2012-10-05  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>
 
	* src/mesh/detail/container.h:
	  replacing Array for m_data with tnlArrayManager     
	* tests/mesh/main.cpp (main):
	  re-defining i/o files w.r.t. the project directory structure 

2012-07-09  oberhuber  <oberhuber@yvonne>

	* src/core/tnlVectorBase.h: Removed.
	* src/core/tnlArrayManager.h: New file.
	* src/core/tnlArrayManagerBase.h: New file.
	* src/core/tnlArrayManagerCUDA.h: New file.
	* src/core/tnlArrayManagerHost.h: New file.
	* tests/unit-tests/core/tnlArrayManagerTester.h: New file.
	  - adding tnlArrayManager for basic operations with arrays - allocation/deallocation, load/save from/to file
	* CMakeLists.txt:
	  - fixing problem with linking of TNL, it is build as one library 
	* src/core/CMakeLists.txt: 
	* src/core/tnlCommunicator.h: 
	* src/core/tnlObject.h (tnlObject): 
	* src/core/tnlVector.h: 
	  - refactoring tnlVector - some methods were moved to tnlArrayManager
	* src/core/tnlVectorCUDA.h: 
	* src/core/tnlVectorHost.h: 
	* TODO: 

2011-06-29  oberhuber  <oberhuber@yvonne>

	* cmake/AddCompilerFlag.cmake: New file.
	* cmake/MacroEnsureVersion.cmake: New file.
	* cmake/OptimizeForArchitecture.cmake: New file.
	* src/matrix/.tnlRgCSRMatrix.h.swp: New file.
	* src/matrix/tnlAdaptiveRgCSRMatrix.h: 
	 - optimizing Adaptive Rg CSR format by adding break to SpMV loop.

2011-06-15  oberhuber  <oberhuber@yvonne>

	* src/core/tnlCudaSupport.cpp: Removed.
	* CMakeLists.txt: 
	* src/core/CMakeLists.txt: 
	* src/core/tnlCudaSupport.h (checkCUDAError):
	  - adding new error codes 
	* src/core/tnlLongVectorCUDA.h: 
	* src/matrix/tnlRgCSRMatrix.h:
	  - fixing copying to device - useAdaptiveGroupSize was not copied 
	* tests/benchmarks/sparse-matrix-benchmark.h: 
	* tests/benchmarks/tnlSpmvBenchmark.h: 
	* tests/benchmarks/tnlSpmvBenchmarkRgCSRMatrix.h: 
	* tnlConfig.h.in:
	  - adding prefix TNL to CONFIG_DIRECTORY 
	* tools/src/tnl-err-norms.cpp: 
	* tools/src/tnl-grid-view.cpp: 
	* tools/src/tnl-matrix-convert.cpp: 
	* tools/src/tnlcurve2gnuplot.cpp: 


2011-06-12  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

    The following chages reflects conversion of the project
    from the autools to CMake. 

	* src/diff/mdiff-config.h: Removed.
	* tests/tnl-sparse-matrix-check.cfg.desc: Removed.
	* tests/tnl-sparse-matrix-test: Removed.
	* tools/share/mgrid-view.cfg.desc: Removed.
	* tools/src/bin2gnuplot.cpp: Removed.
	* tools/src/compare-files.h: Removed.
	* tools/src/debug.h: Removed.
	* tools/src/diff-norm.cpp: Removed.
	* tools/src/functions-benchmark-cuda.cu.h: Removed.
	* tools/src/mdiff-err-norms.cpp: Removed.
	* tools/src/mgrid2gnuplot.cpp: Removed.
	* tools/src/read-file.h: Removed.
	* src/core/low-level/CMakeLists.txt: New file.
	* src/dummy.cpp: New file.
	* tests/sparse-matrix-benchmark.cu: New file.
	* tnlConfig.h.in: New file.
	* tools/share/tnl-grid-view.cfg.desc: New file.
	* buildAll: 
	* CMakeLists.txt: 
	* src/CMakeLists.txt: 
	* src/config/CMakeLists.txt: 
	* src/core/CMakeLists.txt: 
	* src/core/tnlFile.cpp: 
	* src/core/tnlFile.h: 
	* src/core/tnlString.cpp: 
	* src/core/tnlTimerCPU.cpp: 
	* src/core/tnlTimerRT.cpp: 
	* src/debug/CMakeLists.txt: 
	* src/debug/parse.cc: 
	* src/debug/tnlDebugParserbase.h: 
	* src/debug/tnlDebugScanner.cpp: 
	* src/debug/tnlDebugScanner.l: 
	* src/diff/CMakeLists.txt: 
	* src/matrix/CMakeLists.txt: 
	* src/matrix/tnlAdaptiveRgCSRMatrix.h: 
	* src/matrix/tnlFastCSRMatrix.h: 
	* src/matrix/tnlMatrix.h: 
	* src/matrix/tnlRgCSRMatrix.h: 
	* src/mesh/CMakeLists.txt: 
	* src/solver/CMakeLists.txt: 
	* tests/CMakeLists.txt: 
	* tests/sparse-matrix-benchmark.cpp: 
	* tests/sparse-matrix-benchmark.h (main): 
	* tests/tnlSpmvBenchmark.h: 
	* tests/tnlSpmvBenchmarkAdaptiveRgCSRMatrix.h: 
	* tests/tnlSpmvBenchmarkCSRMatrix.h: 
	* tests/tnlSpmvBenchmarkHybridMatrix.h: 
	* tests/tnlSpmvBenchmarkRgCSRMatrix.h: 
	* tests/unit-tests/core/tnlCommunicatorTester.h: 
	* tools/share/CMakeLists.txt: 
	* tools/share/Makefile.am: 
	* tools/src/CMakeLists.txt: 
	* tools/src/tnl-err-norms.cpp (WriteHeader): 
	(main): 
	* tools/src/tnl-grid-view.cpp (main): 
	* tools/src/tnl-matrix-convert.cpp (main): 
	* tools/src/tnlcurve2gnuplot.cpp (main): 

2011-06-09  oberhuber  <oberhuber@yvonne>

	* src/matrix/tnlCSRMatrix.h: 
	* src/matrix/tnlRgCSRMatrix.h: 
	* tests/sparse-matrix-benchmark.h: 
	* tests/tnlSpmvBenchmarkHybridMatrix.h: 
	* tests/tnlSpmvBenchmarkRgCSRMatrix.h:
	 - working on the adaptive groups 

2011-06-05  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/matrix/tnlAdaptiveRgCSRMatrix.h: 
	   - better threads to rows distribution for smaller chunks 
	* tests/matrix-formats-test.h: 
	* tests/sparse-matrix-benchmark.h: 
	* tests/tnlSpmvBenchmarkAdaptiveRgCSRMatrix.h: 

2011-05-29  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* tests/cusp-test.cu: Removed.
	* tests/draw-matrices: New file.
	  - creating script for drawing testing matrices
	* src/core/tnlLongVectorCUDA.h:
	  - fixing problem of initiliazing the type Real by 0.0 which does not work for general types 
	* src/core/tnlString.cpp (tnlString::operator +):  
	* src/core/tnlString.h (tnlString): 
	  - adding operator + for const char*
	* src/matrix/tnlAdaptiveRgCSRMatrix.h: 
	* src/matrix/tnlCSRMatrix.h: 
	* src/matrix/tnlMatrix.h (printOut): 
	* src/matrix/tnlRgCSRMatrix.h:
	  - implementing drawing of matrices in Postscript 
	* tests/run-sparse-matrix-benchmark: 
	* tests/sparse-matrix-benchmark.cfg.desc: 
	* tests/sparse-matrix-benchmark.cpp (main): 
	* tests/sparse-matrix-benchmark.h: 
	* tests/tnlSpmvBenchmark.h: 
	* tests/tnlSpmvBenchmarkAdaptiveRgCSRMatrix.h: 
	* tests/tnlSpmvBenchmarkHybridMatrix.h: 
	* tests/tnlSpmvBenchmarkRgCSRMatrix.h: 
	* tools/share/mgrid-view.cfg.desc:
	  - adding new command line arguments for drawing matrices 
	* tools/src/tnl-grid-view.cpp (main): 
	* tools/src/tnl-grid-view.h:
	  - implementing drawing of matrices 

2011-05-18  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/matrix/tnlAdaptiveRgCSRMatrix.h:
	  - implementing getElement method  
	* src/matrix/tnlRgCSRMatrix.h:  
	* tests/matrix-formats-test.cpp (main): 
	* tests/matrix-formats-test.h: 
	  - adding test of tnlAdaptiveRgCSRMatrix
	* tests/run-matrix-formats-test: 
	* tests/unit-tests/Makefile.am: 
	* tests/unit-tests/matrix/tnlAdaptiveRgCSRMatrixTester.h (triDiagonalMatrixTest): 
	(upperTriangularMatrixTest): 
	(diagonalMatrixTest): 
	(suite): 
	* tests/unit-tests/tnl-unit-tests.cpp (main):
	  - adding tests of tnlAdaptiveRgCSRMatrix 

2011-05-17  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* tests/unit-tests/matrix/tnlAdaptiveRgCSRMatrixTester.h: New file.
	* src/matrix/tnlAdaptiveRgCSRMatrix.h: 
	  - conversion from CSR format
	  - SpMV operation
	* tests/run-sparse-matrix-benchmark: 
	* tests/sparse-matrix-benchmark.h:
	  - changed benchmarks of the RgCSR format with variable group size   
	* tests/unit-tests/tnl-unit-tests.cpp (main):
	  - added test of tnlAdaptiveRgCSRMatrix

2011-05-15  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* tests/cusp-test.h: Removed.
	* tests/tnlSpmvBenchmark.h: New file.
	* tests/tnlSpmvBenchmarkCSRMatrix.h: New file.
	* tests/tnlSpmvBenchmarkHybridMatrix.h: New file.
	* tests/tnlSpmvBenchmarkRgCSRMatrix.h: New file.
	* src/core/tnlLongVectorCUDA.h: Adding operator =, denying copy constructors
	* src/core/tnlLongVectorHost.h: Adding operator =, denying copy constructors 
	* src/matrix/tnlCSRMatrix.h: Adding reorderRows
	* src/matrix/tnlMatrix.h: Adding sortRowsDecreasignly
	* src/matrix/tnlRgCSRMatrix.h:  
	* tests/Makefile.am:  
	* tests/matrix-formats-test.h: 
	* tests/run-sparse-matrix-benchmark: Adding debug
	* tests/sparse-matrix-benchmark.cpp (main): 
	* tests/sparse-matrix-benchmark.h: refactoring
	* tests/unit-tests/Makefile.am:  
	* tests/unit-tests/matrix/tnlRgCSRMatrixTester.h (triDiagonalMatrixTest): 
	(diagonalMatrixTest): 

2011-03-09  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* configure.ac: 
	* src/core/tnlArray.h: 
	* src/core/tnlCommunicator.h: 
	* src/core/tnlCriticalSection.cpp: 
	* src/core/tnlSharedMemory.h: 
	* src/debug/Makefile.am: 
	* src/matrix/tnlRgCSRMatrix.h (bindRgCSRMatrixCUDATexture):
	 - fixing binding vector x to texture
	* tests/convert-matrices: 
	* tests/florida-matrix-market: 
	* tests/Makefile.am: 
	* tests/unit-tests/core/tnlCommunicatorTester.h (testCommunicatorBroadcastLongVector): 
	(testCommunicatorBroadcast): 
	(testCommunicatorScatter): 
	(testCommunicatorGather): 
	(testCommunicatorSendReceive): 
	(testCommunicatorSendReceiveOnLongVector): 
	(testCommunicatorBarrier): 
	(testCommunicatorReduction): 
	* tests/unit-tests/Makefile.am: 

2011-02-27  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/core/tnlCoordinates.h: New file.
	* src/mesh/tnlDistributedGrid.h: New file.
	* src/core/Makefile.am: 
	* src/core/tnlCommunicator.h (getGoupSize<3>): 
	(getGoupSize<2>): 
	(getGoupSize<1>): 
	* src/core/tnlCriticalSection.cpp (tnlCriticalSection::leave): 
	(tnlCriticalSection::tnlCriticalSection): 
	(tnlCriticalSection::enter): 
	* src/core/tnlCriticalSection.h (tnlCriticalSection): 
	* src/debug/tnlDebugStructure.cpp (tnlDebugStructure::Debug): 
	* src/mesh/Makefile.am: 
	* src/mesh/tnlGrid.h: 
	* tests/unit-tests/core/tnlCommunicatorTester.h (testCommunicatorBroadcastLongVector): 
	(testCommunicatorBroadcast): 
	(testCommunicatorScatter): 
	(testCommunicatorGather): 
	(suite): 
	(testCommunicatorBarrier): 
	(testCommunicatorReduction): 
	* tests/unit-tests/tnl-unit-tests.cpp: 

2011-02-23  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/core/tnlCommunicator.h: 
	   - implementing method broadcast
	* src/core/tnlSharedMemory.h: 
	   - fixing bug with missing deletion of the shared memory
	* tests/unit-tests/core/tnlCommunicatorTester.h (testCommunicatorSendReceiveOnLongVector): 
	* tests/unit-tests/core/tnlSharedMemoryTester.h (testSharedMemory): 
	* tests/unit-tests/tnl-unit-tests.cpp: 

2011-02-22  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* tests/unit-tests/core/tnlSharedMemoryTester.h: New file.
	* src/core/tnlCommunicator.h:
	 - rewriting non-vector send and receive using tnlSharedMemory 
	* src/core/tnlSharedMemory.h: 
	 - finishing implementation
	* tests/unit-tests/core/tnlCommunicatorTester.h (testCommunicatorSendReceiveOnLongVector): 
	* tests/unit-tests/tnl-unit-tests.cpp (main): 

2011-02-22  oberhuber  <oberhuber@yvonne>

	* src/core/tnlSharedMemory.h: New file.
	 - starting implementation of the shared memory 
	* src/core/tnlCommunicator.h: 

2011-02-20  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/core/tnlCriticalSection.cpp: New file.
	* src/core/tnlCriticalSection.h: New file.
	  - implementing tnlCriticalSection
	* src/core/Makefile.am: 
	* src/core/tnlCommunicator.h: 
	  - rewriting the old code using tnlCriticalSection
	  - implementing send and receive for vectors
	* src/debug/tnlDebug.h: 
	* tests/unit-tests/core/tnlCommunicatorTester.h (testCommunicatorSendReceiveOnLongVector): 
	(suite): 

2011-02-19  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/core/tnlCommunicator.h: 
	 - implementing methods start, send and receive
	* tests/unit-tests/core/tnlCommunicatorTester.h (testCommunicatorInitiation): 
	(testCommunicatorSendReceive): 
	(suite): 

2011-02-09  oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* configure.ac: 
	* src/config/Makefile.in: 
	* src/core/low-level/cuda-long-vector-kernels.h: 
	 - changing number of threads per block for the CUDA reduction to get occupancy 1.0
	* src/matrix/tnlCSRMatrix.h: 
	* src/solver/tnlMersonSolver.h: 
	 - optimizing the updating kernel to get occupancy 1.0 

2011-02-06  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

	* src/core/debug.h: Removed.
	* src/diff/debug.h: Removed.
	* src/diff/mdiff-debug.h: Removed.
	* tools/src/debug.h: Removed.
	* src/config/Makefile.am: 
	   - removing debug.h 
	* src/config/tnlConfigDescriptionParser.cpp: 
	* src/core/Makefile.am:
	   - removing debug.h 
	* src/core/tnlObject.cpp:
	   - replacing debug.h with tnlDebug.h 
	* src/core/tnlString.cpp:
	   - replacing debug.h with tnlDebug.h 
	* src/debug/Makefile.am:
	   - removing debug.h 
	* src/debug/tnlDebug.cpp (tnlInitDebug):
	   - the flag debug is set to yes even if the parsing fails 
	* src/debug/tnlDebug.h: 
	   - adding prefix #TNLDBG# to all printouts
	* src/diff/Makefile.am:
	   - removing debug.h 
	* tools/src/Makefile.am:
	  - removing debug.h 

2011-02-05  Tomas Oberhuber  <tomas.oberhuber@fjfi.cvut.cz>

    * src/core/tnlComminucator.h New file.
       - starting implementation of the CUDA/OpenCL/MPI communication framework
	* src/matrix/tnlCSRMatrix.h: 
	   - implementing method performSORIteration
	* src/solver/tnlMatrixSolver.h: 
	   - adding method getResidue (moved from the tnlSORSolver.h)
	* src/solver/tnlSORSolver.h:
	   - refactoring the solver to work with the new system o templates  



December 2010 oberhuber  <tomas.oberhuber@fjfi.cvut.cz>
* Explicit solvers now have device where the data are stored as a parameter too.
* tnlGrid  is now a template with dimensions as parameter.
  This avoids classes like tnlGrid1D, tnlGrid2D etc.
  The device where the grid lives is also template parameter.
* Implemented some basic operations lika Saxpy norms evaluation etc. on tnlLongVector.
* Implemented tnlLongVector having the device where it lives as parameter.
  At this moment it only supports CUDA. This should unified code for CPU and GPU
  as much as possible.

November 2010 oberhuber  <tomas.oberhuber@fjfi.cvut.cz>
* Implemented tnlFile. It supports bzip2 compression transparently.
  It makes all I/O operation simpler. It also allows to save data directly
  from GPU devices - also for simplifing use of large numerical structures.

July 2010 oberhuber  <tomas.oberhuber@fjfi.cvut.cz>
* Implementing sparse matrices in CUDA - Coalesced CSR format. 

December 2009 oberhuber  <tomas.oberhuber@fjfi.cvut.cz>
* Starting implementation of the CUDA support.