Begin overhaul of the python interface

Reorginization of functions into useful modules, current structure is bad

src/.removed_features/domain/Domain.hpp

@@ -25,7 +25,7 @@
 #include <boost/serialization/array.hpp>
 
 #ifdef PY_BINDINGS
-    #include <python/conversion_utils.hpp>
+    #include <python/py_binding_cpp_def/conversion_utils.hpp>
     namespace py = boost::python;
     namespace np = boost::python::numpy;
 #endif
@@ -514,4 +514,4 @@ bool operator>(Domain b, double a);
  */
 bool operator>=(Domain b, double a);
 
-#endif
\ No newline at end of file
+#endif

src/CMakeLists.txt

@@ -55,12 +55,12 @@ if(BUILD_PYTHON)
     include(${CMAKE_CURRENT_LIST_DIR}/../cmake/TransferDocStrings.cmake)
     set(CMAKE_INSTALL_RPATH ${PYTHON_PREFIX}/lib/;${Boost_LIBRARY_DIRS};${LAPACK_DIR};${MPI_DIR};${COIN_CLP_LIBRARY_DIRS};${NLOPT_LIBRARY_DIRS};${COIN_UTILS_LIBRARY_DIRS};${CMAKE_CURRENT_LIST_DIR}/../lib/;${PYTHON_INSTDIR}/sissopp/;${FMT_LIBRARY_DIRS})
 
-    transfer_doc_string(${CMAKE_CURRENT_LIST_DIR}/python/bindings_docstring_keyed.cpp ${CMAKE_CURRENT_LIST_DIR}/python/bindings.cpp)
-    transfer_doc_string(${CMAKE_CURRENT_LIST_DIR}/python/bindings_docstring_keyed.hpp ${CMAKE_CURRENT_LIST_DIR}/python/bindings.hpp)
+    transfer_doc_string(${CMAKE_CURRENT_LIST_DIR}/python/py_binding_cpp_def/bindings_docstring_keyed.cpp ${CMAKE_CURRENT_LIST_DIR}/python/py_binding_cpp_def/bindings.cpp)
+    transfer_doc_string(${CMAKE_CURRENT_LIST_DIR}/python/py_binding_cpp_def/bindings_docstring_keyed.hpp ${CMAKE_CURRENT_LIST_DIR}/python/py_binding_cpp_def/bindings.hpp)
 
     file(GLOB_RECURSE SISSOLIB_SOURCES ${CMAKE_CURRENT_LIST_DIR}/python/*cpp)
     list(REMOVE_ITEM SISSOLIB_SOURCES ${CMAKE_CURRENT_LIST_DIR}/main.cpp)
-    list(REMOVE_ITEM SISSOLIB_SOURCES ${CMAKE_CURRENT_LIST_DIR}/python/bindings_docstring_keyed.cpp)
+    list(REMOVE_ITEM SISSOLIB_SOURCES ${CMAKE_CURRENT_LIST_DIR}/python/py_binding_cpp_def/bindings_docstring_keyed.cpp)
     if(NOT BUILD_PARAMS)
         file(GLOB_RECURSE NOT_SISSOLIB_SOURCES */parameterize*.cpp)
         list(REMOVE_ITEM SISSOLIB_SOURCES ${NOT_SISSOLIB_SOURCES})

src/feature_creation/node/operator_nodes/OperatorNode.hpp

@@ -26,8 +26,6 @@
 #endif
 
 #ifdef PY_BINDINGS
-#include "python/conversion_utils.hpp"
-
 namespace py = boost::python;
 namespace np = boost::python::numpy;
 #endif

src/feature_creation/node/value_storage/nodes_value_containers.hpp

@@ -22,7 +22,7 @@
 #include"utils/enum.hpp"
 
 #ifdef PY_BINDINGS
-#include "python/conversion_utils.hpp"
+#include "python/py_binding_cpp_def/conversion_utils.hpp"
 namespace np = boost::python::numpy;
 namespace py = boost::python;
 #endif

src/python/classification/svm.py → src/python/.old_organization/classification/svm.py

@@ -7,7 +7,7 @@ def update_model_svm(model, c=1.0, max_iter=-1, tol=0.0001, filename=None):
     """Generate a new model with an updated SVM from sckitlearn
 
     Args:
-        model (list of str, str or ModelClassifier): The model to be updated
+        model (list of str, str, or ModelClassifier): The model to be updated
         c (float): The new c value to use
         max_iter(int): The maximum number of iterations to use
         tol(float): Maximum allowable error
@@ -75,6 +75,7 @@ def update_model_svm(model, c=1.0, max_iter=-1, tol=0.0001, filename=None):
         start_train += ts_train
         start_test += ts_test
 
+    print("The updated coefficient for the decision boundaries:")
     print(updated_coefs)
 
     new_model = ModelClassifier(

src/python/_sisso.cpp → src/python/py_binding_cpp_def/_sisso.cpp

-#include <python/bindings.hpp>
-
 #include <boost/python/suite/indexing/map_indexing_suite.hpp>
 #include <boost/python/numpy.hpp>
 
-#include <mpi_interface/MPI_Interface.hpp>
 #include <Python.h>
 
+#include "mpi_interface/MPI_Interface.hpp"
+#include "python/py_binding_cpp_def/bindings.hpp"
+
 static void finalize();
 
 BOOST_PYTHON_MODULE(_sisso)