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#include "ImageWrapperBase.h"
#include "itkImageBase.h"
#include "IRISException.h"
vnl_matrix_fixed<double, 4, 4>
ImageWrapperBase
::ConstructNiftiSform(vnl_matrix<double> m_dir,
vnl_vector<double> v_origin,
vnl_vector<double> v_spacing)
{
// Set the NIFTI/RAS transform
vnl_matrix<double> m_ras_matrix;
vnl_diag_matrix<double> m_scale, m_lps_to_ras;
vnl_vector<double> v_ras_offset;
// Compute the matrix
m_scale.set(v_spacing);
m_lps_to_ras.set(vnl_vector<double>(3, 1.0));
m_lps_to_ras[0] = -1;
m_lps_to_ras[1] = -1;
m_ras_matrix = m_lps_to_ras * m_dir * m_scale;
// Compute the vector
v_ras_offset = m_lps_to_ras * v_origin;
// Create the larger matrix
vnl_vector<double> vcol(4, 1.0);
vcol.update(v_ras_offset);
vnl_matrix_fixed<double,4,4> m_sform;
m_sform.set_identity();
m_sform.update(m_ras_matrix);
m_sform.set_column(3, vcol);
return m_sform;
}
vnl_matrix_fixed<double, 4, 4>
ImageWrapperBase
::ConstructVTKtoNiftiTransform(vnl_matrix<double> m_dir,
vnl_vector<double> v_origin,
vnl_vector<double> v_spacing)
{
vnl_matrix_fixed<double,4,4> vox2nii = ConstructNiftiSform(m_dir, v_origin, v_spacing);
vnl_matrix_fixed<double,4,4> vtk2vox;
vtk2vox.set_identity();
for(size_t i = 0; i < 3; i++)
{
vtk2vox(i,i) = 1.0 / v_spacing[i];
vtk2vox(i,3) = - v_origin[i] / v_spacing[i];
}
return vox2nii * vtk2vox;
}
ScalarRepresentationIterator
::ScalarRepresentationIterator(const VectorImageWrapperBase *wrapper)
: m_Depth(NUMBER_OF_SCALAR_REPS, 1)
{
assert(wrapper->GetNumberOfComponents() > 0);
m_Depth[SCALAR_REP_COMPONENT] = wrapper->GetNumberOfComponents();
m_Current = SCALAR_REP_COMPONENT;
m_Index = 0;
}
ScalarRepresentationIterator &ScalarRepresentationIterator::operator ++()
{
// Once at the end stay at the end
if(m_Current == NUMBER_OF_SCALAR_REPS)
return *this;
// If there is room to grow in current rep, do it
if(m_Index + 1 < m_Depth[(int) m_Current])
{
m_Index++;
}
else
{
m_Current++;
m_Index = 0;
}
return *this;
}
bool ScalarRepresentationIterator::IsAtEnd() const
{
return m_Current == NUMBER_OF_SCALAR_REPS;
}
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