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/*
//
// Copyright 2010 Torsten Rohlfing
//
// Copyright 2011, 2014 SRI International
//
// This file is part of the Computational Morphometry Toolkit.
//
// http://www.nitrc.org/projects/cmtk/
//
// The Computational Morphometry Toolkit is free software: you can
// redistribute it and/or modify it under the terms of the GNU General Public
// License as published by the Free Software Foundation, either version 3 of
// the License, or (at your option) any later version.
//
// The Computational Morphometry Toolkit 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 General Public License for more details.
//
// You should have received a copy of the GNU General Public License along
// with the Computational Morphometry Toolkit. If not, see
// <http://www.gnu.org/licenses/>.
//
// $Revision: 3097 $
//
// $LastChangedDate: 2011-04-06 13:07:22 -0700 (Wed, 06 Apr 2011) $
//
// $LastChangedBy: torstenrohlfing $
//
*/
#include "cmtkImageOperationMatchIntensities.h"
#include <IO/cmtkVolumeIO.h>
#include <System/cmtkConsole.h>
#include <System/cmtkExitException.h>
#include <Base/cmtkTypedArrayFunctionHistogramMatching.h>
cmtk::ImageOperationMatchIntensities::ImageOperationMatchIntensities( const Self::Mode mode, const std::string& referenceImagePath )
: m_Mode( mode )
{
UniformVolume::SmartPtr referenceImage = VolumeIO::Read( referenceImagePath );
if ( ! referenceImage )
{
StdErr << "ERROR: cannot read image " << referenceImagePath << "\n";
throw ExitException( 1 );
}
this->m_ReferenceData = referenceImage->GetData();
if ( ! this->m_ReferenceData )
{
StdErr << "ERROR: read geometry but could not read pixel data from " << referenceImagePath << "\n";
throw ExitException( 1 );
}
}
cmtk::UniformVolume::SmartPtr
cmtk::ImageOperationMatchIntensities::Apply( cmtk::UniformVolume::SmartPtr& volume )
{
TypedArray& volumeData = *(volume->GetData());
switch ( this->m_Mode )
{
case Self::MATCH_HISTOGRAMS:
volumeData.ApplyFunctionObject( cmtk::TypedArrayFunctionHistogramMatching( volumeData, *(this->m_ReferenceData) ) );
break;
case Self::MATCH_MEAN_SDEV:
{
cmtk::Types::DataItem rMean, rVar;
this->m_ReferenceData->GetStatistics( rMean, rVar );
cmtk::Types::DataItem mMean, mVar;
volumeData.GetStatistics( mMean, mVar );
const cmtk::Types::DataItem scale = sqrt( rVar / mVar );
const cmtk::Types::DataItem offset = rMean - scale * mMean;
volumeData.Rescale( scale, offset );
break;
}
}
return volume;
}
void
cmtk::ImageOperationMatchIntensities::NewMatchHistograms( const char* referenceImagePath )
{
ImageOperation::m_ImageOperationList.push_back( SmartPtr( new Self( Self::MATCH_HISTOGRAMS, referenceImagePath ) ) );
}
void
cmtk::ImageOperationMatchIntensities::NewMatchMeanSDev( const char* referenceImagePath )
{
ImageOperation::m_ImageOperationList.push_back( SmartPtr( new Self( Self::MATCH_MEAN_SDEV, referenceImagePath ) ) );
}
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