[CMake] Use "-isystem" for dependencies and remove useless lines

CMakeLists.txt

@@ -55,13 +55,8 @@ ENDIF(WIN32)
 # ----------------------------------------------------
 # --- OPTIONS  ---------------------------------------
 # ----------------------------------------------------
-OPTION (EIGEN_NUMPY_ALIGNED "Directly aligned data between Numpy and Eigen" OFF)
 OPTION (BUILD_UNIT_TESTS "Build the unitary tests" ON)
 
-IF(EIGEN_NUMPY_ALIGNED)
-  ADD_DEFINITIONS(-DEIGENPY_ALIGNED)
-ENDIF(EIGEN_NUMPY_ALIGNED)
-
 # ----------------------------------------------------
 # --- DEPENDANCIES -----------------------------------
 # ----------------------------------------------------
@@ -157,13 +152,9 @@ ADD_SUBDIRECTORY(python)
 # ----------------------------------------------------
 ADD_SUBDIRECTORY(unittest)
 
-IF(EIGEN_NUMPY_ALIGNED)
-  PKG_CONFIG_APPEND_CFLAGS("-DEIGENPY_ALIGNED")
-ENDIF(EIGEN_NUMPY_ALIGNED)
-
 PKG_CONFIG_APPEND_LIBS(${PROJECT_NAME})
-PKG_CONFIG_APPEND_CFLAGS("-I${PYTHON_INCLUDE_DIRS}")
-PKG_CONFIG_APPEND_CFLAGS("-I${NUMPY_INCLUDE_DIRS}")
+PKG_CONFIG_APPEND_CFLAGS("-isystem ${PYTHON_INCLUDE_DIRS}")
+PKG_CONFIG_APPEND_CFLAGS("-isystem ${NUMPY_INCLUDE_DIRS}")
 PKG_CONFIG_APPEND_BOOST_LIBS(${BOOST_COMPONENTS})
 
 SETUP_PROJECT_FINALIZE()