#include <processor.h>
Inheritance diagram for EMAN::TestImageGaussian:


Public Member Functions | |
| virtual void | process_inplace (EMData *image) |
| To process an image in-place. | |
| virtual string | get_name () const |
| Get the processor's name. | |
| virtual string | get_desc () const |
| Get the descrition of this specific processor. | |
| virtual TypeDict | get_param_types () const |
| Get processor parameter information in a dictionary. | |
Static Public Member Functions | |
| Processor * | NEW () |
Static Public Attributes | |
| const string | NAME = "testimage.gaussian" |
| sigma | sigma value for this Gaussian blob | |
| axis | specify a major axis for asymmetric features | |
| c | distance between focus and the center of an ellipse |
Definition at line 6053 of file processor.h.
|
|
Get the descrition of this specific processor. This function must be overwritten by a subclass.
Implements EMAN::Processor. Definition at line 6063 of file processor.h. 06064 {
06065 return "Replace a source image as a Gaussian Blob";
06066 }
|
|
|
Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 6058 of file processor.h. 06059 {
06060 return NAME;
06061 }
|
|
|
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 6073 of file processor.h. References EMAN::TypeDict::put(). 06074 {
06075 TypeDict d;
06076 d.put("sigma", EMObject::FLOAT, "sigma value for this Gaussian blob");
06077 d.put("axis", EMObject::STRING, "specify a major axis for asymmetric features");
06078 d.put("c", EMObject::FLOAT, "distance between focus and the center of an ellipse");
06079 return d;
06080 }
|
|
|
Definition at line 6068 of file processor.h. 06069 {
06070 return new TestImageGaussian();
06071 }
|
|
|
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.
Implements EMAN::Processor. Definition at line 6994 of file processor.cpp. References EMAN::EMData::get_data(), InvalidValueException, nx, ny, EMAN::TestImageProcessor::preprocess(), sqrt(), and EMAN::EMData::update(). 06995 {
06996 preprocess(image);
06997
06998 float sigma = params["sigma"];
06999 string axis = (const char*)params["axis"];
07000 float c = params["c"];
07001
07002 float *dat = image->get_data();
07003 float r; //this is the distance of pixel from the image center(nx/2, ny/2, nz/2)
07004 float x2, y2, z2; //this is the coordinates of this pixel from image center
07005 for (int k = 0; k < nz; ++k) {
07006 for (int j = 0; j < ny; ++j) {
07007 for (int i = 0; i < nx; ++i, ++dat) {
07008 x2 = (float)( i - nx/2 );
07009 y2 = (float)( j - ny/2 );
07010 z2 = (float)( k - nz/2 );
07011
07012 if(axis==""){
07013 r = (float)sqrt(x2*x2+y2*y2+z2*z2);
07014 }
07015 else if(axis == "x"){
07016 float lc = -c;
07017 float rc = c;
07018 r = ( (float)sqrt((x2-lc)*(x2-lc)+y2*y2+z2*z2) +
07019 (float)sqrt((x2-rc)*(x2-rc)+y2*y2+z2*z2) ) /2.0f - c;
07020 }
07021 else if(axis == "y"){
07022 float lc = -c;
07023 float rc = c;
07024 r = ( (float)sqrt(x2*x2+(y2-lc)*(y2-lc)+z2*z2) +
07025 (float)sqrt(x2*x2+(y2-rc)*(y2-rc)+z2*z2) ) /2.0f - c;
07026 }
07027 else if(axis == "z"){
07028 if( nz == 1 ){
07029 throw InvalidValueException(0, "This is a 2D image, no asymmetric feature for z axis");
07030 }
07031 float lc = -c;
07032 float rc = c;
07033 r = ( (float)sqrt(x2*x2+y2*y2+(z2-lc)*(z2-lc)) +
07034 (float)sqrt(x2*x2+y2*y2+(z2-rc)*(z2-rc)) ) /2.0f - c;
07035 }
07036 else{
07037 throw InvalidValueException(0, "please specify a valid axis for asymmetric features");
07038 }
07039 //the amplitude of the pixel is proportional to the distance of this pixel from the center
07040 *dat = (float)gsl_ran_gaussian_pdf((double)r,(double)sigma);
07041 }
07042 }
07043 }
07044
07045 image->update();
07046 }
|
|
|
Definition at line 198 of file processor.cpp. |
1.3.9.1