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#ifndef __BRAIN_MODEL_SURFACE_METRIC_GRADIENT_H__
#define __BRAIN_MODEL_SURFACE_METRIC_GRADIENT_H__
/*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*/
#include "BrainModelAlgorithm.h"
class CoordinateFile;
class MetricFile;
class VectorFile;
class TopologyHelper;
/// class for create a functional volume using a probabilistic volume
class BrainModelSurfaceMetricGradient : public BrainModelAlgorithm {
public:
/// Constructor for execution on single column
BrainModelSurfaceMetricGradient(BrainSet* bs,
int bsIndexIn,
MetricFile* valuesIn,
int metricIndexIn,
VectorFile* gradOutIn,
MetricFile* gradMagOutIn,
int magOutIndexIn,
bool avgNormalsIn = false);
/// Constructor for execution of all columns
BrainModelSurfaceMetricGradient(BrainSet* bs,
int bsIndexIn,
MetricFile* valuesIn,
MetricFile* gradMagOutIn,
bool avgNormalsIn,
bool parallelFlagIn);
/// Destructor
~BrainModelSurfaceMetricGradient();
/// execute the algorithm
void execute() throw (BrainModelAlgorithmException);
private:
/// execute on single metric column
void executeSingleColumn() throw (BrainModelAlgorithmException);
/// execute the all metric columns
void executeAllColumns() throw (BrainModelAlgorithmException);
/// process single column
void processSingleColumn(const TopologyHelper* topoHelper,
const float* allnormals,
const float* sourceData,
const int columnIndex,
const int numNodes) throw (BrainModelAlgorithmException);
void initialize();
bool allColumnsFlag;
bool parallelFlag;
int setIndex, metricIndex, magOutIndex, depth;
MetricFile* values, *gradMagOut;
VectorFile* gradOut;
bool avgNormals;
void crossProd(const float in1[3], const double in2[3], double out[3]);
void crossProd(const double in1[3], const double in2[3], double out[3]);
double dotProd(const double in1[3], const double in2[3]);
double dotProd(const float in1[3], const double in2[3]);
void normalize(double in[3]);
void coordDiff(const float* coord1, const float* coord2, double out[3]);
void calcrref(double* matrix[], int rows, int cols);
double det3(double* matrix[], int column);
bool haveWarned;
bool haveFailed;
};
#endif // __BRAIN_MODEL_SURFACE_METRIC_GRADIENT_H__
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