int main(int argc, char **argv)
{
if(argc < 4)
{
std:: cerr << "make templete volume with initial value:" << std::endl;
std:: cerr << "Usage: " << argv[0] << "<ref. vol> <set val(float)> <out vol>" << std::endl;
return 1;
}
try
{
VolMagick::Volume outputVol;
VolMagick::VolumeFileInfo volinfo;
volinfo.read(argv[1]);
float setval = atof( argv[2] );
outputVol.voxelType(volinfo.voxelType());
outputVol.dimension(volinfo.dimension());
outputVol.boundingBox(volinfo.boundingBox());
int dimx = outputVol.XDim();
int dimy = outputVol.YDim();
int dimz = outputVol.ZDim();
fprintf( stderr, "dim: %d %d %d\n", dimx, dimy, dimz );
for( int kz = 0; kz<dimz; kz++)
for( int jy = 0; jy<dimy; jy++)
for( int ix = 0; ix<dimx; ix++)
outputVol(ix,jy,kz, setval);
VolMagick::createVolumeFile(outputVol, argv[argc-1]);
}
catch(VolMagick::Exception &e)
{
std:: cerr << e.what() << std::endl;
}
catch(std::exception &e)
{
std::cerr << e.what() << std::endl;
}
return 0;
}
int main(int argc, char **argv)
{
if(argc != 3)
{
cerr << "Usage: " << argv[0] << " <input volume file> <output volume file>" << endl;
return 1;
}
try
{
VolMagickOpStatus status;
VolMagick::setDefaultMessenger(&status);
VolMagick::VolumeFileInfo volinfo;
volinfo.read(argv[1]);
VolMagick::createVolumeFile(argv[2],
volinfo.boundingBox(),
volinfo.dimension(),
volinfo.voxelTypes(),
volinfo.numVariables(),
volinfo.numTimesteps(),
volinfo.TMin(),volinfo.TMax());
for(unsigned int var=0; var<volinfo.numVariables(); var++)
for(unsigned int time=0; time<volinfo.numTimesteps(); time++)
{
VolMagick::Volume vol;
readVolumeFile(vol,argv[1],var,time);
for(VolMagick::uint64 i = 0; i < vol.dimension().size(); i++)
vol(i, vol.min() + ((vol.max() - vol(i))/(vol.max() - vol.min()))*(vol.max() - vol.min()));
vol.desc(volinfo.name(var));
writeVolumeFile(vol,argv[2],var,time);
}
}
catch(VolMagick::Exception &e)
{
cerr << e.what() << endl;
}
catch(std::exception &e)
{
cerr << e.what() << endl;
}
return 0;
}
int main(int argc, char **argv)
{
if(argc != 3)
{
cerr << "Usage: " << argv[0] << " <input volume file> <output volume file>" << endl;
return 1;
}
try
{
#ifndef OUT_OF_CORE
cerr << "In-core convert" << endl;
VolMagick::Volume vol;
//TODO: read/write a slice at a time instead of reading the whole volume in memory then writing it out...
VolMagick::readVolumeFile(vol,argv[1]/*,var,time*/);
//VolMagick::writeVolumeFile(vol,argv[2]/*,var,time*/);
VolMagick::createVolumeFile(vol,argv[2]);
#else
cerr << "Out-of-core convert" << endl;
VolMagick::VolumeFileInfo volinfo;
volinfo.read(argv[1]);
//VolMagick::createVolumeFile in Utlity.h
VolMagick::createVolumeFile(argv[2],volinfo);
// cout<<"convert volinfo:" << volinfo.boundingBox().minx <<" " << volinfo.boundingBox().maxx<< endl;
//read in slice by slice
for(unsigned int k = 0; k < volinfo.ZDim(); k++)
{
for(unsigned int var=0; var<volinfo.numVariables(); var++)
for(unsigned int time=0; time<volinfo.numTimesteps(); time++)
{
VolMagick::Volume vol;
readVolumeFile(vol,argv[1],
var,time,
0,0,k,
VolMagick::Dimension(volinfo.XDim(),volinfo.YDim(),1));
vol.desc(volinfo.name(var));
writeVolumeFile(vol,argv[2],
var,time,
0,0,k);
}
fprintf(stderr,"Converting: %5.2f %%\r",(((float)k)/((float)((int)(volinfo.ZDim()-1))))*100.0);
}
fprintf(stderr,"\n");
#endif
}
catch(VolMagick::Exception &e)
{
cerr << e.what() << endl;
}
catch(std::exception &e)
{
cerr << e.what() << endl;
}
return 0;
}
void operator()()
{
CVC::ThreadFeedback feedback;
if (_output.empty()) {
_output = _volSelected+"_gdtv";
}
if (_dataset.empty()) {
_dataset = _volSelected+"_gdtv";
}
// read in the data if necessary
if(cvcapp.isData<VolMagick::VolumeFileInfo>(_volSelected))
{
VolMagick::VolumeFileInfo vfi = cvcapp.data<VolMagick::VolumeFileInfo>(_volSelected);
if (_currentIndex == 0) {
if (_output.substr(_output.find_last_of(".")) != _fileType) {
_output = _output + _fileType;
}
VolMagick::createVolumeFile(_output,
vfi.boundingBox(),
vfi.dimension(),
vfi.voxelTypes(),
vfi.numVariables(),
vfi.numTimesteps(),
vfi.TMin(),
vfi.TMax());
}
// run gdtv filter
for(unsigned int var=0; var<vfi.numVariables(); var++) {
for(unsigned int time=0; time<vfi.numTimesteps(); time++) {
VolMagick::Volume vol;
readVolumeFile(vol,vfi.filename(),var,time);
vol.gdtvFilter(2.0-_exp,_lambda,_iterations,_nhood-1.0);
if (_currentIndex == 0) {
writeVolumeFile(vol,_output,var,time);
} else if (_currentIndex == 1) {
// put the dataset in the list
cvcapp.data(_dataset,vol);
}
}
}
}
else if(cvcapp.isData<VolMagick::Volume>(_volSelected))
{
VolMagick::Volume vol = cvcapp.data<VolMagick::Volume>(_volSelected);
vol.gdtvFilter(2.0-_exp,_lambda,_iterations,_nhood-1.0);
if (_currentIndex == 0) {
//if _output not set, overwrite the input volume data
if(_output.empty())
cvcapp.data(_volSelected, vol);
else {
_output = _output + _fileType;
cvcapp.data(_output, vol);
}
} else if (_currentIndex == 1) {
cvcapp.data(_dataset,vol);
}
}
}
// 04/06/2012 - transfix - added bounding box modification code
int main(int argc, char **argv)
{
using namespace std;
try
{
switch(argc)
{
case 8:
{
using namespace boost;
vector<string> parts;
for(int i = 0; i < 6; i++)
parts.push_back(argv[i+2]);
VolMagick::BoundingBox bbox(join(parts,","));
VolMagick::writeBoundingBox(bbox,argv[1]);
}
case 2:
{
VolMagick::VolumeFileInfo volinfo;
volinfo.read(argv[1]);
cout << volinfo.filename() << ":" <<endl;
cout << "Num Variables: " << volinfo.numVariables() << endl;
cout << "Num Timesteps: " << volinfo.numTimesteps() << endl;
cout << "Dimension: " << volinfo.XDim() << "x" << volinfo.YDim() << "x" << volinfo.ZDim() << endl;
cout << "Bounding box: ";
cout << "(" << volinfo.boundingBox().minx << "," << volinfo.boundingBox().miny << "," << volinfo.boundingBox().minz << ") ";
cout << "(" << volinfo.boundingBox().maxx << "," << volinfo.boundingBox().maxy << "," << volinfo.boundingBox().maxz << ") ";
cout << endl;
cout << "Span: " << "(" << volinfo.XSpan() << "," << volinfo.YSpan() << "," << volinfo.ZSpan() << ") " << endl;
double volmin = volinfo.min(), volmax = volinfo.max();
cout<<"volhead info: " << volmin <<" " << volmax<< endl;
for(unsigned int i = 0; i<volinfo.numVariables(); i++)
{
cout << "Name of var " << i << ": " << volinfo.name(i) << endl;
cout << "Voxel type of var " << i << ": " << volinfo.voxelTypeStr(i) << endl;
for(unsigned int j = 0; j<volinfo.numTimesteps(); j++)
{
if(volmin > volinfo.min(i,j)) volmin = volinfo.min(i,j);
if(volmax < volinfo.max(i,j)) volmax = volinfo.max(i,j);
cout << "Min voxel value of var " << i << ", timestep " << j << ": " << volinfo.min(i,j) << endl;
cout << "Max voxel value of var " << i << ", timestep " << j << ": " << volinfo.max(i,j) << endl;
}
}
cout << "Min voxel value (of whole dataset): " << volmin << endl;
cout << "Max voxel value (of whole dataset): " << volmax << endl;
break;
}
default:
{
cerr << "Usage: " << endl;
cerr << argv[0] << " <volume file>" << endl;
cerr << argv[0] << " <volume file> [minx] [miny] [minz] [maxx] [maxy] [maxz] : set a volume's bounding box" << endl;
return 1;
}
}
}
catch(VolMagick::Exception &e)
{
cerr << e.what() << endl;
}
catch(std::exception &e)
{
cerr << e.what() << endl;
}
return 0;
}
int main(int argc, char **argv)
{
if(argc < 2)
{
cerr << "Usage: " << argv[0] << " <volume file>" << endl;
return 1;
}
try
{
VolMagick::VolumeFileInfo volinfo;
VolMagick::VolumeCache volcache;
VolMagickOpStatus status;
VolMagick::setDefaultMessenger(&status);
#if 0
VolMagick::Volume sphereVol;
sphereVol.dimension(VolMagick::Dimension(128,128,128));//256,256,256));
sphereVol.voxelType(VolMagick::UChar);
double center_x = sphereVol.XDim()/2.0;
double center_y = sphereVol.YDim()/2.0;
double center_z = sphereVol.ZDim()/2.0;
double distance;
for(unsigned int k=0; k<sphereVol.ZDim(); k++)
for(unsigned int j=0; j<sphereVol.YDim(); j++)
for(unsigned int i=0; i<sphereVol.XDim(); i++)
{
distance = sqrt(double((i-center_x)*(i-center_x)+
(j-center_y)*(j-center_y)+
(k-center_z)*(k-center_z)));
//sphereVol(i,j,k, distance);
if((distance > 15.0) && (distance < 20.0))
sphereVol(i,j,k, 20);//20.0+10*(distance-15.0)/(20.0-15.0));
if((distance >= 20.0) && (distance < 25.0))
sphereVol(i,j,k, 30);//50.0+10*(distance-50.0)/(55.0-50.0));
}
VolMagick::writeVolumeFile(sphereVol, argv[1]);
#endif
#if 0
volinfo.read(argv[1]);
cout << volinfo.filename() << ":" <<endl;
cout << "Num Variables: " << volinfo.numVariables() << endl;
cout << "Num Timesteps: " << volinfo.numTimesteps() << endl;
cout << "Dimension: " << volinfo.XDim() << "x" << volinfo.YDim() << "x" << volinfo.ZDim() << endl;
cout << "Bounding box: ";
cout << "(" << volinfo.boundingBox().minx << "," << volinfo.boundingBox().miny << "," << volinfo.boundingBox().minz << ") ";
cout << "(" << volinfo.boundingBox().maxx << "," << volinfo.boundingBox().maxy << "," << volinfo.boundingBox().maxz << ") ";
cout << endl;
double volmin = volinfo.min(), volmax = volinfo.max();
cout << "Min voxel value: " << volmin << endl;
cout << "Max voxel value: " << volmax << endl;
cout << "Voxel type: " << volinfo.voxelTypeStr() << endl;
cout << "Volume name: " << volinfo.name() << endl << endl;
#endif
/*
vol.dimension(VolMagick::Dimension(128,128,128));
vol.voxelType(VolMagick::Float);
for(unsigned int i=0; i<128; i++)
for(unsigned int j=0; j<128; j++)
for(unsigned int k=0; k<128; k++)
vol(i,j,k,double(i)/128.0);
*/
#if 0
if(argc > 2)
{
VolMagick::Volume vol;
readVolumeFile(vol,argv[1]);
vol.min(volinfo.min());
vol.max(volinfo.max());
//vol.map(0.0,255.0);
//vol.voxelType(VolMagick::UChar);
vol.resize(VolMagick::Dimension(512,512,512));
writeVolumeFile(vol,argv[2]);
}
#endif
#if 0
if(argc > 2)
{
double realmin, realmax;
VolMagick::Volume vol;
std::vector<VolMagick::VolumeFileInfo> volinfos(argc-2);
volinfos[0].read(argv[1]);
realmin = volinfos[0].min();
realmax = volinfos[0].max();
for(unsigned int i=0; i<argc-2; i++)
{
volinfos[i].read(argv[i+1]);
if(realmin > volinfos[i].min()) realmin = volinfos[i].min();
if(realmax < volinfos[i].max()) realmax = volinfos[i].max();
}
cout << "Realmin: " << realmin << endl;
cout << "Realmax: " << realmax << endl;
createVolumeFile(argv[argc-1],
volinfo.boundingBox(),
volinfo.dimension(),
std::vector<VolMagick::VoxelType>(1, VolMagick::UChar),
1, argc-2,
0.0, double(argc-3));
for(unsigned int i=0; i<argc-2; i++)
{
readVolumeFile(vol,argv[i+1]);
//so the mapping is correct across all timesteps, we must set the real min and max across time
vol.min(realmin);
vol.max(realmax);
vol.map(0.0,255.0);
vol.voxelType(VolMagick::UChar);
writeVolumeFile(vol,argv[argc-1],0,i);
}
}
#endif
//vector test
#if 0
std::vector<VolMagick::Volume> vols(4);
{
char filename[256];
cout << "Testing RawV!" << endl;
vols[0].voxelType(VolMagick::UChar);
vols[0].desc("red");
vols[0].fill(130.0);
vols[1].voxelType(VolMagick::UChar);
vols[1].desc("green");
vols[1].fill(20.0);
vols[2].voxelType(VolMagick::UChar);
vols[2].desc("blue");
vols[2].fill(200.0);
vols[3].voxelType(VolMagick::Float);
vols[3].desc("alpha");
for(unsigned int k=0; k<vols[3].ZDim(); k++)
for(unsigned int j=0; j<vols[3].YDim(); j++)
for(unsigned int i=0; i<vols[3].XDim(); i++)
vols[3](i,j,k,
sqrt(float((i - (vols[3].XDim()/2.0))*(i - (vols[3].XDim()/2.0)) +
(j - (vols[3].YDim()/2.0))*(j - (vols[3].YDim()/2.0)) +
(k - (vols[3].ZDim()/2.0))*(k - (vols[3].ZDim()/2.0)))));
VolMagick::writeVolumeFile(vols,"test.rawv");
}
#endif
//cout << "std::streamoff size: " << sizeof(std::streamoff) << endl;
//ifstream test("flkajlff");
}
catch(VolMagick::Exception &e)
{
cerr << e.what() << endl;
}
catch(std::exception &e)
{
cerr << e.what() << endl;
}
return 0;
}
int main(int argc, char **argv)
{
if(argc < 4)
{
std:: cerr <<
"Usage: " << argv[0] <<
"<input vol 1> <input vol 2> <output vol> \n";
return 1;
}
try
{
VolMagick::Volume inputVol;
VolMagick::Volume inputVol2;
VolMagick::Volume outputVol;
VolMagick::VolumeFileInfo volinfo;
volinfo.read(argv[1]);
VolMagick::readVolumeFile(inputVol,argv[1]); ///first argument is input volume
VolMagick::readVolumeFile(inputVol2, argv[2]); /// second argument is mask volume
VolMagick::VolumeFileInfo volinfo1;
volinfo1.read(argv[1]);
std::cout << volinfo1.filename() << ":" <<std::endl;
VolMagick::VolumeFileInfo volinfo2;
volinfo2.read(argv[2]);
std::cout << volinfo2.filename() << ":" <<std::endl;
std::cout<<"minVol1 , maxVol1: "<<volinfo1.min()<<" "<<volinfo1.max()<<std::endl;;
std::cout<<"minVol2 , maxVol2: "<<volinfo2.min()<<" "<<volinfo2.max()<<std::endl;
outputVol.voxelType(inputVol.voxelType());
outputVol.dimension(inputVol.dimension());
outputVol.boundingBox(inputVol.boundingBox());
std::cout<<"voxeltype "<<inputVol.voxelType()<<std::endl;
double min=100000000.0;
double max=-100000000.0;
for( int kz = 0; kz<inputVol.ZDim(); kz++)
{
std::cout<<kz<<"..";
for( int jy = 0; jy<inputVol.YDim(); jy++)
for( int ix = 0; ix<inputVol.XDim(); ix++)
{
outputVol(ix,jy,kz, inputVol(ix,jy,kz)+inputVol2(ix,jy,kz));
if (inputVol(ix,jy,kz)+inputVol2(ix,jy,kz) < min) {
min = inputVol(ix,jy,kz)+inputVol2(ix,jy,kz);
}
if (inputVol(ix,jy,kz)+inputVol2(ix,jy,kz) >max) {
max = inputVol(ix,jy,kz)+inputVol2(ix,jy,kz);
}
}
}
std::cout << std::endl << "New Min/Max " << min << " " << max << std::endl;
VolMagick::createVolumeFile(argv[3],volinfo);
VolMagick::writeVolumeFile(outputVol, argv[3]);
}
catch(VolMagick::Exception &e)
{
std:: cerr << e.what() << std::endl;
}
catch(std::exception &e)
{
std::cerr << e.what() << std::endl;
}
return 0;
}
namespace GenSeg {
//this hurts my soul -Joe R.
VolMagick::VolumeFileInfo loadedVolumeInfo;
void swap_buffer(char *buffer, int count, int typesize)
{
char sbuf[4];
int i;
int temp = 1;
unsigned char* chartempf = (unsigned char*) &temp;
if(chartempf[0] > '\0') {
// swapping isn't necessary on single byte data
if (typesize == 1)
return;
for (i=0; i < count; i++)
{
memcpy(sbuf, buffer+(i*typesize), typesize);
switch (typesize)
{
case 2:
{
buffer[i*typesize] = sbuf[1];
buffer[i*typesize+1] = sbuf[0];
break;
}
case 4:
{
buffer[i*typesize] = sbuf[3];
buffer[i*typesize+1] = sbuf[2];
buffer[i*typesize+2] = sbuf[1];
buffer[i*typesize+3] = sbuf[0];
break;
}
default:
break;
}
}
}
}
void read_data(int *xd, int *yd, int *zd, float **data,
/*float *span_t, float *orig_t,*/ const char *input_name)
{
float c_float;
unsigned char c_unchar;
unsigned short c_unshort;
int i,j,k;
float *dataset;
struct stat filestat;
size_t size[3];
int datatype = 0;
int found;
FILE *fp;
size_t fread_return=0;
if ((fp=fopen(input_name, "rb"))==NULL){
printf("read error...\n");
exit(0);
}
stat(input_name, &filestat);
/* reading RAWIV header */
fread_return = fread(minext, sizeof(float), 3, fp);
fread_return = fread(maxext, sizeof(float), 3, fp);
fread_return = fread(&nverts, sizeof(int), 1, fp);
fread_return = fread(&ncells, sizeof(int), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
{
swap_buffer((char *)minext, 3, sizeof(float));
swap_buffer((char *)maxext, 3, sizeof(float));
swap_buffer((char *)&nverts, 1, sizeof(int));
swap_buffer((char *)&ncells, 1, sizeof(int));
}
//#endif
size[0] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(unsigned int) +
nverts * sizeof(unsigned char);
size[1] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(unsigned int) +
nverts * sizeof(unsigned short);
size[2] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(unsigned int) +
nverts * sizeof(float);
found = 0;
for (i = 0; i < 3; i++)
if (size[i] == (unsigned int)filestat.st_size)
{
if (found == 0)
{
datatype = i;
found = 1;
}
}
if (found == 0)
{
printf("Corrupted file or unsupported dataset type\n");
exit(5);
}
fread_return = fread(dim, sizeof(unsigned int), 3, fp);
fread_return = fread(orig, sizeof(float), 3, fp);
fread_return = fread(span, sizeof(float), 3, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
{
swap_buffer((char *)dim, 3, sizeof(unsigned int));
swap_buffer((char *)orig, 3, sizeof(float));
swap_buffer((char *)span, 3, sizeof(float));
}
//#endif
/*
span_t[0] = span[0];
span_t[1] = span[1];
span_t[2] = span[2];
orig_t[0] = orig[0];
orig_t[1] = orig[1];
orig_t[2] = orig[2];
*/
XDIM = dim[0];
YDIM = dim[1];
ZDIM = dim[2];
dataset = (float *)malloc(sizeof(float)*XDIM*YDIM*ZDIM);
maxraw = -99999999.f;
minraw = 99999999.f;
if (datatype == 0) {
printf("data type: unsigned char \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread_return = fread(&c_unchar, sizeof(unsigned char), 1, fp);
dataset[IndexVect(k,j,i)]=(float)c_unchar;
if (c_unchar > maxraw)
maxraw = c_unchar;
if (c_unchar < minraw)
minraw = c_unchar;
}
}
else if (datatype == 1) {
printf("data type: unsigned short \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread_return = fread(&c_unshort, sizeof(unsigned short), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
swap_buffer((char *)&c_unshort, 1, sizeof(unsigned short));
//#endif
dataset[IndexVect(k,j,i)]=(float)c_unshort;
if (c_unshort > maxraw)
maxraw = c_unshort;
if (c_unshort < minraw)
minraw = c_unshort;
}
}
else if (datatype == 2) {
printf("data type: float \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread_return = fread(&c_float, sizeof(float), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
swap_buffer((char *)&c_float, 1, sizeof(float));
//#endif
dataset[IndexVect(k,j,i)]=c_float;
if (c_float > maxraw)
maxraw = c_float;
if (c_float < minraw)
minraw = c_float;
}
}
else {
printf("error\n");
fclose(fp);
exit(1);
}
fclose(fp);
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++)
dataset[IndexVect(k,j,i)] = 255*(dataset[IndexVect(k,j,i)] -
minraw)/(maxraw-minraw);
printf("minimum = %f, maximum = %f \n",minraw,maxraw);
*xd = XDIM;
*yd = YDIM;
*zd = ZDIM;
*data = dataset;
loadedVolumeInfo.read(input_name);
}
#if 0
void read_data(int *xd, int *yd, int *zd,
float **data, const char *input_name)
{
float c_float;
u_char c_unchar;
u_short c_unshort;
int i,j,k;
float *dataset;
struct stat filestat;
size_t size[3];
int datatype;
int found;
FILE *fp;
if ((fp=fopen(input_name, "r"))==NULL){
printf("read error...\n");
exit(0);
}
stat(input_name, &filestat);
/* reading RAWIV header */
fread(minext, sizeof(float), 3, fp);
fread(maxext, sizeof(float), 3, fp);
fread(&nverts, sizeof(int), 1, fp);
fread(&ncells, sizeof(int), 1, fp);
size[0] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(u_int) +
nverts * sizeof(u_char);
size[1] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(u_int) +
nverts * sizeof(u_short);
size[2] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(u_int) +
nverts * sizeof(float);
found = 0;
for (i = 0; i < 3; i++)
if (size[i] == filestat.st_size)
{
if (found == 0)
{
datatype = i;
found = 1;
}
}
if (found == 0)
{
printf("Corrupted file or unsupported dataset type\n");
exit(5);
}
fread(dim, sizeof(u_int), 3, fp);
fread(orig, sizeof(float), 3, fp);
fread(span, sizeof(float), 3, fp);
XDIM = dim[0];
YDIM = dim[1];
ZDIM = dim[2];
dataset = (float *)malloc(sizeof(float)*XDIM*YDIM*ZDIM);
/* reading the data */
maxraw = -99999999;
minraw = 99999999;
if (datatype == 0) {
printf("data type: unsigned char \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread(&c_unchar, sizeof(u_char), 1, fp);
dataset[IndexVect(k,j,i)]=(float)c_unchar;
if (c_unchar > maxraw)
maxraw = c_unchar;
if (c_unchar < minraw)
minraw = c_unchar;
}
}
else if (datatype == 1) {
printf("data type: unsigned short \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread(&c_unshort, sizeof(u_short), 1, fp);
dataset[IndexVect(k,j,i)]=(float)c_unshort;
if (c_unshort > maxraw)
maxraw = c_unshort;
if (c_unshort < minraw)
minraw = c_unshort;
}
}
else if (datatype == 2) {
printf("data type: float \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread(&c_float, sizeof(float), 1, fp);
dataset[IndexVect(k,j,i)]=c_float;
if (c_float > maxraw)
maxraw = c_float;
if (c_float < minraw)
minraw = c_float;
}
}
else {
printf("error\n");
fclose(fp);
exit(1);
}
fclose(fp);
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++)
dataset[IndexVect(k,j,i)] = 255*(dataset[IndexVect(k,j,i)] -
minraw)/(maxraw-minraw);
printf("minimum = %f, maximum = %f \n",minraw,maxraw);
*xd = XDIM;
*yd = YDIM;
*zd = ZDIM;
*data = dataset;
}
#endif
void write_rawiv_float(float *result,FILE* fp)
{
int i, j, k;
float c_float;
size_t fwrite_return;
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
{
swap_buffer((char *)minext, 3, sizeof(float));
swap_buffer((char *)maxext, 3, sizeof(float));
swap_buffer((char *)&nverts, 1, sizeof(int));
swap_buffer((char *)&ncells, 1, sizeof(int));
swap_buffer((char *)dim, 3, sizeof(unsigned int));
swap_buffer((char *)orig, 3, sizeof(float));
swap_buffer((char *)span, 3, sizeof(float));
}
//#endif
fwrite_return = fwrite(minext, sizeof(float), 3, fp);
fwrite_return = fwrite(maxext, sizeof(float), 3, fp);
fwrite_return = fwrite(&nverts, sizeof(int), 1, fp);
fwrite_return = fwrite(&ncells, sizeof(int), 1, fp);
fwrite_return = fwrite(dim, sizeof(unsigned int), 3, fp);
fwrite_return = fwrite(orig, sizeof(float), 3, fp);
fwrite_return = fwrite(span, sizeof(float), 3, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
{
swap_buffer((char *)minext, 3, sizeof(float));
swap_buffer((char *)maxext, 3, sizeof(float));
swap_buffer((char *)&nverts, 1, sizeof(int));
swap_buffer((char *)&ncells, 1, sizeof(int));
swap_buffer((char *)dim, 3, sizeof(unsigned int));
swap_buffer((char *)orig, 3, sizeof(float));
swap_buffer((char *)span, 3, sizeof(float));
}
//#endif
for (k=0; k<ZDIM; k++)
for (j=0; j<YDIM; j++)
for (i=0; i<XDIM; i++) {
c_float = result[IndexVect(i,j,k)];
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
swap_buffer((char *)&c_float, 1, sizeof(float));
//#endif
fwrite_return = fwrite(&c_float, sizeof(float), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
swap_buffer((char *)&c_float, 1, sizeof(float));
//#endif
}
fclose(fp);
}
#if 0
void write_rawv(int XDIM, int YDIM, int ZDIM, float *dataset,
unsigned char *result, FILE* fp, FILE* fp2)
{
int i, j, k;
unsigned char c;
// float c_float;
unsigned char c_unchar;
unsigned int MagicNumW=0xBAADBEEF;
unsigned int NumTimeStep, NumVariable;
float MinXYZT[4], MaxXYZT[4];
unsigned char VariableType[100];
char *VariableName[100];
int m;
NumTimeStep = 1;
NumVariable = 4;
MinXYZT[0]=0;
MinXYZT[1]=0;
MinXYZT[2]=0;
MinXYZT[3]=0;
MaxXYZT[0]=XDIM-1.f;
MaxXYZT[1]=YDIM-1.f;
MaxXYZT[2]=ZDIM-1.f;
MaxXYZT[3]=1;
VariableType[0] = 1;
VariableName[0] = (char*)malloc(sizeof(char)*64);
strcpy (VariableName[0], "red\n");
VariableType[1] = 1;
VariableName[1] = (char*)malloc(sizeof(char)*64);
strcpy (VariableName[1], "green");
VariableType[2] = 1;
VariableName[2] = (char*)malloc(sizeof(char)*64);
strcpy (VariableName[2], "blue");
VariableType[3] = 1;
VariableName[3] = (char*)malloc(sizeof(char)*64);
strcpy (VariableName[3], "alpha");
fwrite(&MagicNumW, sizeof(unsigned int), 1, fp2);
fwrite(&XDIM, sizeof(unsigned int), 1, fp2);
fwrite(&YDIM, sizeof(unsigned int), 1, fp2);
fwrite(&ZDIM, sizeof(unsigned int), 1, fp2);
fwrite(&NumTimeStep, sizeof(unsigned int), 1, fp2);
fwrite(&NumVariable, sizeof(unsigned int), 1, fp2);
fwrite(MinXYZT, sizeof(float), 4, fp2);
fwrite(MaxXYZT, sizeof(float), 4, fp2);
for (m=0; m<(int)NumVariable; m++) {
fwrite(&VariableType[m], sizeof(unsigned char), 1, fp2);
fwrite(&VariableName[m], sizeof(unsigned char), 64, fp2);
}
for (k=0; k<ZDIM; k++)
for (j=0; j<YDIM; j++)
for (i=0; i<XDIM; i++) {
c = result[IndexVect(i,j,k)];
if (c == 1) {
c_unchar = 255/*dataset[IndexVect(i,j,k)]/255.0*/;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else if (c == 2) {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
}
for (k=0; k<ZDIM; k++)
for (j=0; j<YDIM; j++)
for (i=0; i<XDIM; i++) {
c = result[IndexVect(i,j,k)];
if (c == 1) {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else if (c == 2) {
c_unchar = 255/*dataset[IndexVect(i,j,k)]/255.0*/;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
}
for (k=0; k<ZDIM; k++)
for (j=0; j<YDIM; j++)
for (i=0; i<XDIM; i++) {
c = result[IndexVect(i,j,k)];
if (c == 1) {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else if (c == 2) {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
}
for (k=0; k<ZDIM; k++)
for (j=0; j<YDIM; j++)
for (i=0; i<XDIM; i++) {
c = result[IndexVect(i,j,k)];
if (c == 1) {
c_unchar = 255/*(dataset[IndexVect(i,j,k)]-125)/130.0*/;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else if (c == 2) {
c_unchar = 255/*(dataset[IndexVect(i,j,k)]-125)/130.0*/;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
else {
c_unchar = 0;
fwrite(&c_unchar, sizeof(u_char), 1, fp2);
}
}
fclose(fp2);
}
#endif
};
void read_data(int *xd, int *yd, int *zd, float **data,
/*float *span_t, float *orig_t,*/ const char *input_name)
{
float c_float;
unsigned char c_unchar;
unsigned short c_unshort;
int i,j,k;
float *dataset;
struct stat filestat;
size_t size[3];
int datatype = 0;
int found;
FILE *fp;
size_t fread_return=0;
if ((fp=fopen(input_name, "rb"))==NULL){
printf("read error...\n");
exit(0);
}
stat(input_name, &filestat);
/* reading RAWIV header */
fread_return = fread(minext, sizeof(float), 3, fp);
fread_return = fread(maxext, sizeof(float), 3, fp);
fread_return = fread(&nverts, sizeof(int), 1, fp);
fread_return = fread(&ncells, sizeof(int), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
{
swap_buffer((char *)minext, 3, sizeof(float));
swap_buffer((char *)maxext, 3, sizeof(float));
swap_buffer((char *)&nverts, 1, sizeof(int));
swap_buffer((char *)&ncells, 1, sizeof(int));
}
//#endif
size[0] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(unsigned int) +
nverts * sizeof(unsigned char);
size[1] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(unsigned int) +
nverts * sizeof(unsigned short);
size[2] = 12 * sizeof(float) + 2 * sizeof(int) + 3 * sizeof(unsigned int) +
nverts * sizeof(float);
found = 0;
for (i = 0; i < 3; i++)
if (size[i] == (unsigned int)filestat.st_size)
{
if (found == 0)
{
datatype = i;
found = 1;
}
}
if (found == 0)
{
printf("Corrupted file or unsupported dataset type\n");
exit(5);
}
fread_return = fread(dim, sizeof(unsigned int), 3, fp);
fread_return = fread(orig, sizeof(float), 3, fp);
fread_return = fread(span, sizeof(float), 3, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
{
swap_buffer((char *)dim, 3, sizeof(unsigned int));
swap_buffer((char *)orig, 3, sizeof(float));
swap_buffer((char *)span, 3, sizeof(float));
}
//#endif
/*
span_t[0] = span[0];
span_t[1] = span[1];
span_t[2] = span[2];
orig_t[0] = orig[0];
orig_t[1] = orig[1];
orig_t[2] = orig[2];
*/
XDIM = dim[0];
YDIM = dim[1];
ZDIM = dim[2];
dataset = (float *)malloc(sizeof(float)*XDIM*YDIM*ZDIM);
maxraw = -99999999.f;
minraw = 99999999.f;
if (datatype == 0) {
printf("data type: unsigned char \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread_return = fread(&c_unchar, sizeof(unsigned char), 1, fp);
dataset[IndexVect(k,j,i)]=(float)c_unchar;
if (c_unchar > maxraw)
maxraw = c_unchar;
if (c_unchar < minraw)
minraw = c_unchar;
}
}
else if (datatype == 1) {
printf("data type: unsigned short \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread_return = fread(&c_unshort, sizeof(unsigned short), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
swap_buffer((char *)&c_unshort, 1, sizeof(unsigned short));
//#endif
dataset[IndexVect(k,j,i)]=(float)c_unshort;
if (c_unshort > maxraw)
maxraw = c_unshort;
if (c_unshort < minraw)
minraw = c_unshort;
}
}
else if (datatype == 2) {
printf("data type: float \n");
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++) {
fread_return = fread(&c_float, sizeof(float), 1, fp);
//#ifdef _LITTLE_ENDIAN
if(!big_endian())
swap_buffer((char *)&c_float, 1, sizeof(float));
//#endif
dataset[IndexVect(k,j,i)]=c_float;
if (c_float > maxraw)
maxraw = c_float;
if (c_float < minraw)
minraw = c_float;
}
}
else {
printf("error\n");
fclose(fp);
exit(1);
}
fclose(fp);
for (i=0; i<ZDIM; i++)
for (j=0; j<YDIM; j++)
for (k=0; k<XDIM; k++)
dataset[IndexVect(k,j,i)] = 255*(dataset[IndexVect(k,j,i)] -
minraw)/(maxraw-minraw);
printf("minimum = %f, maximum = %f \n",minraw,maxraw);
*xd = XDIM;
*yd = YDIM;
*zd = ZDIM;
*data = dataset;
loadedVolumeInfo.read(input_name);
}
