Merge branch 'master' into cmaes

edo/NEWS

@@ -0,0 +1,8 @@
+* current release
+    - alternative implementation of the multi-normal operators using the Eigen3 library
+
+* release 0.0 (2011-09-15)
+    - basic design for estimation of distribution algorithms and, more generally for randomized search heuristics
+    - continuous EDA example
+    - EDA using multi-normal distribution, implementation using the boost::ublas library
+

edo/README

@@ -33,11 +33,11 @@ In the edo/build/ directory:
 (Unix)       > ctest
 Windows users, please refer to this tutorial: http://paradiseo.gforge.inria.fr/index.php?n=Paradiseo.VisualCTutorial
 
-In the directory "application", there are several directory such as eda_sa which instantiate EDA-SA solver.
+In the directory "application", there are several directory such as eda which instantiate EDA solver.
 
-(Unix) After compilation you can run the binary "build/eda_sa" and see results. Parameters can be modified from command line.
+(Unix) After compilation you can run the binary "build/eda" and see results. Parameters can be modified from command line.
 
-(Windows) Add argument "eda_sa.param" and execute the corresponding algorithms.
+(Windows) Add argument "eda.param" and execute the corresponding algorithms.
 Windows users, please refer to this tutorial: http://paradiseo.gforge.inria.fr/index.php?n=Paradiseo.VisualCTutorial
 
 

eo/NEWS

@@ -1,4 +1,22 @@
 * current version
+    - features:
+        - delete the deprecated code parts (was marked as deprecated in the release 1.1)
+        - eoSignal: a class to handle signal with eoCheckpoint instances
+        - eoDetSingleBitFlip: bit flip mutation that changes exactly k bits while checking for duplicate
+        - eoFunctorStat: a wrapper to turn any stand-alone function and into an eoStat
+        - generilazed the output of an eoState: now you can change the format, comes with defaults formatting (latex and json)
+        - eoWrongParamTypeException: a new exception to handle cases where a wrong template is given to eoParser::valueOf
+        - added a getParam method to the eoParser, that raise an exception if the parameter has not been declared
+        - eoParserLogger features are now included in the default eoParser
+    - build system:
+        - improvements of the build architecture
+        - create PKGBUILD file for archlinux package manager
+        - a FindEO module for CMake
+    - bugfixes:
+        - fixed regression with gcc 4.7
+        - fixed compilation issues in Microsoft Visual C++, related to time measurement
+        - added several asserts accross the framework (note: asserts are included only in debug mode)
+        - lot of small bugfixes :-)
 
 * release 1.2  (16. May. 2011)
   - fixed the incremental allocation issue in variation operators which were
@@ -20,11 +38,11 @@
   - GCC 4.3 compatibility
   - new versatile log system with several nested verbose levels
   - classes using intern verbose parameters marked as deprecated, please update your code accordingly if you use one of the following files:
-	eo/src/eoCombinedInit.h
-	eo/src/eoGenContinue.h
-	eo/src/eoProportionalCombinedOp.h
-	eo/src/utils/eoData.h
-	eo/src/utils/eoStdoutMonitor.h
+        eo/src/eoCombinedInit.h
+        eo/src/eoGenContinue.h
+        eo/src/eoProportionalCombinedOp.h
+        eo/src/utils/eoData.h
+        eo/src/utils/eoStdoutMonitor.h
   - an evaluator that throw an exception if a maximum eval numbers has been reached, independently of the number of generations
   - new monitor that can write on any ostream
   - new continuator that can catch POSIX system user signals

eo/src/apply.h

@@ -58,14 +58,26 @@ void apply(eoUF<EOT&, void>& _proc, std::vector<EOT>& _pop)
     if (!eo::parallel.isDynamic())
 	{
 #pragma omp parallel for if(eo::parallel.isEnabled()) //default(none) shared(_proc, _pop, size)
+#ifdef _MSC_VER
+            //Visual Studio supports only OpenMP version 2.0 in which
+            //an index variable must be of a signed integral type
+	    for (long long i = 0; i < size; ++i) { _proc(_pop[i]); }
+#else // _MSC_VER
 	    for (size_t i = 0; i < size; ++i) { _proc(_pop[i]); }
+#endif
 	}
     else
 	{
 #pragma omp parallel for schedule(dynamic) if(eo::parallel.isEnabled())
+#ifdef _MSC_VER
+            //Visual Studio supports only OpenMP version 2.0 in which
+            //an index variable must be of a signed integral type
+	    for (long long i = 0; i < size; ++i) { _proc(_pop[i]); }
+#else // _MSC_VER
 	    //doesnot work with gcc 4.1.2
 	    //default(none) shared(_proc, _pop, size)
 	    for (size_t i = 0; i < size; ++i) { _proc(_pop[i]); }
+#endif
 	}
 
     if ( eo::parallel.enableResults() )

eo/src/eoEvalUserTimeThrowException.h

@@ -21,27 +21,30 @@ Authors:
 Johann Dréo <johann.dreo@thalesgroup.com>
 */
 
-#ifndef __unix__
-#warning "Warning: class 'eoEvalUserTimeThrowException' is only available under UNIX systems (defining 'rusage' in 'sys/resource.h'), contributions for other systems are welcomed."
-#else
+#if !defined(__unix__) && !defined(_WINDOWS)
+#warning "Warning: class 'eoEvalUserTimeThrowException' is only available under UNIX (defining 'rusage' in 'sys/resource.h') or Win32 (defining 'GetProcessTimes' in 'WinBase.h') systems, contributions for other systems are welcomed."
+#else //!defined(__unix__) && !defined(_WINDOWS)
 
 #ifndef __EOEVALUSERTIMETHROWEXCEPTION_H__
 #define __EOEVALUSERTIMETHROWEXCEPTION_H__
 
-#include <sys/time.h>
-#include <sys/resource.h>
-
-#include <eoExceptions.h>
-
 /** Check at each evaluation if a given CPU user time contract has been reached.
  *
  * Throw an eoMaxTimeException if the given max time has been reached.
  * Usefull if you want to end the search independently of generations.
- * This class uses (almost-)POSIX headers.
+ * This class uses (almost-)POSIX or Win32 headers, depending on the platform.
  * It uses a computation of the user time used on the CPU. For a wallclock time measure, see eoEvalTimeThrowException
  *
  * @ingroup Evaluation
  */
+
+#include <eoExceptions.h>
+
+#ifdef __unix__
+
+#include <sys/time.h>
+#include <sys/resource.h>
+
 template< class EOT >
 class eoEvalUserTimeThrowException : public eoEvalFuncCounter< EOT >
 {
@@ -58,7 +61,7 @@ public:
             if( current >= _max ) {
                 throw eoMaxTimeException( current );
             } else {
-                func(eo);
+                this->func(eo);
             }
         }
     }
@@ -68,5 +71,41 @@ protected:
     struct rusage _usage;
 };
 
+#else
+#ifdef _WINDOWS
+//here _WINDOWS is defined
+
+#include <WinBase.h>
+
+template< class EOT >
+class eoEvalUserTimeThrowException : public eoEvalFuncCounter< EOT >
+{
+public:
+    eoEvalUserTimeThrowException( eoEvalFunc<EOT> & func, const long max ) : eoEvalFuncCounter<EOT>( func, "CPU-user"), _max(max) {}
+
+    virtual void operator() ( EOT & eo )
+    {
+        if( eo.invalid() ) {
+            FILETIME dummy;
+            GetProcessTimes(GetCurrentProcess(), &dummy, &dummy, &dummy, &_usage);
+
+            ULARGE_INTEGER current;
+            current.LowPart = _usage.dwLowDateTime;
+            current.HighPart = _usage.dwHighDateTime;
+            if( current.QuadPart >= _max ) {
+                throw eoMaxTimeException( current.QuadPart );
+            } else {
+                func(eo);
+            }
+        }
+    }
+
+protected:
+    const long _max;
+    FILETIME _usage;
+};
+
+#endif // _WINDOWS
+#endif //__unix__
 #endif // __EOEVALUSERTIMETHROWEXCEPTION_H__
-#endif // __UNIX__
+#endif //!defined(__unix__) && !defined(_WINDOWS)