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lens_modulation.cuh
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lens_modulation.cuh
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#ifndef LENS_MODULATION_H
#define LENS_MODULATION_H
#include "host_basic_def.hpp"
#include "device_basic_def.cuh"
#include "device_kernels.cuh"
#include "multislice_params_dev.cuh"
namespace cudaEM
{
template <class T>
class Lens_Modulation
{
public:
Lens_Modulation() : multisliceparam_ptr(nullptr) {}
~Lens_Modulation()
{
cudaFree(exit_wave_ptr);
}
void set_input_data(multislice_params_dev<T> *input_multislice_i)
{
multisliceparam_ptr = input_multislice_i;
fft_2d_ptr = &input_multislice_i->fft_trans_dev;
grid_dev_ptr = &input_multislice_i->grid_dev;
OL_dev_ptr = &input_multislice_i->obj_lens_dev;
pixel_num = grid_dev_ptr->Grid_size();
Blk_Dim_2D = input_multislice_i->Blk_Dim_2D;
Grd_Dim_2D = input_multislice_i->Grd_Dim_2D;
Blk_Dim_1D = input_multislice_i->Blk_Dim_1D;
Grd_Dim_1D = input_multislice_i->Grd_Dim_1D;
cudaMalloc((void**)&exit_wave_ptr, sizeof(T_complex<T>)*pixel_num);
/*********************************************************/
qt_ptr = &input_multislice_i->temporal_quard;
qs_ptr = &input_multislice_i->spatial_quard;
}
void operator()(T_complex<T>* wave_ptr, T* intensity_ptr)
{
switch (multisliceparam_ptr->illumination_model)
{
case eIM_Coherent:
{
CTF_TEM(wave_ptr, intensity_ptr);
}
break;
case eIM_Partial_Coherent:
{
PCTF_TEM(multisliceparam_ptr->temp_spat_incoh, wave_ptr, intensity_ptr);
}
break;
case eIM_Trans_Cross_Coef:
{
TCC_TEM(multisliceparam_ptr->temp_spat_incoh, wave_ptr, intensity_ptr);
}
break;
}
}
void operator()(T_complex<T>* wave_ptr, T* real_ptr, T* imag_ptr)
{
switch (multisliceparam_ptr->illumination_model)
{
case eIM_Coherent:
{
CTF_TEM(wave_ptr, real_ptr, imag_ptr);
}
break;
case eIM_Partial_Coherent:
{
PCTF_TEM(multisliceparam_ptr->temp_spat_incoh, wave_ptr, real_ptr, imag_ptr);
}
break;
case eIM_Trans_Cross_Coef:
{
TCC_TEM(multisliceparam_ptr->temp_spat_incoh, wave_ptr, real_ptr, imag_ptr);
}
break;
}
}
private:
/******************************************************************/
void CTF_TEM(T_complex<T>* wave_ptr, T* intensity_ptr)
{
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, 0, 0, wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
wave_amplitude<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (exit_wave_ptr, intensity_ptr, pixel_num);
}
void CTF_TEM(T_complex<T>* wave_ptr, T* real_ptr, T* imag_ptr)
{
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, 0, 0, wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
wave_spliter<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (exit_wave_ptr, real_ptr, imag_ptr, pixel_num);
}
/******************************************************************/
void PCTF_TEM(const eTemporal_Spatial_Incoh &temporal_spatial_incoh, T_complex<T>* wave_ptr, T* intensity_ptr)
{
T dsf_sigma = OL_dev_ptr->dsf_sigma;
T ssf_beta = OL_dev_ptr->ssf_beta;
if (temporal_spatial_incoh == eTSI_Temporal)
{
OL_dev_ptr->set_ssf_sigma(0);
}
if (temporal_spatial_incoh == eTSI_Spatial)
{
OL_dev_ptr->set_dsf_sigma(0);
}
apply_PCTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
wave_amplitude<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (exit_wave_ptr, intensity_ptr, pixel_num);
OL_dev_ptr->set_dsf_sigma(dsf_sigma);
OL_dev_ptr->set_ssf_sigma(ssf_beta);
}
/******************************************************************/
void PCTF_TEM(const eTemporal_Spatial_Incoh &temporal_spatial_incoh, T_complex<T>* wave_ptr, T* real_ptr, T* imag_ptr)
{
T dsf_sigma = OL_dev_ptr->dsf_sigma;
T ssf_beta = OL_dev_ptr->ssf_beta;
if (temporal_spatial_incoh == eTSI_Temporal)
{
OL_dev_ptr->set_ssf_sigma(0);
}
if (temporal_spatial_incoh == eTSI_Spatial)
{
OL_dev_ptr->set_dsf_sigma(0);
}
apply_PCTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
wave_spliter<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (exit_wave_ptr, real_ptr, imag_ptr, pixel_num);
OL_dev_ptr->set_dsf_sigma(dsf_sigma);
OL_dev_ptr->set_ssf_sigma(ssf_beta);
}
void TCC_TEM(const eTemporal_Spatial_Incoh &temporal_spatial_incoh, T_complex<T>* wave_ptr, T* intensity_ptr)
{
T c_10_0 = OL_dev_ptr->c_10;
cudaMemset(intensity_ptr, 0, sizeof(T)*pixel_num);
switch (temporal_spatial_incoh)
{
case eTSI_Temporal_Spatial: // Temporal and Spatial
{
for (auto i = 0; i < qs_ptr->size(); i++)
{
for (auto j = 0; j < qt_ptr->size(); j++)
{
auto c_10 = OL_dev_ptr->dsf_iehwgd*qt_ptr->x[j] + c_10_0;
OL_dev_ptr->set_defocus(c_10);
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, qs_ptr->x[i], qs_ptr->y[i], wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
add_scale_square<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (qs_ptr->w[i] * qt_ptr->w[j], exit_wave_ptr, intensity_ptr, pixel_num);
}
}
}
break;
case eTSI_Temporal:// Temporal
{
for (auto j = 0; j < qt_ptr->size(); j++)
{
auto c_10 = OL_dev_ptr->dsf_iehwgd*qt_ptr->x[j] + c_10_0;
OL_dev_ptr->set_defocus(c_10);
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, 0.0, 0.0, wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
add_scale_square<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (qt_ptr->w[j], exit_wave_ptr, intensity_ptr, pixel_num);
}
}
break;
case eTSI_Spatial:// Spatial
{
for (auto i = 0; i < qs_ptr->size(); i++)
{
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, qs_ptr->x[i], qs_ptr->y[i], wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
add_scale_square<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (qs_ptr->w[i], exit_wave_ptr, intensity_ptr, pixel_num);
}
}
break;
}
OL_dev_ptr->set_defocus(c_10_0);
}
void TCC_TEM(const eTemporal_Spatial_Incoh &temporal_spatial_incoh, T_complex<T>* wave_ptr, T* real_ptr, T* imag_ptr)
{
T c_10_0 = OL_dev_ptr->c_10;
set_intensity_val_kernel<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (real_ptr, T(0.0), pixel_num);
set_intensity_val_kernel<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (imag_ptr, T(0.0), pixel_num);
switch (temporal_spatial_incoh)
{
case eTSI_Temporal_Spatial: // Temporal and Spatial
{
for (auto i = 0; i < qs_ptr->size(); i++)
{
for (auto j = 0; j < qt_ptr->size(); j++)
{
auto c_10 = OL_dev_ptr->dsf_iehwgd*qt_ptr->x[j] + c_10_0;
OL_dev_ptr->set_defocus(c_10);
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, qs_ptr->x[i], qs_ptr->y[i], wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
add_scale_components<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (qs_ptr->w[i] * qt_ptr->w[j], exit_wave_ptr, real_ptr, imag_ptr, pixel_num);
}
}
}
break;
case eTSI_Temporal: // Temporal
{
for (auto j = 0; j < qt_ptr->size(); j++)
{
auto c_10 = OL_dev_ptr->dsf_iehwgd*qt_ptr->x[j] + c_10_0;
OL_dev_ptr->set_defocus(c_10);
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, 0.0, 0.0, wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
add_scale_components<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (qt_ptr->w[j], exit_wave_ptr, real_ptr, imag_ptr, pixel_num);
}
}
break;
case eTSI_Spatial: // Spatial
{
for (auto i = 0; i < qs_ptr->size(); i++)
{
apply_CTF_kernel<T> << <Grd_Dim_2D, Blk_Dim_2D >> > (*grid_dev_ptr, *OL_dev_ptr, qs_ptr->x[i], qs_ptr->y[i], wave_ptr, exit_wave_ptr);
fft_2d_ptr->inverse(exit_wave_ptr);
add_scale_components<T> << <Grd_Dim_1D, Blk_Dim_1D >> > (qs_ptr->w[i], exit_wave_ptr, real_ptr, imag_ptr, pixel_num);
}
}
break;
}
OL_dev_ptr->set_defocus(c_10_0);
}
multislice_params_dev<T> *multisliceparam_ptr;
Grid_2d_Dev<T>* grid_dev_ptr;
Lens_Dev<T>* OL_dev_ptr;
FFT_Dev<T> *fft_2d_ptr;
T_complex<T>* exit_wave_ptr;
private:
size_t pixel_num;
Quad_1d<T> *qt_ptr;
Quad_2d<T> *qs_ptr;
dim3 Blk_Dim_2D, Grd_Dim_2D;
dim3 Blk_Dim_1D, Grd_Dim_1D;
};
}
#endif