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18 doxygen

See merge request !1

- Add layout scheme to match PARTONS 
- Apply current style
- Update doxyfile
   - update titles
   - update mathjax script
   - make it similar to PARTONS doxyfile

- Generate tagfile to be used by NumA and PARTONS documentations.
- Some fixed to avoid conflicts with namespaces in documentation.

In ALL (trunk):
- Improvements on the previous cmake commits.

In Elementary_utils (trunk):
- Add the installation routines in CMakeLists.
- Add doxyfile.

In NumA++ (trunk):
- Add the installation routines in CMakeLists.
- Add FindElementaryUtils.cmake module and adapt CMakeLists.

In NumA++_Tests (trunk):
- Add FindElementaryUtils.cmake & FindNumA++.cmake modules and adapt CMakeLists.

In PARTONS (trunk):
- Add the installation routines in CMakeLists.
- Add FindElementaryUtils.cmake & FindNumA++.cmake modules and adapt CMakeLists.

In PARTONS_exe, PARTONS_release, PARTONS_Tests, PARTONS_Fits (trunk):
- Add FindElementaryUtils.cmake, FindNumA++.cmake & FindPARTONS.cmake modules and adapt CMakeLists.

In ElementaryUtils (trunk) :
- Add a clear() method in Formatter class.

In ElementaryUtils (trunk):
- Better implementation of the precision in Formatter and GenericType.

In ElementaryUtils (trunk):
- Change GenericType and Formatter precision to 16 instead of 17, to avoid messy numbers in formatting.

In NumA++ (trunk):
- Change some std::runtime_error to CustonException. A lot more to change...
- Time monitoring in LSMR.

In PARTONS:
- Inherit IncompleteGPDModule from GPDModule to be able to use GPDService. Lot of useless code commented.
- Some changes in Radon inversion modules...

In ElementaryUtils (trunk) :
- Move formatDate(...) from LoggerMessage class to StringUtils class.
- Update LoggerManager : now it creates one log file / day.
- Update logger properties.

In ElemUtils:
- Cosmetics in LoggerManager

In ElementaryUtils (trunk) :
- In FileUtils correct throw exception in read() method.

In ElementaryUtils (trunk) :
- Now closed message is handling by LoggerManager class as a log message instead of a std::cout message.

In ElementaryUtils (trunk) :
- Correct CustomException class implementation : now inherit from std::exception.
- Update CMakeLists to force C++11 : problem with SFML compiled library -> doesn't support C++98.

In ElemUtils:
- Fix initialization of CustomException.

In ElementaryUtils (trunk) :
- Correct what() implementation.

In ElementaryUtils (trunk) :
- Correct memory allocation in CustomException what() implementation.

In ElemUtils:
- Fix CustomException to avoid random error message due to string object being destroyed in the what() method.

In ElemUtils:
- some changes to CustomException

In ElementaryUtils (trunk) :
- Improve XMLParser : remove XMLAttribute class.

In ElementaryUtils (trunk) :
- Improve XMLParser : add emptyStartElement(...) method.

In ElementaryUtils:
- Automatic cast from Formatter to stringstream.

In ElementaryUtils (trunk) :
- In StringUtils correct stuff find pattern in string.

In ElementaryUtils (trunk) :
- Add new Parameter class to represent a couple key = value.
- Update Parameters class to deal with the new implementation of Parameter class.
- Remove MultimapParameters.
- In GenericType class : rename toString() method to getString() to avoid confusion with toString() in BaseObject class ; Add some comments.
- In StringUtils class add some stuff to find some pattern in a string.
- Correct XMLParser : now it handles correctly XML comments. It doesn't take it anymore as an XML element.
- In LoggerManager replace std::runtime_exception by CustomException.

In ElementaryUtils:
- Use command "executable" in the Ant scripts instead of the deprecated command "command".

In NumA++:
- Overload functors to allow call without parameters.
- Restructuring of folders for Functors.
- Rename LinearSystem to LinAlgUtils and add rank routine.
- New EigenUtils to encapsulate conversions to or from Eigen. In order for PARTONS to be independent of Eigen.
- New methods in MatrixD (appendLine, etc).
- New constructors for VectorD.
- New static method in Interval to compute nodes.

In NumA++_Test:
- New tests for Eigen.

In PARTONS:
- New modules IncompleteGPDModule and RadonInverseModule.
- First method for Radon inversion: Random brute force with constant piecewise functions (RandBFConstPW). Still no inversion, only matrix construction.
- Addition of DDGauge type and modification of DDType.
- New OverlapMMR15 model.

In ElementaryUtils (trunk) :
- Update toBoolean() method in XMLAttributs class.

In ElementaryUtils (trunk) :
- Correct problem with update() method in GenericType class.

In ElementaryUtils (trunk) :
- Restore write append mode for log file.

In ElementaryUtils (trunk) :
- For GenericType set max precision as default for in & out.

In ElementaryUtils (trunk) :
- Refactor FileUtils : add open file mode.

In ElementaryUtils (trunk) :
- Add getter() in PropertiesManager ; better exception message.
- Create custom exception class.
- In LoggerManager add new error method to handle custom exception message ; add color for WARN and ERROR message.
- In IniFileParser : store file path ; replace std::runtime_error by CustomException ; better exception message.