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/*LICENSE_START*/
/*
* Copyright 1995-2002 Washington University School of Medicine
*
* http://brainmap.wustl.edu
*
* This file is part of CARET.
*
* CARET 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 2 of the License, or
* (at your option) any later version.
*
* CARET 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 CARET; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*
*/
/*LICENSE_END*/
#ifndef __BRAIN_MODEL_VOLUME_TO_SURFACE_MAPPER_H__
#define __BRAIN_MODEL_VOLUME_TO_SURFACE_MAPPER_H__
#include "BrainModelAlgorithm.h"
#include "BrainModelVolumeToSurfaceMapperAlgorithmParameters.h"
class BrainModelSurface;
class GiftiNodeDataFile;
class MetricFile;
class PaintFile;
class TopologyHelper;
class VolumeFile;
/// class that maps a volume (typically functional) to a surface's node attribute file
class BrainModelVolumeToSurfaceMapper : public BrainModelAlgorithm {
public:
/// Constructor for a volume file in memory.
BrainModelVolumeToSurfaceMapper(BrainSet* bs,
BrainModelSurface* surfaceIn,
VolumeFile* volumeFileIn,
GiftiNodeDataFile* dataFileIn,
const BrainModelVolumeToSurfaceMapperAlgorithmParameters algorithmIn,
const int dataFileColumnIn,
const QString& dataFileColumnNameIn);
/// Constructor for a volume file that needs to be read.
BrainModelVolumeToSurfaceMapper(BrainSet* bs,
BrainModelSurface* surfaceIn,
const QString& volumeFileNameIn,
GiftiNodeDataFile* dataFileIn,
const BrainModelVolumeToSurfaceMapperAlgorithmParameters algorithmIn,
const int dataFileColumnIn,
const QString& dataFileColumnNameIn);
/// Destructor
~BrainModelVolumeToSurfaceMapper();
/// execute the algorithm
virtual void execute() throw (BrainModelAlgorithmException);
protected:
/// Run the Metric Average Nodes algorithm
void algorithmMetricAverageNodes(const float* allCoords);
/// Run the Metric Average Voxel algorithm
void algorithmMetricAverageVoxel(const float* allCoords);
/// Run the Metric Enclosing Voxel algorithm
void algorithmMetricEnclosingVoxel(const float* allCoords);
/// Run the Metric Gaussian algorithm
void algorithmMetricGaussian(const float* allCoords);
/// Run the Metric Interpolated Voxel algorithm
void algorithmMetricInterpolatedVoxel(const float* allCoords);
/// Run the Metric Maximum Voxel algorithm
void algorithmMetricMaximumVoxel(const float* allCoords);
/// Run the Metric Strongest Voxel algorithm
void algorithmMetricStrongestVoxel(const float* allCoords);
/// Run the Metric MCW Brain Fish algorithm
void algorithmMetricMcwBrainFish(const float* allCoords);
/// Run the Paint Enclosing Voxel algorithm
void algorithmPaintEnclosingVoxel(const float* allCoords);
/// add paint names for paint indices without names
void addPaintNamesForIndicesWithoutNames();
/// Get the valid subvolume for neighbor mapping algorithms.
bool getNeighborsSubVolume(const float xyz[3],
int& iMin, int& iMax,
int& jMin, int& jMax,
int& kMin, int& kMax,
const float neighborsCubeSize) const;
/// volume source type
enum MODE_VOLUME {
MODE_VOLUME_IN_MEMORY,
MODE_VOLUME_ON_DISK
};
/// the algorithm parameters
BrainModelVolumeToSurfaceMapperAlgorithmParameters algorithmParameters;
/// surface for mapping
BrainModelSurface* surface;
/// volume to map
VolumeFile* volumeFile;
/// the data file
GiftiNodeDataFile* dataFile;
/// metric file to update
MetricFile* metricFile;
/// paint file to update
PaintFile* paintFile;
/// the data file column
int dataFileColumn;
/// name for data column
QString dataFileColumnName;
/// volume type mode
MODE_VOLUME volumeMode;
/// volume file name
QString volumeFileName;
/// the topology helper
TopologyHelper* topologyHelper;
/// number of nodes in the surface
int numberOfNodes;
/// data file column number being updated
int dataFileColumnNumber;
/// volume dimensions
int volumeDimensions[3];
/// volume origin
float volumeOrigin[3];
/// volume voxel size
float volumeVoxelSize[3];
/// index of ??? paint name
int paintQuestionNameIndex;
/// translates paint volume indices to paint file indices
std::vector<int> paintVolumeIndexToPaintFileNameIndex;
};
#endif // __BRAIN_MODEL_VOLUME_TO_SURFACE_MAPPER_H__
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