diff --git a/volume.cc b/volume.cc
deleted file mode 100644
index 6e7edb83367a5040a89818bb80caf457b6d435ef..0000000000000000000000000000000000000000
--- a/volume.cc
+++ /dev/null
@@ -1,260 +0,0 @@
-/* volume.cc
-
- Mark Woolrich, FMRIB Image Analysis Group
-
- Copyright (C) 2002 University of Oxford */
-
-/* CCOPYRIGHT */
-
-#include <iostream>
-#include <cstdlib>
-#include "fslio/fslio.h"
-
-#include "newmatap.h"
-#include "newmatio.h"
-#include "volume.h"
-#include "utils/time_tracer.h"
-
-using namespace NEWMAT;
-using namespace Utilities;
-
-namespace MISCMATHS {
-
- void Volume::unthreshold()
- {
- Time_Tracer ts("Volume::unthreshold");
-
- int sizeVolUnthresholded = getUnthresholdSize();
- int sizeVolThresholded = getVolumeSize();
-
- // Increase this to required size and set to 0
- Release();
- ColumnVector X=*this;
- ReSize(sizeVolUnthresholded);
- ColumnVector::operator=(0);
-
- // Loop through volume restoring non thresholded values:
- for(int i = 1; i <= sizeVolThresholded; i++)
- {
- (*this)(int(preThresholdPositions(i)))=X(i);
- }
- }
-
- void Volume::unthreshold(const VolumeInfo& pvolinfo,const ColumnVector& in)
- {
- volinfo = pvolinfo;
- preThresholdPositions = in;
- unthreshold();
- }
-
- void Volume::threshold()
- {
- Time_Tracer ts("Volume::threshold");
-
- int sizeVol = preThresholdPositions.Nrows();
-
- ColumnVector X(sizeVol);
-
- // Loop through pulling out non thresholded values
- for(int i = 1; i <= sizeVol; i++)
- {
- X(i)=(*this)(int(preThresholdPositions(i)));
- }
-
- (*this) = X;
- }
-
- void Volume::threshold(float thresh)
- {
- Time_Tracer ts("Volume::threshold");
-
- int size = getVolumeSize();
- int j = 0;
-
- preThresholdPositions.ReSize(size);
-
- float m = 0;
- for(int i = 1; i <= size; i++)
- {
- m = (*this)(i);
-
- if(m > thresh)
- {
- j++;
- preThresholdPositions(j) = i;
-
- (*this)(j) = (*this)(i);
- }
- }
-
- // Discard rest:
- *this = Rows(1,j);
-
- preThresholdPositions = preThresholdPositions.Rows(1,j);
- }
-
-
-
- void Volume::writeAsFloat(const string& fname)
- {
- Time_Tracer ts(string("Volume::writeAsFloat" + fname).c_str());
-
- const ColumnVector& outputvol = *this;
- FSLIO* OP = FslOpen(fname.c_str(), "wb");
-
- FslCloneHeader(OP,volinfo.miscinfo);
-
- FslSetCalMinMax(OP,Minimum(),Maximum());
- FslSetDim(OP,volinfo.x, volinfo.y, volinfo.z, 1);
- FslSetVoxDim(OP,volinfo.vx, volinfo.vy, volinfo.vz, 0);
- FslSetDataType(OP, DT_FLOAT);
- FslSetIntent(OP, volinfo.intent_code, volinfo.intent_p1, volinfo.intent_p2,
- volinfo.intent_p3);
-
- int sizeVol = outputvol.Nrows();
-
- float *qv = new float[sizeVol];
-
- for (int i=1; i<=sizeVol; i++)
- {
- qv[i-1] = outputvol(i);
- }
-
- FslWriteHeader(OP);
- FslWriteVolumes(OP, qv, 1);
-
- delete [] qv;
-
- FslClose(OP);
- }
-
- void Volume::writeAsInt(const string& fname)
- {
- Time_Tracer ts("Volume::writeAsInt");
-
- const ColumnVector& outputvol = *this;
- FSLIO* OP = FslOpen(fname.c_str(), "wb");
-
- FslCloneHeader(OP,volinfo.miscinfo);
-
- FslSetCalMinMax(OP,Minimum(),Maximum());
- FslSetDim(OP, volinfo.x, volinfo.y, volinfo.z, 1);
- FslSetVoxDim(OP, volinfo.vx, volinfo.vy, volinfo.vz, 0);
- FslSetDataType(OP, DT_SIGNED_SHORT);
- FslSetIntent(OP, volinfo.intent_code, volinfo.intent_p1, volinfo.intent_p2,
- volinfo.intent_p3);
-
- int sizeVol = outputvol.Nrows();
-
- short *qv = new short[sizeVol];
-
-
- for (int i=1; i<=sizeVol; i++)
- {
- qv[i-1] = (short)outputvol(i);
- }
-
- FslWriteHeader(OP);
- FslWriteVolumes(OP, qv, 1);
-
- delete [] qv;
-
- FslClose(OP);
- }
-
- void Volume::read(const string& fname)
- {
- Time_Tracer ts(string("Volume::read" + fname).c_str());
-
- FSLIO* IP = FslOpen(fname.c_str(), "rb");
- ColumnVector& output = *this;
-
- short x,y,z,v,type;
- float vx,vy,vz,tr;
- float slope, intercept;
- int doscaling;
-
-
- FslGetDim(IP,&x,&y,&z,&v);
- FslGetVoxDim(IP,&vx,&vy,&vz,&tr);
- FslGetIntent(IP, &(volinfo.intent_code), &(volinfo.intent_p1), &(volinfo.intent_p2),
- &(volinfo.intent_p3));
- doscaling = FslGetIntensityScaling(IP,&slope,&intercept);
-
- volinfo.x = x; volinfo.y = y; volinfo.z = z; volinfo.v = v;
- volinfo.vx = vx; volinfo.vy = vy; volinfo.vz = vz; volinfo.tr = tr;
-
- volinfo.miscinfo = FslInit();
- FslCloneHeader(volinfo.miscinfo,IP);
-
- size_t imagesize=x*y*z;
- FslGetDataType(IP,&type);
-
- output.ReSize(x*y*z);
-
- switch(type)
- {
- case DT_SIGNED_SHORT:
- {
- short* sbuffer=new short[imagesize];
- FslReadVolumes(IP,sbuffer,v);
-
- for(size_t j = 1; j<=(size_t)x*y*z; j++)
- {
- if (doscaling==0) { output(j)=sbuffer[j-1]; }
- else { output(j)=(slope * sbuffer[j-1]) + intercept; }
- }
-
- delete[] sbuffer;
- }
- break;
- case DT_FLOAT:
- {
- float* fbuffer=new float[imagesize];
- FslReadVolumes(IP,fbuffer,v);
-
- for(size_t j = 1; j<=(size_t)x*y*z; j++)
- {
- if (doscaling==0) { output(j)=fbuffer[j-1]; }
- else { output(j)=(slope * fbuffer[j-1]) + intercept; }
- }
-
- delete[] fbuffer;
- }
- break;
- case DT_UNSIGNED_CHAR:
- {
- unsigned char* cbuffer=new unsigned char[imagesize];
- FslReadVolumes(IP,cbuffer,v);
-
- for(size_t j = 1; j<=(size_t)x*y*z; j++)
- {
- if (doscaling==0) { output(j)=cbuffer[j-1]; }
- else { output(j)=(slope * cbuffer[j-1]) + intercept; }
- }
-
- delete[] cbuffer;
- }
- break;
- default:
- perror("FslRead: DT not supported");
- }
-
- FslClose(IP);
-
- return;
- }
-}
-
-
-
-
-
-
-
-
-
-
-
-
-
diff --git a/volume.h b/volume.h
deleted file mode 100644
index fa11e0504bfe9ffa490f80481acb040293d66a9e..0000000000000000000000000000000000000000
--- a/volume.h
+++ /dev/null
@@ -1,89 +0,0 @@
-/* volume.h
-
- Mark Woolrich - FMRIB Image Analysis Group
-
- Copyright (C) 2002 University of Oxford */
-
-/* CCOPYRIGHT */
-
-#if !defined(__volume_h)
-#define __volume_h
-
-#include <iostream>
-#include <fstream>
-#define WANT_STREAM
-#define WANT_MATH
-
-#include "newmatap.h"
-#include "newmatio.h"
-#include "volumeinfo.h"
-#include <string>
-
-using namespace NEWMAT;
-
-namespace MISCMATHS {
-
- class Volume : public ColumnVector
- {
- public:
-
- Volume() : ColumnVector() {}
- Volume(const VolumeInfo& pvolinfo, const ColumnVector& in) :
- ColumnVector(),
- volinfo(pvolinfo),
- preThresholdPositions(in)
- {}
- Volume(int psize) : ColumnVector (psize) {}
- Volume(int psize,const VolumeInfo& pvolinfo, const ColumnVector& in) :
- ColumnVector (psize),
- volinfo(pvolinfo),
- preThresholdPositions(in){}
- Volume& operator=(const Volume& vol) {
- ColumnVector::operator=(vol);
- preThresholdPositions = vol.preThresholdPositions;
- volinfo = vol.volinfo;
- return *this;
- }
- Volume& operator=(const ColumnVector& pvec) {
- ColumnVector::operator=(pvec);
- return *this;
- }
- Volume& operator=(float pin) {
- ColumnVector::operator=(pin);
- return *this;
- }
-
- Volume(const ColumnVector& pvec) {ColumnVector::operator=(pvec);}
-
- void read(const std::string& fname);
-
- void threshold(float thresh);
- void threshold();
- void unthreshold();
- void unthreshold(const VolumeInfo& pvolinfo, const ColumnVector& in);
-
- void writeAsInt(const std::string& fname);
- void writeAsFloat(const std::string& fname);
-
- const VolumeInfo& getInfo() const { return volinfo; }
- void setInfo(const VolumeInfo& pvolinfo) { volinfo = pvolinfo; }
-
- int getUnthresholdSize() const { return volinfo.x*volinfo.y*volinfo.z; }
-
- int getVolumeSize() const { return Nrows(); }
-
- const ColumnVector& getPreThresholdPositions() const { return preThresholdPositions; }
- void setPreThresholdPositions(const ColumnVector& in) { preThresholdPositions = in; }
-
- protected:
- VolumeInfo volinfo;
- ColumnVector preThresholdPositions;
- };
-
-}
-
-#endif
-
-
-
-
diff --git a/volumeinfo.h b/volumeinfo.h
deleted file mode 100644
index 804d5e69d45d3cd70f2b7f7eb3dc0ab8eea23f33..0000000000000000000000000000000000000000
--- a/volumeinfo.h
+++ /dev/null
@@ -1,42 +0,0 @@
-/* volumeinfo.h
-
- Mark Woolrich - FMRIB Image Analysis Group
-
- Copyright (C) 2002 University of Oxford */
-
-/* CCOPYRIGHT */
-
-#include "fslio/fslio.h"
-
-namespace MISCMATHS {
-
-#if !defined(__VolumeInfo_h)
-#define __VolumeInfo_h
-
-struct VolumeInfo
-{
- // Volume dimensions (no. of voxels):
- int x;
- int y;
- int z;
- int v;
-
- // Voxel dimensions (mm)
- float vx;
- float vy;
- float vz;
- float tr;
-
- // Intent codes and parameters
- short intent_code;
- float intent_p1;
- float intent_p2;
- float intent_p3;
-
- FSLIO* miscinfo;
-};
-
-
-#endif
-
-}
diff --git a/volumeseries.cc b/volumeseries.cc
deleted file mode 100644
index 25872c2f6c636bb8ea3a569346844b85ae48d515..0000000000000000000000000000000000000000
--- a/volumeseries.cc
+++ /dev/null
@@ -1,304 +0,0 @@
-/* volumeseries.cc
-
- Mark Woolrich - FMRIB Image Analysis Group
-
- Copyright (C) 2002 University of Oxford */
-
-/* CCOPYRIGHT */
-
-#include <iostream>
-#include <cstdlib>
-#include "fslio/fslio.h"
-
-#include "newmatap.h"
-#include "newmatio.h"
-#include "volumeseries.h"
-#include "miscmaths.h"
-#include "utils/time_tracer.h"
-
-using namespace NEWMAT;
-using namespace Utilities;
-
-namespace MISCMATHS {
-
- void VolumeSeries::replaceMeans()
- {
- Time_Tracer ts("VolumeSeries::replaceMeans");
- for(int i = 1; i <= getNumSeries(); i++)
- {
- Column(i) = Column(i) + means(i);
- }
- }
-
- void VolumeSeries::unthresholdSeries()
- {
- Time_Tracer ts("VolumeSeries::unthresholdSeries");
-
- int numUnThresholdedSeries = getUnthresholdNumSeries();
- int numThresholdedSeries = getNumSeries();
- int numVolumes = getNumVolumes();
-
- // Increase this to required size and set to 0
- Release();
- Matrix X=*this;
- ReSize(numVolumes, numUnThresholdedSeries);
- Matrix::operator=(0);
-
- // Loop through restoring non thresholded series:
- for(int i = 1; i <= numThresholdedSeries; i++)
- {
- Column(int(preThresholdPositions(i)))=X.Column(i);
- }
- }
-
- void VolumeSeries::thresholdSeries()
- {
- Time_Tracer ts("VolumeSeries::thresholdSeries");
-
- int numSeries = preThresholdPositions.Nrows();
- int numVolumes = getNumVolumes();
-
- Matrix X(numVolumes, numSeries);
-
- for(int i = 1; i <= numSeries; i++)
- {
- X.Column(i)=Column(int(preThresholdPositions(i)));
- }
-
- *this = X;
- }
-
- void VolumeSeries::thresholdSeries(float thresh, bool removeMean)
- {
- Time_Tracer ts("VolumeSeries::thresholdSeries");
-
- int numSeries = getNumSeries();
- int j = 0;
-
- if(removeMean)
- {
- means.ReSize(numSeries);
- means = 0;
- }
-
- preThresholdPositions.ReSize(numSeries);
-
- float m = 0,s = 0;
- for(int i = 1; i <= numSeries; i++)
- {
- m = MISCMATHS::mean(ColumnVector(getSeries(i))).AsScalar();
- s = MISCMATHS::var(ColumnVector(getSeries(i))).AsScalar();
- /*
- if(m > thresh && s == 0.0)
- {
- cerr << "m = " << m << endl;
- cerr << "s = " << s << endl;
- cerr << "i = " << i << endl;
- cerr << "j = " << j+1 << endl;
- }
- */
-
- if(m > thresh && s > 1e-10)
- {
- j++;
- preThresholdPositions(j) = i;
-
- if(removeMean)
- {
- Column(j) = getSeries(i) - m;
- means(i) = m;
- }
- else
- Column(j) = getSeries(i);
- }
- }
-
- // Discard rest:
- *this = Columns(1,j);
-
- preThresholdPositions = preThresholdPositions.Rows(1,j);
- }
-
- void VolumeSeries::removeSeriesMeans()
- {
- int numSeries = getNumSeries();
-
- for(int i = 1; i <= numSeries; i++)
- {
- float m = MISCMATHS::mean(ColumnVector(getSeries(i))).AsScalar();
- Column(i) = getSeries(i) - m;
- }
- }
-
- void VolumeSeries::read(const string& fname)
- {
- Time_Tracer ts(string("VolumeSeries::read-" + fname).c_str());
-
- FSLIO* IP = FslOpen(fname.c_str(), "rb");
- Matrix& output = *this;
-
- short x,y,z,v,type;
- float vx,vy,vz,tr;
- float slope, intercept;
- int doscaling;
-
- FslGetDim(IP,&x,&y,&z,&v);
- FslGetVoxDim(IP,&vx,&vy,&vz,&tr);
- FslGetIntent(IP, &(volinfo.intent_code), &(volinfo.intent_p1), &(volinfo.intent_p2),
- &(volinfo.intent_p3));
- doscaling = FslGetIntensityScaling(IP,&slope,&intercept);
-
- volinfo.x = x; volinfo.y = y; volinfo.z = z; volinfo.v = v;
- volinfo.vx = vx; volinfo.vy = vy; volinfo.vz = vz; volinfo.tr = tr;
-
- volinfo.miscinfo = FslInit();
- FslCloneHeader(volinfo.miscinfo,IP);
-
- size_t imagesize=x*y*z;
- FslGetDataType(IP,&type);
-
- output.ReSize(v,x*y*z);
-
- for(size_t i=1; i<=(size_t)v; i++)
- {
- switch(type)
- {
- case DT_SIGNED_SHORT:
- {
- short* sbuffer=new short[imagesize];
- FslReadVolumes(IP, sbuffer,1);
- for(size_t j = 1; j<=imagesize; j++)
- {
- if (doscaling==0) { output(i,j)=sbuffer[j-1]; }
- else { output(i,j)=(slope * sbuffer[j-1]) + intercept;}
- }
- delete[] sbuffer;
- }
- break;
- case DT_FLOAT:
- {
- float* fbuffer=new float[imagesize];
- FslReadVolumes(IP,fbuffer,1);
- for(size_t j = 1; j<=imagesize; j++)
- {
- if (doscaling==0) { output(i,j)=fbuffer[j-1]; }
- else { output(i,j)=(slope * fbuffer[j-1]) + intercept;}
- }
- delete[] fbuffer;
- }
- break;
- case DT_UNSIGNED_CHAR:
- {
- unsigned char* cbuffer=new unsigned char[imagesize];
- FslReadVolumes(IP,cbuffer,1);
- for(size_t j = 1; j<=imagesize; j++)
- {
- if (doscaling==0) { output(i,j)=cbuffer[j-1]; }
- else { output(i,j)=(slope * cbuffer[j-1]) + intercept;}
- }
- delete[] cbuffer;
- }
- break;
- default:
- perror("FslRead: DT not supported");
- }
- }
-
- FslClose(IP);
-
- return;
- }
-
- void VolumeSeries::unthresholdSeries(const VolumeInfo& pvolinfo,const ColumnVector& in)
- {
- volinfo = pvolinfo;
- preThresholdPositions = in;
- unthresholdSeries();
- }
-
- void VolumeSeries::writeAsFloat(const string& fname)
- {
- Time_Tracer ts(string("VolumeSeries::writeAsFloat" + fname).c_str());
-
- FSLIO* OP = FslOpen(fname.c_str(), "wb");
-
- FslCloneHeader(OP,volinfo.miscinfo);
-
- FslSetCalMinMax(OP,Minimum(),Maximum());
- FslSetDim(OP,volinfo.x, volinfo.y, volinfo.z, volinfo.v);
- FslSetVoxDim(OP,volinfo.vx, volinfo.vy, volinfo.vz, volinfo.tr);
- FslSetDataType(OP, DT_FLOAT);
- FslSetIntent(OP, volinfo.intent_code, volinfo.intent_p1, volinfo.intent_p2,
- volinfo.intent_p3);
-
- int volSize = getNumSeries();
- int volNum = getNumVolumes();
-
- // This should assert() but I'm too scared to add that to production code!
- if ( (volinfo.x * volinfo.y * volinfo.z != volSize) || (volinfo.v != volNum) )
- cerr << "WARNING: Dimensions are inconsistent in VolumeSeries::writeAsFloat()\n"
- << "x, y, z, v = " << volinfo.x << ", " << volinfo.y << ", " << volinfo.z
- << ", " << volinfo.v << "\nvolSize, volNum = " << volSize << ", "
- << volNum << "\nThis is probably NOT what you intended!!" << endl;
-
- FslWriteHeader(OP);
-
- float *qv = new float[volSize];
-
- for(int i = 1; i<= volNum; i++)
- {
- for(int j = 1; j <= volSize; j++)
- qv[j-1] = (*this)(i,j);
- FslWriteVolumes(OP, qv, 1);
- }
-
- delete [] qv;
-
- FslClose(OP);
-
- }
-
- void VolumeSeries::writeThresholdedSeriesAsFloat(const VolumeInfo& pvolinfo,const ColumnVector& in,const string& fname)
- {
- volinfo = pvolinfo;
- preThresholdPositions = in;
-
- Time_Tracer ts(string("VolumeSeries::writeThresholdedSeriesAsFloat" + fname).c_str());
-
- FSLIO* OP = FslOpen(fname.c_str(), "wb");
-
- FslCloneHeader(OP,volinfo.miscinfo);
-
- FslSetCalMinMax(OP,Minimum(),Maximum());
- FslSetDim(OP,volinfo.x, volinfo.y, volinfo.z, volinfo.v);
- FslSetVoxDim(OP,volinfo.vx, volinfo.vy, volinfo.vz, volinfo.tr);
- FslSetDataType(OP, DT_FLOAT);
- FslSetIntent(OP, volinfo.intent_code, volinfo.intent_p1, volinfo.intent_p2, volinfo.intent_p3);
-
- int volSize = getUnthresholdNumSeries();
- int numThresholdedSeries = getNumSeries();
- int volNum = getNumVolumes();
-
- FslWriteHeader(OP);
-
- float *qv = new float[volSize];
-
- for(int i = 1; i<= volNum; i++)
- {
- for(int j = 1; j <= volSize; j++)
- qv[j-1]=0;
- for(int j = 1; j <= numThresholdedSeries; j++)
- qv[int(preThresholdPositions(j))-1] = (*this)(i,j);
- FslWriteVolumes(OP, qv, 1);
- }
-
- delete [] qv;
-
- FslClose(OP);
-
- }
-
-}
-
-
-
diff --git a/volumeseries.h b/volumeseries.h
deleted file mode 100644
index 996fcef069bbbaa8c6551f671250c6197bdfeee7..0000000000000000000000000000000000000000
--- a/volumeseries.h
+++ /dev/null
@@ -1,122 +0,0 @@
-/* volumeseries.h
-
- Mark Woolrich - FMRIB Image Analysis Group
-
- Copyright (C) 2002 University of Oxford */
-
-/* CCOPYRIGHT */
-
-#include <iostream>
-#include <fstream>
-#define WANT_STREAM
-#define WANT_MATH
-
-#include "newmatap.h"
-#include "newmatio.h"
-#include "volumeinfo.h"
-
-#include <string>
-
-using namespace NEWMAT;
-
-namespace MISCMATHS {
-
-#if !defined(__volumeseries_h)
-#define __volumeseries_h
-
- // Rows are volumes
- // Columns are (time) series
- // num Rows is size of (time) series
- // num Cols is size of volumes
- class VolumeSeries : public Matrix
- {
- public:
-
- VolumeSeries() : Matrix() {}
-
- VolumeSeries(const VolumeInfo& pvolinfo, const ColumnVector& in) :
- Matrix(),
- volinfo(pvolinfo),
- preThresholdPositions(in)
- {}
-
- VolumeSeries(int pnumVols, int pnumSeries) :
- Matrix(pnumVols, pnumSeries),
- means(pnumSeries){}
-
- VolumeSeries(int pnumVols, int pnumSeries, const VolumeInfo& pvolinfo, const ColumnVector& in) :
- Matrix(pnumVols, pnumSeries),
- volinfo(pvolinfo),
- preThresholdPositions(in),
- means(pnumSeries){}
-
- VolumeSeries& operator=(const VolumeSeries& vol) {
- Matrix::operator=(vol);
- preThresholdPositions = vol.preThresholdPositions;
- volinfo = vol.volinfo;
- means = vol.means;
- return *this;
- }
- VolumeSeries& operator=(const Matrix& mat) {
- Matrix::operator=(mat);
- return *this;
- }
-
- VolumeSeries& operator=(float pin) {
- Matrix::operator=(pin);
- return *this;
- }
- VolumeSeries(const VolumeSeries& vol){operator=(vol);}
- VolumeSeries(const Matrix& pmat) : Matrix(pmat) {}
-
- void thresholdSeries(float thresh, bool removeMean);
- void thresholdSeries();
- void unthresholdSeries();
- void unthresholdSeries(const VolumeInfo& pvolinfo,const ColumnVector& in);
- void removeSeriesMeans();
-
- const ColumnVector& getPreThresholdPositions() const { return preThresholdPositions; }
- void setPreThresholdPositions(const ColumnVector& in) { preThresholdPositions = in; }
-
- int getNumVolumes() const { return Nrows(); }
- int getNumSeries() const { return Ncols(); }
- int nvoxels() const { return Ncols(); }
- int tsize() const { return Nrows(); }
-
- const ReturnMatrix getSeries(int i) const { ColumnVector tmp = Column(i);tmp.Release();return tmp; }
-
- ReturnMatrix getSeries(int i) { ColumnVector tmp = Column(i);tmp.Release();return tmp; }
-
- void setSeries(const ColumnVector& in, int i) { Column(i) = in; }
-
- const ReturnMatrix getVolume(int i) const { RowVector tmp = Row(i);tmp.Release();return tmp; }
- ReturnMatrix getVolume(int i) { RowVector tmp = Row(i);tmp.Release();return tmp; }
-
- void setVolume(const ColumnVector& in, int i) { Row(i) = in.AsRow(); }
- void setVolume(const RowVector& in, int i) { Row(i) = in; }
-
- void read(const std::string& fname);
- void writeAsInt(const std::string& fname);
- void writeAsFloat(const std::string& fname);
- void writeThresholdedSeriesAsFloat(const VolumeInfo& pvolinfo,const ColumnVector& in,const std::string& fname);
-
- void replaceMeans();
-
- const VolumeInfo& getInfo() const { return volinfo; }
- void setInfo(const VolumeInfo& pvolinfo) { volinfo = pvolinfo; }
-
- int getUnthresholdNumSeries() const { return volinfo.x*volinfo.y*volinfo.z; }
-
- protected:
- VolumeInfo volinfo;
- ColumnVector preThresholdPositions;
- ColumnVector means;
- };
-
-#endif
-
-}
-
-
-
-