/alpha_complex_user.rst
+++ b/src/cython/doc/alpha_complex_user.rst
@@ -25,14 +25,13 @@ This example builds the Delaunay triangulation from the given points, and initia
     import gudhi
     alpha_complex = gudhi.AlphaComplex(points=[[1, 1], [7, 0], [4, 6], [9, 6], [0, 14], [2, 19], [9, 17]])
 
-    simplex_tree = gudhi.SimplexTree()
-    alpha_complex.create_simplex_tree(simplex_tree, max_alpha_square=60.0)
+    simplex_tree = alpha_complex.create_simplex_tree(max_alpha_square=60.0)
     result_str = 'Alpha complex is of dimension ' + repr(simplex_tree.dimension()) + ' - ' + \
         repr(simplex_tree.num_simplices()) + ' simplices - ' + \
         repr(simplex_tree.num_vertices()) + ' vertices.'
     print(result_str)
-    for fitered_value in simplex_tree.get_filtered_tree():
-        print(fitered_value)
+    for filtered_value in simplex_tree.get_filtered_tree():
+        print(filtered_value)
 
 The output is:
 
@@ -156,14 +155,13 @@ Then, it is asked to display information about the alpha complex:
 
     import gudhi
     alpha_complex = gudhi.AlphaComplex(off_file='alphacomplexdoc.off')
-    simplex_tree = gudhi.SimplexTree()
-    alpha_complex.create_simplex_tree(simplex_tree, max_alpha_square=59.0)
+    simplex_tree = alpha_complex.create_simplex_tree(max_alpha_square=59.0)
     result_str = 'Alpha complex is of dimension ' + repr(simplex_tree.dimension()) + ' - ' + \
         repr(simplex_tree.num_simplices()) + ' simplices - ' + \
         repr(simplex_tree.num_vertices()) + ' vertices.'
     print(result_str)
-    for fitered_value in simplex_tree.get_filtered_tree():
-        print(fitered_value)
+    for filtered_value in simplex_tree.get_filtered_tree():
+        print(filtered_value)
 
 the program output is:
 
diff --git a/src/cython/doc/persistence_graphical_tools_user.rst b/src/cython/doc/persistence_graphical_tools_user.rst
index b23ad5e6..43c695bf 100644
--- a/src/cython/doc/persistence_graphical_tools_user.rst
+++ b/src/cython/doc/persistence_graphical_tools_user.rst
@@ -41,7 +41,6 @@ This function can display the persistence result as a diagram:
     import gudhi
     
     alpha_complex = gudhi.AlphaComplex(off_file='tore3D_300.off')
-    simplex_tree = gudhi.SimplexTree()
-    alpha_complex.create_simplex_tree(simplex_tree)
+    simplex_tree = alpha_complex.create_simplex_tree()
     diag = simplex_tree.persistence()
     gudhi.diagram_persistence(diag)
diff --git a/src/cython/doc/tangential_complex_user.rst b/src/cython/doc/tangential_complex_user.rst
index 588de08c..33c03e34 100644
--- a/src/cython/doc/tangential_complex_user.rst
+++ b/src/cython/doc/tangential_complex_user.rst
@@ -111,20 +111,55 @@ itself and/or after the perturbation process.
 Simple example
 --------------
 
-This example builds the Tangential complex of point set. Note that the
-dimension of the kernel here is dynamic, which is slower, but more flexible:
-the intrinsic and ambient dimensions does not have to be known at compile-time.
+This example builds the Tangential complex of point set.
 
-testcode::
+.. testcode::
 
-   import gudhi
-   tc = gudhi.TangentialComplex(points=[[1, 1], [7, 0], [4, 6], [9, 6], [0, 14], [2, 19], [9, 17]])
+    import gudhi
+    tc = gudhi.TangentialComplex(points=[[1, 1], [7, 0], [4, 6], [9, 6], [0, 14], [2, 19], [9, 17]])
+    result_str = 'Tangential contains ' + repr(tc.num_simplices()) + \
+        ' simplices - ' + repr(tc.num_vertices()) + ' vertices.'
+    print(result_str)
 
-The output is:
+    st = tc.create_simplex_tree()
+    result_str = 'Simplex tree is of dimension ' + repr(st.dimension()) + \
+        ' - ' + repr(st.num_simplices()) + ' simplices - ' + \
+        repr(st.num_vertices()) + ' vertices.'
+    print(result_str)
+    for filtered_value in st.get_filtered_tree():
+        print(filtered_value)
 
-testoutput::
+The output is:
 
-   Tangential complex is of dimension 2 - 25 simplices - 7 vertices.
+.. testoutput::
+
+    Tangential contains 18 simplices - 7 vertices.
+    Simplex tree is of dimension 2 - 25 simplices - 7 vertices.
+    ([0], 0.0)
+    ([1], 0.0)
+    ([0, 1], 0.0)
+    ([2], 0.0)
+    ([0, 2], 0.0)
+    ([1, 2], 0.0)
+    ([0, 1, 2], 0.0)
+    ([3], 0.0)
+    ([1, 3], 0.0)
+    ([2, 3], 0.0)
+    ([1, 2, 3], 0.0)
+    ([4], 0.0)
+    ([0, 4], 0.0)
+    ([2, 4], 0.0)
+    ([0, 2, 4], 0.0)
+    ([5], 0.0)
+    ([4, 5], 0.0)
+    ([6], 0.0)
+    ([2, 6], 0.0)
+    ([3, 6], 0.0)
+    ([2, 3, 6], 0.0)
+    ([4, 6], 0.0)
+    ([2, 4, 6], 0.0)
+    ([5, 6], 0.0)
+    ([4, 5, 6], 0.0)
 
 
 Example with perturbation