Can't make cgal and hdf5 work together - c++

Question

I am using these steps (line 42 in the 2nd sourcecode place). However, I reading/writing to files with .h5 extension, where the code needs surely this flag: -lhdf5.
In order to compile the functions for hdf5, I would do something like this:
g++ -std=c++0x main.cpp -lhdf5
Notice that the flag must be placed at the end of the compilation command, as stated in this answer.
I updated my question, due to a comment.
So, I modified the CMakeLists.txt and what I changed was this part:
add_definitions(${CMAKE_CXX_FLAGS} "-std=c++0x")
set(CMAKE_EXE_LINKER_FLAGS "-lhdf5 -lhdf5_hl -lhdf5_cpp")
However, when I execute make, it seems that hdf5 is not found.
EDIT
With Marc's suggestion, I got:
Linking CXX executable exe
/usr/bin/cmake -E cmake_link_script CMakeFiles/exe.dir/link.txt --verbose=1
/usr/bin/c++ -frounding-math -O3 -DNDEBUG -lhdf5 -lhdf5_hl -lhdf5_cpp CMakeFiles/exe.dir/match.cpp.o -o exe -rdynamic -L/home/samaras/code/CGAL-4.3/lib -L/usr/local/lib -lmpfr -lgmp /home/samaras/code/CGAL-4.3/lib/libCGAL.so -lboost_thread-mt -lpthread /usr/local/lib/libboost_system.so /home/samaras/code/CGAL-4.3/lib/libCGAL.so -lboost_thread-mt -lpthread /usr/local/lib/libboost_system.so -Wl,-rpath,/home/samaras/code/CGAL-4.3/lib:/usr/local/lib
and here is the problem, I think (see the answer I linked too). The linker flag of hdf5 is NOT at the end.
How to put it at the end? Maybe I am using the wrong set()?
EDIT - solution
Here is the working CMakeLists.txt:
# Created by the script cgal_create_cmake_script_with_options
# This is the CMake script for compiling a set of CGAL applications.
project( exe )
cmake_minimum_required(VERSION 2.6.2)
if("${CMAKE_MAJOR_VERSION}.${CMAKE_MINOR_VERSION}" VERSION_GREATER 2.6)
if("${CMAKE_MAJOR_VERSION}.${CMAKE_MINOR_VERSION}.${CMAKE_PATCH_VERSION}" VERSION_GREATER 2.8.3)
cmake_policy(VERSION 2.8.4)
else()
cmake_policy(VERSION 2.6)
endif()
endif()
set( CMAKE_ALLOW_LOOSE_LOOP_CONSTRUCTS true )
if ( COMMAND cmake_policy )
cmake_policy( SET CMP0003 NEW )
endif()
# CGAL and its components
add_definitions(${CMAKE_CXX_FLAGS} "-std=c++0x")
find_package( CGAL QUIET COMPONENTS )
if ( NOT CGAL_FOUND )
message(STATUS "This project requires the CGAL library, and will not be compiled.")
return()
endif()
# include helper file
include( ${CGAL_USE_FILE} )
find_package (CGAL)
include (${CGAL_USE_FILE})
add_definitions (${CGAL_CXX_FLAGS_INIT})
include_directories (${CGAL_INCLUDE_DIRS})
set (libraries ${libraries} ${CGAL_LIBRARY} ${CGAL_3RD_PARTY_LIBRARIES})
set (CMAKE_EXE_LINKER_FLAGS "-dynamic ${CMAKE_EXE_LINKER_FLAGS}")
find_package (HDF5 QUIET COMPONENTS CXX)
if (HDF5_FOUND)
include_directories (SYSTEM ${HDF5_CXX_INCLUDE_DIR})
set (HDF5_libraries ${HDF5_hdf5_LIBRARY} ${HDF5_hdf5_cpp_LIBRARY})
set (HDF5_libraries hdf5 hdf5_cpp)
endif (HDF5_FOUND)
# Boost and its components
find_package( Boost REQUIRED )
if ( NOT Boost_FOUND )
message(STATUS "This project requires the Boost library, and will not be compiled.")
return()
endif()
# include for local directory
# include for local package
# Creating entries for target: exe
# ############################
add_executable( exe match.cpp )
add_to_cached_list( CGAL_EXECUTABLE_TARGETS exe )
# Link the executable to CGAL and third-party libraries
target_link_libraries(exe ${CGAL_LIBRARIES} ${CGAL_3RD_PARTY_LIBRARIES} ${libraries} ${HDF5_libraries})

Answer 1

I use CGAL and HDF5 together. Here's the relevant bit from my CMakeLists.txt:
find_package (HDF5 QUIET COMPONENTS CXX)
if (HDF5_FOUND)
include_directories (SYSTEM ${HDF5_CXX_INCLUDE_DIR})
add_library (hdf5 STATIC IMPORTED)
set_target_properties (hdf5 PROPERTIES IMPORTED_LOCATION ${HDF5_hdf5_LIBRARY})
add_library (hdf5_cpp STATIC IMPORTED)
set_target_properties (hdf5_cpp PROPERTIES IMPORTED_LOCATION ${HDF5_hdf5_cpp_LIBRARY})
set (HDF5_libraries hdf5 hdf5_cpp)
add_executable (exe match.cpp)
target_link_libraries (exe ${libraries} ${HDF5_libraries})
endif (HDF5_FOUND)
Earlier in CMakeLists.txt, there is:
find_package (CGAL)
include (${CGAL_USE_FILE})
add_definitions (${CGAL_CXX_FLAGS_INIT})
include_directories (${CGAL_INCLUDE_DIRS})
set (libraries ${libraries} ${CGAL_LIBRARY} ${CGAL_3RD_PARTY_LIBRARIES})
set (CMAKE_EXE_LINKER_FLAGS "-dynamic ${CMAKE_EXE_LINKER_FLAGS}")