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//---------------------------------------------------------------------------
//
// Project: OpenWalnut ( http://www.openwalnut.org )
//
// Copyright 2009 OpenWalnut Community, BSV-Leipzig and CNCF-CBS
// For more information see http://www.openwalnut.org/copying
//
// This file is part of OpenWalnut.
//
// OpenWalnut is free software: you can redistribute it and/or modify
// it under the terms of the GNU Lesser General Public License as published by
// the Free Software Foundation, either version 3 of the License, or
// (at your option) any later version.
//
// OpenWalnut is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU Lesser General Public License for more details.
//
// You should have received a copy of the GNU Lesser General Public License
// along with OpenWalnut. If not, see <http://www.gnu.org/licenses/>.
//
//---------------------------------------------------------------------------
#include <string>
#include <vector>
#include "core/common/math/WSymmetricSphericalHarmonic.h"
#include "core/common/math/WMatrix.h"
#include "core/common/math/linearAlgebra/WLinearAlgebra.h"
#include "core/common/WLimits.h"
#include "core/kernel/WKernel.h"
#include "WMCalculateTensors.h"
// This line is needed by the module loader to actually find your module. Do not remove. Do NOT add a ";" here.
W_LOADABLE_MODULE( WMCalculateTensors )
WMCalculateTensors::WMCalculateTensors():
WModule(),
m_SHToTensorMat( 1, 1 )
{
}
WMCalculateTensors::~WMCalculateTensors()
{
}
boost::shared_ptr< WModule > WMCalculateTensors::factory() const
{
return boost::shared_ptr< WModule >( new WMCalculateTensors() );
}
const char** WMCalculateTensors::getXPMIcon() const
{
return NULL;
}
const std::string WMCalculateTensors::getName() const
{
return "Calculate Tensors";
}
const std::string WMCalculateTensors::getDescription() const
{
return "Calculates diffusion tensors from an input sh dataset.";
}
void WMCalculateTensors::connectors()
{
m_input = boost::shared_ptr< WModuleInputData< WDataSetSphericalHarmonics > >(
new WModuleInputData< WDataSetSphericalHarmonics >( shared_from_this(),
"shInput", "A spherical harmonics dataset." )
);
m_output = boost::shared_ptr< WModuleOutputData< WDataSetDTI > >( new WModuleOutputData< WDataSetDTI >( shared_from_this(),
"dtiOutput", "The diffusion tensor image." )
);
addConnector( m_input );
addConnector( m_output );
// call WModules initialization
WModule::connectors();
}
void WMCalculateTensors::properties()
{
m_exceptionCondition = boost::shared_ptr< WCondition >( new WCondition() );
WModule::properties();
}
void WMCalculateTensors::moduleMain()
{
m_moduleState.setResetable( true, true );
m_moduleState.add( m_input->getDataChangedCondition() );
m_moduleState.add( m_exceptionCondition );
// calc sh->tensor conversion matrix
std::vector< WUnitSphereCoordinates > orientations;
orientations.push_back( WUnitSphereCoordinates( normalize( WVector3d( 1.0, 0.0, 0.0 ) ) ) );
orientations.push_back( WUnitSphereCoordinates( normalize( WVector3d( 0.6, -0.1, 0.2 ) ) ) );
orientations.push_back( WUnitSphereCoordinates( normalize( WVector3d( 1.0, 1.0, 1.0 ) ) ) );
orientations.push_back( WUnitSphereCoordinates( normalize( WVector3d( -0.1, -0.3, 0.5 ) ) ) );
orientations.push_back( WUnitSphereCoordinates( normalize( WVector3d( -0.56347, 0.374, -0.676676 ) ) ) );
orientations.push_back( WUnitSphereCoordinates( normalize( WVector3d( 0.0, 4.0, 1.0 ) ) ) );
m_SHToTensorMat = WSymmetricSphericalHarmonic::calcSHToTensorSymMatrix( 2, orientations );
ready();
while( !m_shutdownFlag() )
{
debugLog() << "Waiting.";
m_moduleState.wait();
boost::shared_ptr< WDataSetSphericalHarmonics > inData = m_input->getData();
bool dataChanged = ( m_dataSet != inData );
if( dataChanged && inData )
{
m_dataSet = inData;
// start computation
resetTensorPool();
if( m_tensorPool )
{
m_tensorPool->run();
}
debugLog() << "Running computation.";
}
else if( m_tensorPool && ( m_tensorPool->status() == W_THREADS_FINISHED || m_tensorPool->status() == W_THREADS_ABORTED ) )
{
debugLog() << "Computation finished.";
m_currentProgress->finish();
boost::shared_ptr< WDataSetSingle > temp = m_tensorFunc->getResult();
m_result = boost::shared_ptr< WDataSetDTI >( new WDataSetDTI( temp->getValueSet(), temp->getGrid() ) );
m_tensorPool = boost::shared_ptr< TensorPoolType >();
m_tensorFunc = boost::shared_ptr< TensorFuncType >();
// forward result
m_output->updateData( m_result );
}
else if( m_lastException )
{
throw WException( *m_lastException );
}
}
// module shutdown
debugLog() << "Shutting down module.";
if( m_tensorPool )
{
if( m_tensorPool->status() == W_THREADS_RUNNING || m_tensorPool->status() == W_THREADS_STOP_REQUESTED )
{
m_tensorPool->stop();
m_tensorPool->wait();
}
}
}
void WMCalculateTensors::resetTensorPool()
{
if( m_tensorPool )
{
WThreadedFunctionStatus s = m_tensorPool->status();
if( s != W_THREADS_FINISHED && s != W_THREADS_ABORTED )
{
m_tensorPool->stop();
m_tensorPool->wait();
s = m_tensorPool->status();
WAssert( s == W_THREADS_FINISHED || s == W_THREADS_ABORTED, "" );
}
m_moduleState.remove( m_tensorPool->getThreadsDoneCondition() );
}
// the threadpool should have finished computing by now
if( m_dataSet->getSphericalHarmonicAt( 0 ).getOrder() == 2 )
{
boost::shared_ptr< WGridRegular3D > g = boost::shared_dynamic_cast< WGridRegular3D >( m_dataSet->getGrid() );
WAssert( g, "" );
resetProgress( g->getNbCoordsX() * g->getNbCoordsY() * g->getNbCoordsZ() );
// create a new one
m_tensorFunc = boost::shared_ptr< TensorFuncType >( new TensorFuncType( m_dataSet, boost::bind( &This::perVoxelTensorFunc, this, _1 ) ) );
m_tensorPool = boost::shared_ptr< TensorPoolType >( new TensorPoolType( 0, m_tensorFunc ) );
m_tensorPool->subscribeExceptionSignal( boost::bind( &This::handleException, this, _1 ) );
m_moduleState.add( m_tensorPool->getThreadsDoneCondition() );
}
else
{
warnLog() << "SH dataset has order > 2";
}
}
void WMCalculateTensors::handleException( WException const& e )
{
m_lastException = boost::shared_ptr< WException >( new WException( e ) );
m_exceptionCondition->notify();
}
void WMCalculateTensors::resetProgress( std::size_t todo )
{
if( m_currentProgress )
{
m_currentProgress->finish();
}
m_currentProgress = boost::shared_ptr< WProgress >( new WProgress( "calculate tensors", todo ) );
m_progress->addSubProgress( m_currentProgress );
}
boost::array< double, 6 > WMCalculateTensors::perVoxelTensorFunc( WValueSet< double >::SubArray const& s )
{
++*m_currentProgress;
boost::array< double, 6 > a;
WValue<double> v( 6 );
// calculation
for( std::size_t k = 0; k < 6; ++k )
{
v[ k ] = s[ k ];
}
v = m_SHToTensorMat * v;
for( std::size_t k = 0; k < 6; ++k )
{
a[ k ] = v[ k ];
}
return a;
}
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