void FnirtFileWriter::common_coef_construction(const string& fname,
const basisfield& fieldx,
const basisfield& fieldy,
const basisfield& fieldz,
const Matrix& aff)
{
volume4D<float> coefs(fieldx.CoefSz_x(),fieldx.CoefSz_y(),fieldx.CoefSz_z(),3);
vector<float> ksp(3,1.0);
try {
const splinefield& f = dynamic_cast<const splinefield& >(fieldx);
ksp[0] = float(f.Ksp_x()); ksp[1] = float(f.Ksp_y()); ksp[2] = float(f.Ksp_z());
if (f.Order() == 2) coefs.set_intent(FSL_QUADRATIC_SPLINE_COEFFICIENTS,f.Vxs_x(),f.Vxs_y(),f.Vxs_z());
else if (f.Order() == 3) coefs.set_intent(FSL_CUBIC_SPLINE_COEFFICIENTS,f.Vxs_x(),f.Vxs_y(),f.Vxs_z());
}
catch (...) {
try {
const dctfield& f = dynamic_cast<const dctfield& >(fieldx);
coefs.set_intent(FSL_DCT_COEFFICIENTS,f.Vxs_x(),f.Vxs_y(),f.Vxs_z());
throw FnirtFileWriterException("common_coef_construction: Saving of DCT coefficients not yet implemented");
}
catch (...) {
throw FnirtFileWriterException("common_coef_construction: Unknown field type");
}
}
coefs.setxdim(ksp[0]); coefs.setydim(ksp[1]); coefs.setzdim(ksp[2]);
Matrix qform(4,4);
qform = IdentityMatrix(4);
qform(1,4) = fieldx.FieldSz_x();
qform(2,4) = fieldx.FieldSz_y();
qform(3,4) = fieldx.FieldSz_z();
coefs.set_qform(NIFTI_XFORM_SCANNER_ANAT,qform);
coefs.set_sform(NIFTI_XFORM_SCANNER_ANAT,aff);
vector<shared_ptr<ColumnVector> > coefp(3);
coefp[0]=fieldx.GetCoef(); coefp[1]=fieldy.GetCoef(); coefp[2]=fieldz.GetCoef();
for (unsigned int v=0; v<3; v++) {
ColumnVector c = *(coefp[v]);
for (unsigned int k=0, vindx=0; k<fieldx.CoefSz_z(); k++) {
for (unsigned int j=0; j<fieldx.CoefSz_y(); j++) {
for (unsigned int i=0; i<fieldx.CoefSz_x(); i++) {
coefs(i,j,k,v) = c.element(vindx++);
}
}
}
}
save_orig_volume4D(coefs,fname);
}
