initialising CEAO repo

CEAO repo initialised with queen tuto from paradiseo exo.
new readme.md for install and pointing dependencies
introducing .gitignore to prevent build directory + other stuffs from queen tuto

.gitignore

+correction/
+build/
+howto.pdf
\ No newline at end of file

CMakeLists.txt

+######################################################################################
+### 0) Set your application properties
+######################################################################################
+# check cmake version compatibility
+cmake_minimum_required(VERSION 2.6)
+
+# Here define your project name
+project(QUEEN)
+
+# Here define the name and the version of your package
+set(PACKAGE_NAME "QUEEN" CACHE STRING "Package name" FORCE)
+set(PACKAGE_VERSION "2.0" CACHE STRING "aPackage version" FORCE)
+
+
+# regular expression checking
+include_regular_expression("^.*$" "^$")
+
+# set a language for the entire project.
+enable_language(CXX)
+enable_language(C)
+
+######################################################################################
+
+######################################################################################
+
+######################################################################################
+### 2) Include the sources
+######################################################################################
+######################################
+### Include required modules & utilities
+#####################################################################################
+include(CMakeBackwardCompatibilityCXX)
+
+include(FindDoxygen)
+
+include(CheckLibraryExists)
+
+set(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} "${CMAKE_SOURCE_DIR}/cmake/module")
+find_package(Paradiseo COMPONENTS eoutils eo)
+
+include_directories(${PARADISEO_INCLUDE_DIR})
+              
+######################################################################################
+
+#####################################################################################
+### Manage the build type
+#####################################################################################
+
+# the user should choose the build type on windows environments,excepted under cygwin (default=none)
+set(CMAKE_DEFAULT_BUILD_TYPE "Release" CACHE STRING "Variable that stores the default CMake build type" FORCE)
+
+find_program(MEMORYCHECK_COMMAND
+    NAMES purify valgrind
+    PATHS
+    "/home/alexis/.local/share/paradiseo /usr/local/bin /usr/bin [HKEY_LOCAL_MACHINE\\SOFTWARE\\Rational Software\\Purify\\Setup;InstallFolder]"
+    DOC "Path to the memory checking command, used for memory error detection.") 
+ 
+      
+if(CMAKE_BUILD_TYPE MATCHES Debug)
+    add_definitions(-DCMAKE_VERBOSE_MAKEFILE=ON)
+endif(CMAKE_BUILD_TYPE MATCHES Debug)
+
+add_definitions(-DDEPRECATED_MESSAGES)
+
+######################################################################################
+### 3) Link the librairies for your executable
+######################################################################################
+
+add_subdirectory(src)
+add_subdirectory(test)
+add_subdirectory(application)
+
+######################################################################################
+

CMakeLists.txt.save

+######################################################################################
+### 0) Set your application properties
+######################################################################################
+# check cmake version compatibility
+cmake_minimum_required(VERSION 2.6)
+
+# Here define your project name
+project(QUEEN)
+
+# Here define the name and the version of your package
+set(PACKAGE_NAME "QUEEN" CACHE STRING "Package name" FORCE)
+set(PACKAGE_VERSION "2.0" CACHE STRING "aPackage version" FORCE)
+
+
+# regular expression checking
+include_regular_expression("^.*$" "^$")
+
+# set a language for the entire project.
+enable_language(CXX)
+enable_language(C)
+
+######################################################################################
+
+######################################################################################
+
+######################################################################################
+### 2) Include the sources
+######################################################################################
+######################################
+### Include required modules & utilities
+#####################################################################################
+include(CMakeBackwardCompatibilityCXX)
+
+include(FindDoxygen)
+
+include(CheckLibraryExists)
+
+
+
+set(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} "${CMAKE_SOURCE_DIR}/cmake/module")
+find_package(Paradiseo COMPONENTS eoutils eo)
+
+include_directories(${PARADISEO_INCLUDE_DIR})
+              
+######################################################################################
+
+#####################################################################################
+### Manage the build type
+#####################################################################################
+
+# the user should choose the build type on windows environments,excepted under cygwin (default=none)
+set(CMAKE_DEFAULT_BUILD_TYPE "Release" CACHE STRING "Variable that stores the default CMake build type" FORCE)
+
+find_program(MEMORYCHECK_COMMAND
+    NAMES purify valgrind
+    PATHS
+    "/usr/local/bin /usr/bin [HKEY_LOCAL_MACHINE\\SOFTWARE\\Rational Software\\Purify\\Setup;InstallFolder]"
+    DOC "Path to the memory checking command, used for memory error detection.") 
+ 
+      
+if(CMAKE_BUILD_TYPE MATCHES Debug)
+    add_definitions(-DCMAKE_VERBOSE_MAKEFILE=ON)
+endif(CMAKE_BUILD_TYPE MATCHES Debug)
+
+add_definitions(-DDEPRECATED_MESSAGES)
+
+######################################################################################
+### 3) Link the librairies for your executable
+######################################################################################
+
+add_subdirectory(src)
+add_subdirectory(test)
+add_subdirectory(application)
+
+######################################################################################
+

CTestConfig.cmake

+set(CTEST_PROJECT_NAME "ParadisEO")
+set(CTEST_NIGHTLY_START_TIME "00:00:00 EST")
+
+set(CTEST_DROP_METHOD "http")
+set(CTEST_DROP_SITE "cdash.inria.fr")
+set(CTEST_DROP_LOCATION "/CDash/submit.php?project=ParadisEO")
+set(CTEST_DROP_SITE_CDASH TRUE)

README.md

 # CSDVP Evolutionary Algorithm Optimization
 
-CSDVP optimization through EA approach.
+Constraint Satisfaction Decaying Variables Problem (CSDVP) optimization through EA approach (**CEAO**)
\ No newline at end of file
+
+## Dependencies and configuration
+
+1. CEAO project depends on the C++ [http://paradiseo.gforge.inria.fr/index.php?](Paradiseo Framework).
+
+Therefore, you must [http://paradiseo.gforge.inria.fr/index.php?n=Download.Download](download and install) it.
+
+If you cloned the Paradiseo's repository, do not forget to build it:
+
+```bash
+paradiseoPath> mkdir build && cd build && cmake ../ && make
+```
+
+2. Correctly link CEAO to your paradiseo install (Optional, iff you manualy build Paradiseo)
+
+Next, you need to locate your paradiseo install while invoking cmake, in order to have the library availables while building CEAO.
+To do so, invoke cmake with the following option:
+
+```bash
+ceaoPath/build> cmake -DPARADISEO_ROOT=/home/user/your/path/to/paradiseo
+ceaoPath/build> make
+```
+
+Your project should now be correctly compiled.
+
+### Word of caution
+With some distros, Paradiseo project based can throw an error during the build due to linking some static objects to dynamic ones. In that case, rebuild Paradiseo with the `-fPIC` option (or `--enable-shared` if the previous does not work) in the CmakeConfig of the repository.
\ No newline at end of file

application/CMakeLists.txt

+# 1) Include the sources
+
+INCLUDE_DIRECTORIES(${CMAKE_SOURCE_DIR}/src)
+
+# 2) Define targets: executable and dependencies
+
+ADD_EXECUTABLE(solveQueen main.cpp)
+ADD_EXECUTABLE(tryInit tryInit.cpp)
+ADD_EXECUTABLE(tryMutation tryMutation.cpp)
+ADD_EXECUTABLE(tryCrossover tryCrossover.cpp)
+ADD_EXECUTABLE(tryEval tryEval.cpp)
+
+ADD_DEPENDENCIES(solveQueen lQueen)
+ADD_DEPENDENCIES(tryInit lQueen)
+ADD_DEPENDENCIES(tryMutation lQueen)
+ADD_DEPENDENCIES(tryCrossover lQueen)
+ADD_DEPENDENCIES(tryEval lQueen)
+
+# 3) Link the librairies for your executable
+
+TARGET_LINK_LIBRARIES(solveQueen ${PARADISEO_LIBRARIES} lQueen)
+TARGET_LINK_LIBRARIES(tryInit ${PARADISEO_LIBRARIES} lQueen)
+TARGET_LINK_LIBRARIES(tryMutation ${PARADISEO_LIBRARIES} lQueen)
+TARGET_LINK_LIBRARIES(tryCrossover ${PARADISEO_LIBRARIES} lQueen)
+TARGET_LINK_LIBRARIES(tryEval ${PARADISEO_LIBRARIES} lQueen)

application/main.cpp

+#include <eo>
+#include <queen.h>
+#include <queenInit.h>
+#include <queenMutation.h>
+#include <queenCrossover.h>
+#include <queenEval.h>
+
+int main(int argc, char* argv[]){
+
+  //Define a QUEEN -> 1 line
+  QUEEN s1;
+
+  //Define an initializer -> 1 line
+  queenInit init(8,1);
+
+  //Define the evaluation function -> 1 line
+  queenEval eval;
+
+  //Define mutation -> 1 line
+  queenMutation mut;
+
+  //Define crossover -> 1 line
+  queenCrossover cross;
+
+  //Define a generational continuator (put 100 generation for example) -> 1 line
+  eoGenContinue<QUEEN> cont(100);
+
+  //Define the transformation object (it contains, the crossover, the crossover rate, the mutation and the mutation rate) -> 1 line
+  eoSGATransform<QUEEN> transform(cross, 0.1, mut, 0.1);
+
+  //Define a selection method that selects ONE individual by deterministic tournament(put the tournament size at 2 for example) -> 1 line 
+  eoDetTournamentSelect<QUEEN> selectOne(2);
+
+  //Define a "eoSelectPerc" with the tournament with default parameter (allow to select the good size of individuals) -> 1 line
+  eoSelectPerc<QUEEN> select(selectOne);
+
+  //Define a generational replacement strategy -> 1 line
+  eoGenerationalReplacement<QUEEN> replace;
+
+  //Define a pop of QUEEN -> 1 line
+  eoPop<QUEEN> pop;
+
+  //Fill the pop with 100 initialized and evaluated QUEEN
+  //Use the initializer, the evaluation function and the push_back operator's vector -> A "for" included three insrtuctions
+  for(unsigned int i=0; i<100; i++){
+    init(s1);
+    eval(s1);
+    pop.push_back(s1);
+  }
+  
+  //Print the pop -> 1 line
+  pop.printOn(std::cout);
+
+  //HERE you can test whether you succeded in initializing the population by compiling and executing this part of the program.
+  
+  //Print end of line (endl)
+  std::cout << std::endl;
+  
+  /*Define an eoEasyEA with good parameter:
+    - continuator
+    - evaluation function
+    - eoSelectPerc
+    - transformation object
+    - replacement
+   */
+  // -> 1 line
+  eoEasyEA<QUEEN> algo(cont,eval,select,transform,replace);
+
+  //run the algorithm on the initialized population -> 1 line
+  algo(pop);
+
+  //Print the best element -> 1 line
+  pop.best_element().printOn(std::cout);
+
+  //If the fitness value is equal to 0, the best solution is found. Else try again.
+
+  std::cout << std::endl;  
+  return EXIT_SUCCESS;
+}

application/tryCrossover.cpp

+#include <eo>
+#include <queen.h>
+#include <queenInit.h>
+#include <queenCrossover.h>
+
+int main(int argc, char* argv[]){
+
+  //Define two solutions (QUEEN) -> 1 line
+
+
+  //define initializer and init the two solutions -> 3 lines
+
+
+
+
+  //Print the two solutions before the cross
+  std::cout << "Solutions before crossing" << std::endl;
+  //the first here -> 1 line
+
+  std::cout << std::endl;
+  //the second here -> 1 line
+
+  std::cout << std::endl;
+  std::cout << std::endl;
+
+  //Define the crossover -> 1 line
+
+
+  //Cross the solutions -> 1 line
+
+
+  //Print again the two solutions
+  std::cout << "Solutions after crossing" << std::endl;
+  //here -> 1 line
+
+  std::cout << std::endl;
+  //and here -> 1 line
+
+  std::cout << std::endl;
+  return EXIT_SUCCESS;
+}

application/tryEval.cpp

+#include <eo>
+#include <queen.h>
+#include <queenEval.h>
+
+int main(int argc, char* argv[]){
+
+  //Define two solutions (QUEEN) -> 1 or 2 lines
+
+
+  //init the solutions
+  //First permutation [4,2,3,1] -> 4 lines (use push_back)
+
+
+
+
+  
+  //Second permutation [2,4,1,3] -> 4 lines (use push_back)
+
+
+
+
+
+  //Define evaluation function -> 1 line
+
+
+  //Eval the solutions -> 2 lines
+
+
+  //Print the two evaluated solutions
+  //here -> 1 line
+
+  std::cout << std::endl;
+  //and here -> 1 line
+
+  std::cout << std::endl;
+
+  return EXIT_SUCCESS;
+}

application/tryInit.cpp

+#include <eo>
+#include <queen.h>
+#include <queenInit.h>
+
+int main(int argc, char* argv[]){
+
+  //Define a solution (QUEEN) -> 1 line
+
+
+  //Define a queenInit -> 1 line
+
+
+  //Init the solution -> 1 line
+	
+
+  //Print the solution -> 1 line
+
+
+  
+  std::cout << std::endl;
+  return EXIT_SUCCESS;
+}

application/tryMutation.cpp

+#include <eo>
+#include <queen.h>
+#include <queenInit.h>
+#include <queenMutation.h>
+
+int main(int argc, char* argv[]){
+
+  //Define a solution (QUEEN) -> 1 line
+
+
+  //define initializer and init the solution -> 2 lines
+
+
+
+  //Print the solution -> 1 line
+
+  std::cout << std::endl;
+
+  //Define the mutation -> 1 line
+
+
+  //Mute the solution -> 1 line
+
+
+  //Print again the solution -> 1 line
+
+
+  std::cout << std::endl;
+  return EXIT_SUCCESS;
+}

cmake/module/FindParadiseo.cmake

+# File: FindParadiseo.cmake
+# Version: 0.0.1
+#
+# The following variables are filled out:
+# - PARADISEO_INCLUDE_DIR : EO, MO and MOEO source dir
+# - EO_INCLUDE_DIR :        EO source dir
+# - MO_INCLUDE_DIR :        MO source dir
+# - MOEO_INCLUDE_DIR :      MOEO source dir. WARNING : You have ton include MO before !
+# - PARADISEO_LIBRARIES :   the list of all required modules
+# - PARADISEO_XXX_LIBRARY : the name of the library to link for the required module   
+# - PARADISEO_XXX_FOUND :   true if the required module is found
+# - PARADISEO_FOUND :       true if all required modules are found
+#
+# Here are the components:
+# - eo
+# - PyEO
+# - es
+# - ga
+# - cma
+# - flowshop
+# - moeo
+# - smp
+# - peo
+# You can use find_package(Paradiseo COMPONENTS ... ) to enable one or several components. If you not specifie component, all components will be load except SMP for compatibility reasons.
+#
+# Output
+# ------
+#
+# example:
+#   find_package(Paradiseo COMPONENTS eo eoutils cma es flowshop ga moeo REQUIRED)
+#   include_directories(${PARADISEO_INCLUDE_DIR})
+#   add_executable(example ...)
+#   target_link_libraries(examplep ${PARADISEO_LIBRARIES})
+
+if(UNIX)
+    set(INSTALL_SUB_DIR /paradiseo)
+endif()
+
+# enabled components
+if ("${Paradiseo_FIND_COMPONENTS}" STREQUAL "")
+    set(PARADISEO_LIBRARIES_TO_FIND eo eoutils cma es flowshop ga moeo)
+else()
+    set(PARADISEO_LIBRARIES_TO_FIND ${Paradiseo_FIND_COMPONENTS})
+endif()
+
+#set the build directory
+set(BUILD_DIR build)
+
+# Path
+set(PARADISEO_SRC_PATHS
+        ${PARADISEO_ROOT}
+        $ENV{PARADISEO_ROOT}
+        /usr/local/
+        /usr/
+        /sw # Fink
+        /opt/local/ # DarwinPorts
+        /opt/csw/ # Blastwave
+        /opt/
+        [KEY_CURRENT_USER\\Software\\Inria\\ParadisEO]/local
+        [HKEY_LOCAL_MACHINE\\Software\\Inria\\ParadisEO]/local
+)
+
+find_path(EO_INCLUDE_DIR eo
+          PATH_SUFFIXES include${INSTALL_SUB_DIR}/eo eo/src
+          PATHS ${PARADISEO_SRC_PATHS})
+          
+find_path(MO_INCLUDE_DIR mo
+          PATH_SUFFIXES include${INSTALL_SUB_DIR}/mo mo/src
+          PATHS ${PARADISEO_SRC_PATHS})
+
+find_path(MOEO_INCLUDE_DIR moeo
+          PATH_SUFFIXES include${INSTALL_SUB_DIR}/moeo moeo/src
+          PATHS ${PARADISEO_SRC_PATHS})
+          
+# Specific for SMP and PEO
+foreach(COMP ${PARADISEO_LIBRARIES_TO_FIND})
+    if(${COMP} STREQUAL "smp")
+        set(SMP_FOUND true)
+        find_path(SMP_INCLUDE_DIR smp
+              PATH_SUFFIXES include${INSTALL_SUB_DIR}/smp smp/src
+              PATHS ${PARADISEO_SRC_PATHS})
+    elseif(${COMP} STREQUAL "peo")
+        set(PEO_FOUND true)
+        find_path(PEO_INCLUDE_DIR peo
+              PATH_SUFFIXES include${INSTALL_SUB_DIR}/peo peo/src
+              PATHS ${PARADISEO_SRC_PATHS})
+    endif()
+endforeach()
+
+set(PARADISEO_INCLUDE_DIR ${EO_INCLUDE_DIR} ${MO_INCLUDE_DIR} ${MOEO_INCLUDE_DIR})           
+
+if(SMP_FOUND)
+    set(PARADISEO_INCLUDE_DIR ${PARADISEO_INCLUDE_DIR} ${SMP_INCLUDE_DIR})
+endif()
+
+if(PEO_FOUND)
+    set(PARADISEO_INCLUDE_DIR ${PARADISEO_INCLUDE_DIR} ${PEO_INCLUDE_DIR})
+endif()
+
+# find the requested modules
+set(PARADISEO_FOUND true) # will be set to false if one of the required modules is not found
+
+set(FIND_PARADISEO_LIB_PATHS
+        ${PARADISEO_ROOT}/${BUILD_DIR}
+        $ENV{PARADISEO_ROOT}
+        /usr/local/
+        /usr/
+        /sw # Fink
+        /opt/local/ # DarwinPorts
+        /opt/csw/ # Blastwave
+        /opt/
+        [KEY_CURRENT_USER\\Software\\Inria\\ParadisEO]/local
+        [HKEY_LOCAL_MACHINE\\Software\\Inria\\ParadisEO]/local
+)
+
+#Suffixes
+set(PARADISEO_LIB_PATHS_SUFFIXES
+        eo/lib 
+        mo/lib 
+        moeo/lib 
+        moeo/tutorial/examples/flowshop/lib #For flowshop library
+        smp/lib
+        peo/lib
+        lib 
+        lib32 
+        lib64
+        )
+        
+foreach(FIND_PARADISEO_COMPONENT ${PARADISEO_LIBRARIES_TO_FIND})
+    string(TOUPPER ${FIND_PARADISEO_COMPONENT} FIND_PARADISEO_COMPONENT_UPPER)
+    # release library
+    find_library(PARADISEO_${FIND_PARADISEO_COMPONENT_UPPER}_LIBRARY
+                 NAMES ${FIND_PARADISEO_COMPONENT}
+                 PATH_SUFFIXES ${PARADISEO_LIB_PATHS_SUFFIXES}
+                 PATHS ${FIND_PARADISEO_LIB_PATHS})
+    if (PARADISEO_${FIND_PARADISEO_COMPONENT_UPPER}_LIBRARY)
+        # library found
+        set(PARADISEO_${FIND_PARADISEO_COMPONENT_UPPER}_FOUND true)
+    else()
+        # library not found
+        set(PARADISEO_FOUND false)
+        set(PARADISEO_${FIND_PARADISEO_COMPONENT_UPPER}_FOUND false)
+        set(FIND_PARADISEO_MISSING "${FIND_PARADISEO_MISSING} ${FIND_PARADISEO_COMPONENT}")
+    endif()
+    set(PARADISEO_LIBRARIES ${PARADISEO_LIBRARIES} "${PARADISEO_${FIND_PARADISEO_COMPONENT_UPPER}_LIBRARY}")
+endforeach()
+
+# handle result
+if(PARADISEO_FOUND)
+    message(STATUS "Found ParadisEO includes :")
+    message(${EO_INCLUDE_DIR})
+    message(${MO_INCLUDE_DIR})
+    message(${MOEO_INCLUDE_DIR})
+    if(SMP_FOUND)
+        message(${SMP_INCLUDE_DIR})
+    endif()
+    if(PEO_FOUND)
+        message(${PEO_INCLUDE_DIR})
+    endif()
+else()
+    # include directory or library not found
+    message(FATAL_ERROR "Could NOT find ParadisEO (missing : ${FIND_PARADISEO_MISSING})")
+endif()

src/CMakeLists.txt

+INCLUDE_DIRECTORIES(${CMAKE_SOURCE_DIR}/src)
+include_directories(${PARADISEO_INCLUDE_DIR})
+
+SET(LIBRARY_OUTPUT_PATH ${CMAKE_BINARY_DIR}/lib)
+
+SET (EXERCICE_SOURCES
+  queenEval.cpp
+)
+
+ADD_LIBRARY(lQueen STATIC ${EXERCICE_SOURCES})
\ No newline at end of file

src/queen.h

+#include <eoInt.h>
+#include <eoScalarFitness.h>
+
+//Here, we define a QUEEN as an eoVector of int: eoInt with a "eoMinimizingFitness" template. It allow to indicate we want to minimize the fitness (concept included in eoVector cf doc).
+typedef eoInt<eoMinimizingFitness> QUEEN;

src/queenCrossover.h

+#include <eoOrderXover.h>
+#include <queen.h>
+
+typedef eoOrderXover<QUEEN> queenCrossover;

src/queenEval.cpp

+#include <queenEval.h>
+
+void queenEval::operator()(QUEEN & _queen){
+  double fit=0.0;
+  for(int i=0; i<_queen.size()-1; i++)
+    for(int j=i+1; j< _queen.size(); j++)
+      if((_queen[i]+j-i == _queen[j]) || (_queen[i]+i-j == _queen[j]))
+	fit+=1.0;
+  _queen.fitness(fit);
+}

src/queenEval.h

+#include <queen.h>
+#include <eoEvalFunc.h>
+
+class queenEval : public eoEvalFunc<QUEEN>
+{
+public:
+    void operator()(QUEEN & _queen);
+};

src/queenInit.h

+#include <eoInit.h>
+#include <queen.h>
+
+typedef eoInitPermutation<QUEEN> queenInit;

src/queenMutation.h

+#include <eoSwapMutation.h>
+#include <eoShiftMutation.h>
+#include <queen.h>
+
+typedef eoSwapMutation<QUEEN> queenMutation;

test/CMakeLists.txt

+#To fill