#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 2820 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 2842 of file processor.h.
02843 { 02844 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()."; 02845 }
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 2835 of file processor.h.
References EMAN::EMObject::INT, and EMAN::TypeDict::put().
02836 { 02837 TypeDict d; 02838 d.put("areasize", EMObject::INT, "The width of the area to process (not radius)"); 02839 return d; 02840 }
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 1558 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.
01559 { 01560 if (!image) { 01561 LOGWARN("NULL Image"); 01562 return; 01563 } 01564 01565 float *data = image->get_data(); 01566 01567 nx = image->get_xsize(); 01568 ny = image->get_ysize(); 01569 nz = image->get_zsize(); 01570 01571 int n = (areasize - 1) / 2; 01572 matrix_size = areasize * areasize; 01573 01574 if (nz > 1) { 01575 matrix_size *= areasize; 01576 } 01577 01578 float *matrix = new float[matrix_size]; 01579 kernel = new float[matrix_size]; 01580 01581 size_t cpysize = areasize * sizeof(float); 01582 size_t start = (nx * ny + nx + 1) * n; 01583 01584 int xend = nx - n; 01585 int yend = ny - n; 01586 01587 int zstart = n; 01588 int zend = nz - n; 01589 01590 int zbox_start = 0; 01591 int zbox_end = areasize; 01592 01593 if (nz == 1) { 01594 zstart = 0; 01595 zend = 1; 01596 zbox_end = 1; 01597 } 01598 01599 size_t nsec = (size_t)nx * (size_t)ny; 01600 int box_nsec = areasize * areasize; 01601 01602 create_kernel(); 01603 01604 size_t total_size = (size_t)nx * (size_t)ny * (size_t)nz; 01605 float *data2 = new float[total_size]; 01606 memcpy(data2, data, total_size * sizeof(float)); 01607 01608 size_t k; 01609 for (int z = zstart; z < zend; z++) { 01610 for (int y = n; y < yend; y++) { 01611 for (int x = n; x < xend; x++) { 01612 01613 k = (size_t)z * nsec + y * nx + x; 01614 01615 for (int bz = zbox_start; bz < zbox_end; bz++) { 01616 for (int by = 0; by < areasize; by++) { 01617 memcpy(&matrix[(size_t)bz * box_nsec + by * areasize], 01618 &data2[k - start + bz * nsec + by * nx], cpysize); 01619 } 01620 } 01621 01622 process_pixel(&data[k], (float) x, (float) y, (float) z, matrix); 01623 } 01624 } 01625 } 01626 01627 if( matrix ) 01628 { 01629 delete[]matrix; 01630 matrix = 0; 01631 } 01632 01633 if( kernel ) 01634 { 01635 delete[]kernel; 01636 kernel = 0; 01637 } 01638 image->update(); 01639 }
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 2848 of file processor.h.
References kernel, and matrix_size.
Referenced by process_inplace().
02849 { 02850 for (int i = 0; i < matrix_size; i++) 02851 { 02852 *pixel += area_matrix[i] * kernel[i]; 02853 } 02854 }
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 2829 of file processor.h.
References areasize, and EMAN::Processor::params.
int EMAN::AreaProcessor::areasize [protected] |
Definition at line 2858 of file processor.h.
Referenced by EMAN::LaplacianProcessor::create_kernel(), process_inplace(), and set_params().
float* EMAN::AreaProcessor::kernel [protected] |
Definition at line 2860 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 2863 of file processor.h.
Referenced by EMAN::LaplacianProcessor::create_kernel(), and process_inplace().