#include <processor.h>
Inheritance diagram for EMAN::BoxStatProcessor:
Public Member Functions | |
void | process_inplace (EMData *image) |
To process an image in-place. | |
TypeDict | get_param_types () const |
Get processor parameter information in a dictionary. | |
Static Public Member Functions | |
static string | get_group_desc () |
Get the description of this group of processors. | |
Protected Member Functions | |
virtual void | process_pixel (float *pixel, const float *array, int n) const =0 |
These processors compute every output pixel using information from a reduced region on the neighborhood of the input pixel. The classical form are the 3x3 processors. BoxStatProcessors could perform diverse tasks ranging from noise reduction, to differential , to mathematical morphology. BoxStatProcessor class is the base class. Specific BoxStatProcessor needs to define process_pixel(float *pixel, const float *array, int n).
radius | The radius of the search box, default is 1 which results in a 3x3 box (3 = 2xradius + 1) |
Definition at line 2849 of file processor.h.
static string EMAN::BoxStatProcessor::get_group_desc | ( | ) | [inline, static] |
Get the description of this group of processors.
This function is defined in a parent class. It gives a introduction to a group of processors.
Reimplemented from EMAN::Processor.
Definition at line 2854 of file processor.h.
02855 { 02856 return "BoxStatProcessor files are a kind of neighborhood processors. These processors compute every output pixel using information from a reduced region on the neighborhood of the input pixel. The classical form are the 3x3 processors. BoxStatProcessors could perform diverse tasks ranging from noise reduction, to differential , to mathematical morphology. BoxStatProcessor class is the base class. Specific BoxStatProcessor needs to define process_pixel(float *pixel, const float *array, int n)."; 02857 }
TypeDict EMAN::BoxStatProcessor::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.
Reimplemented in EMAN::PeakOnlyProcessor.
Definition at line 2859 of file processor.h.
References EMAN::EMObject::INT, and EMAN::TypeDict::put().
02860 { 02861 TypeDict d; 02862 d.put("radius", EMObject::INT, "The radius of the search box, default is 1 which results in a 3x3 box (3 = 2xradius + 1)"); 02863 return d; 02864 }
void BoxStatProcessor::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 1670 of file processor.cpp.
References data, EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), LOGWARN, nx, ny, EMAN::Processor::params, process_pixel(), EMAN::Dict::set_default(), and EMAN::EMData::update().
01671 { 01672 if (!image) { 01673 LOGWARN("NULL Image"); 01674 return; 01675 } 01676 01677 int nx = image->get_xsize(); 01678 int ny = image->get_ysize(); 01679 int nz = image->get_zsize(); 01680 01681 int n = params.set_default("radius",1); 01682 int areasize = 2 * n + 1; 01683 01684 int matrix_size = areasize * areasize; 01685 if (nz > 1) { 01686 matrix_size *= areasize; 01687 } 01688 01689 float *array = new float[matrix_size]; 01690 // image->process_inplace("normalize"); 01691 01692 float *data = image->get_data(); 01693 size_t total_size = (size_t)nx * (size_t)ny * (size_t)nz; 01694 float *data2 = new float[total_size]; 01695 memcpy(data2, data, total_size * sizeof(float)); 01696 01697 int z_begin = 0; 01698 int z_end = 1; 01699 int nzz=0; 01700 if (nz > 1) { 01701 z_begin = n; 01702 z_end = nz - n; 01703 nzz=n; 01704 } 01705 01706 int nxy = nx * ny; 01707 01708 for (int k = z_begin; k < z_end; k++) { 01709 size_t knxy = (size_t)k * nxy; 01710 01711 for (int j = n; j < ny - n; j++) { 01712 int jnx = j * nx; 01713 01714 for (int i = n; i < nx - n; i++) { 01715 size_t s = 0; 01716 01717 for (int i2 = i - n; i2 <= i + n; i2++) { 01718 for (int j2 = j - n; j2 <= j + n; j2++) { 01719 for (int k2 = k - nzz; k2 <= k + nzz; k2++) { 01720 array[s] = data2[i2 + j2 * nx + (size_t)k2 * nxy]; 01721 ++s; 01722 } 01723 } 01724 } 01725 01726 process_pixel(&data[i + jnx + knxy], array, matrix_size); 01727 } 01728 } 01729 } 01730 01731 image->update(); 01732 01733 if( data2 ) 01734 { 01735 delete[]data2; 01736 data2 = 0; 01737 } 01738 }
virtual void EMAN::BoxStatProcessor::process_pixel | ( | float * | pixel, | |
const float * | array, | |||
int | n | |||
) | const [protected, pure virtual] |
Implemented in EMAN::BoxMedianProcessor, EMAN::BoxSigmaProcessor, EMAN::BoxMaxProcessor, EMAN::MinusPeakProcessor, and EMAN::PeakOnlyProcessor.
Referenced by process_inplace().