#include <processor.h>
Inheritance diagram for EMAN::AreaProcessor:
Public Member Functions | |
AreaProcessor () | |
void | process_inplace (EMData *image) |
To process an image in-place. | |
void | set_params (const Dict &new_params) |
Set the processor parameters using a key/value dictionary. | |
TypeDict | get_param_types () const |
Get processor parameter information in a dictionary. | |
string | get_desc () const |
Get the descrition of this specific processor. | |
Protected Member Functions | |
virtual void | process_pixel (float *pixel, float, float, float, float *area_matrix) const |
virtual void | create_kernel () const =0 |
Protected Attributes | |
int | areasize |
int | matrix_size |
float * | kernel |
int | nx |
int | ny |
int | nz |
This is the base class. Specific AreaProcessor needs to implement function create_kernel().
areasize | The width of the area to process (not radius) |
Definition at line 2786 of file processor.h.
EMAN::AreaProcessor::AreaProcessor | ( | ) | [inline] |
virtual void EMAN::AreaProcessor::create_kernel | ( | ) | const [protected, pure virtual] |
Implemented in EMAN::LaplacianProcessor, and EMAN::ZeroConstantProcessor.
Referenced by process_inplace().
string EMAN::AreaProcessor::get_desc | ( | ) | const [inline, virtual] |
Get the descrition of this specific processor.
This function must be overwritten by a subclass.
Implements EMAN::Processor.
Reimplemented in EMAN::LaplacianProcessor, and EMAN::ZeroConstantProcessor.
Definition at line 2808 of file processor.h.
02809 { 02810 return "AreaProcessor use pixel values and coordinates of a real-space square area. This is the base class. Specific AreaProcessor needs to implement function create_kernel()."; 02811 }
TypeDict EMAN::AreaProcessor::get_param_types | ( | ) | const [inline, virtual] |
Get processor parameter information in a dictionary.
Each parameter has one record in the dictionary. Each record contains its name, data-type, and description.
Reimplemented from EMAN::Processor.
Definition at line 2801 of file processor.h.
References EMAN::EMObject::INT, and EMAN::TypeDict::put().
02802 { 02803 TypeDict d; 02804 d.put("areasize", EMObject::INT, "The width of the area to process (not radius)"); 02805 return d; 02806 }
void AreaProcessor::process_inplace | ( | EMData * | image | ) | [virtual] |
To process an image in-place.
For those processors which can only be processed out-of-place, override this function to just print out some error message to remind user call the out-of-place version.
image | The image to be processed. |
Implements EMAN::Processor.
Definition at line 1595 of file processor.cpp.
References areasize, create_kernel(), data, EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), kernel, LOGWARN, matrix(), matrix_size, nx, ny, nz, process_pixel(), EMAN::EMData::update(), x, and y.
01596 { 01597 if (!image) { 01598 LOGWARN("NULL Image"); 01599 return; 01600 } 01601 01602 float *data = image->get_data(); 01603 01604 nx = image->get_xsize(); 01605 ny = image->get_ysize(); 01606 nz = image->get_zsize(); 01607 01608 int n = (areasize - 1) / 2; 01609 matrix_size = areasize * areasize; 01610 01611 if (nz > 1) { 01612 matrix_size *= areasize; 01613 } 01614 01615 float *matrix = new float[matrix_size]; 01616 kernel = new float[matrix_size]; 01617 01618 size_t cpysize = areasize * sizeof(float); 01619 size_t start = (nx * ny + nx + 1) * n; 01620 01621 int xend = nx - n; 01622 int yend = ny - n; 01623 01624 int zstart = n; 01625 int zend = nz - n; 01626 01627 int zbox_start = 0; 01628 int zbox_end = areasize; 01629 01630 if (nz == 1) { 01631 zstart = 0; 01632 zend = 1; 01633 zbox_end = 1; 01634 } 01635 01636 size_t nsec = (size_t)nx * (size_t)ny; 01637 int box_nsec = areasize * areasize; 01638 01639 create_kernel(); 01640 01641 size_t total_size = (size_t)nx * (size_t)ny * (size_t)nz; 01642 float *data2 = new float[total_size]; 01643 memcpy(data2, data, total_size * sizeof(float)); 01644 01645 size_t k; 01646 for (int z = zstart; z < zend; z++) { 01647 for (int y = n; y < yend; y++) { 01648 for (int x = n; x < xend; x++) { 01649 01650 k = (size_t)z * nsec + y * nx + x; 01651 01652 for (int bz = zbox_start; bz < zbox_end; bz++) { 01653 for (int by = 0; by < areasize; by++) { 01654 memcpy(&matrix[(size_t)bz * box_nsec + by * areasize], 01655 &data2[k - start + bz * nsec + by * nx], cpysize); 01656 } 01657 } 01658 01659 process_pixel(&data[k], (float) x, (float) y, (float) z, matrix); 01660 } 01661 } 01662 } 01663 01664 if( matrix ) 01665 { 01666 delete[]matrix; 01667 matrix = 0; 01668 } 01669 01670 if( kernel ) 01671 { 01672 delete[]kernel; 01673 kernel = 0; 01674 } 01675 image->update(); 01676 }
virtual void EMAN::AreaProcessor::process_pixel | ( | float * | pixel, | |
float | , | |||
float | , | |||
float | , | |||
float * | area_matrix | |||
) | const [inline, protected, virtual] |
Reimplemented in EMAN::ZeroConstantProcessor.
Definition at line 2814 of file processor.h.
References kernel, and matrix_size.
Referenced by process_inplace().
02815 { 02816 for (int i = 0; i < matrix_size; i++) 02817 { 02818 *pixel += area_matrix[i] * kernel[i]; 02819 } 02820 }
void EMAN::AreaProcessor::set_params | ( | const Dict & | new_params | ) | [inline, virtual] |
Set the processor parameters using a key/value dictionary.
new_params | A dictionary containing the new parameters. |
Reimplemented from EMAN::Processor.
Definition at line 2795 of file processor.h.
References areasize, and EMAN::Processor::params.
int EMAN::AreaProcessor::areasize [protected] |
Definition at line 2824 of file processor.h.
Referenced by EMAN::LaplacianProcessor::create_kernel(), process_inplace(), and set_params().
float* EMAN::AreaProcessor::kernel [protected] |
Definition at line 2826 of file processor.h.
Referenced by EMAN::LaplacianProcessor::create_kernel(), process_inplace(), and process_pixel().
int EMAN::AreaProcessor::matrix_size [protected] |
int EMAN::AreaProcessor::nx [protected] |
int EMAN::AreaProcessor::ny [protected] |
int EMAN::AreaProcessor::nz [protected] |
Definition at line 2829 of file processor.h.
Referenced by EMAN::LaplacianProcessor::create_kernel(), and process_inplace().