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EMAN::IterBinMaskProcessor Class Reference

Iterative expansion of a binary mask, val1 is number of pixels to expand, if val2!=0 will make a soft Gaussian edge starting after val2 pixels. More...

#include <processor.h>

Inheritance diagram for EMAN::IterBinMaskProcessor:

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Collaboration diagram for EMAN::IterBinMaskProcessor:

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List of all members.

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

ProcessorNEW ()

Static Public Attributes

const string NAME = "mask.addshells.gauss"

Detailed Description

Iterative expansion of a binary mask, val1 is number of pixels to expand, if val2!=0 will make a soft Gaussian edge starting after val2 pixels.

Parameters:
val1 number of pixels to expand
val2 number of Gaussian pixels to expand, following the first expansion

Definition at line 5815 of file processor.h.


Member Function Documentation

virtual string EMAN::IterBinMaskProcessor::get_desc  )  const [inline, virtual]
 

Get the descrition of this specific processor.

This function must be overwritten by a subclass.

Returns:
The description of this processor.

Implements EMAN::Processor.

Definition at line 5825 of file processor.h.

05826                 {
05827                         return "Iterative expansion of a binary mask, val1 is number of pixels to expand, if val2!=0 will make a soft Gaussian edge starting after val2 pixels.";
05828                 }

virtual string EMAN::IterBinMaskProcessor::get_name  )  const [inline, virtual]
 

Get the processor's name.

Each processor is identified by a unique name.

Returns:
The processor's name.

Implements EMAN::Processor.

Definition at line 5820 of file processor.h.

05821                 {
05822                         return NAME;
05823                 }

virtual TypeDict EMAN::IterBinMaskProcessor::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.

Returns:
A dictionary containing the parameter info.

Reimplemented from EMAN::Processor.

Definition at line 5835 of file processor.h.

References EMAN::TypeDict::put().

05836                 {
05837                         TypeDict d;
05838                         d.put("val1", EMObject::FLOAT, "number of pixels to expand");
05839                         d.put("val2", EMObject::FLOAT, "number of Gaussian pixels to expand, following the first expansion");
05840                         return d;
05841                 }

Processor* EMAN::IterBinMaskProcessor::NEW  )  [inline, static]
 

Definition at line 5830 of file processor.h.

05831                 {
05832                         return new IterBinMaskProcessor();
05833                 }

void IterBinMaskProcessor::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.

Parameters:
image The image to be processed.

Implements EMAN::Processor.

Definition at line 6731 of file processor.cpp.

References EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), LOGWARN, nx, ny, t, and EMAN::EMData::update().

06732 {
06733         if (!image) {
06734                 LOGWARN("NULL Image");
06735                 return;
06736         }
06737 
06738         float val1 = params["val1"];
06739         float val2 = params["val2"];
06740 
06741         int nx = image->get_xsize();
06742         int ny = image->get_ysize();
06743         int nz = image->get_zsize();
06744         EMData *image2 = new EMData(nx,ny,nz);
06745 
06746         // Got a compile warning complaining that these things were never used. Hope I didn't break anything - apologies if so (d.woolford)
06747 //      float *dat = image->get_data();
06748 //      float *dat2 = image2->get_data();
06749 
06750 
06751         float *d = image->get_data();
06752         float *d2 = image2->get_data();
06753 
06754         const int nxy = nx * ny;
06755         size_t size = (size_t)nx * ny * nz;
06756 
06757         // TODO: THIS IS EXTREMELY INEFFICIENT
06758         if (nz != 1) {
06759                 for (int l = 1; l <= (int) val1+val2; ++l) {
06760                         for (size_t i=0; i<size; i++) d2[i]=d[i];
06761                         for (int k = 1; k < nz - 1; ++k) {
06762                                 for (int j = 1; j < ny - 1; ++j) {
06763                                         for (int i = 1; i < nx - 1; ++i) {
06764                                                 size_t t = i + j*nx+(size_t)k*nx*ny;
06765                                                 if (d[t]) continue;
06766                                                 if (d2[t - 1] || d2[t + 1] || d2[t + nx] || d2[t - nx] || d2[t + nxy] || d2[t - nxy]) d[t] = (float) l + 1;
06767                                         }
06768                                 }
06769                         }
06770                 }
06771         }
06772         else {
06773                 for (int l = 1; l <= (int) val1+val2; ++l) {
06774                         for (size_t i=0; i<size; i++) d2[i]=d[i];
06775                         for (int j = 1; j < ny - 1; ++j) {
06776                                 for (int i = 1; i < nx - 1; ++i) {
06777                                         size_t t = i + j * nx;
06778                                         if (d[t]) continue;
06779                                         if (d2[t - 1] || d2[t + 1] || d2[t + nx] || d2[t - nx]) d[t] = (float) l + 1;
06780                                 }
06781                         }
06782                 }
06783         }
06784 
06785         vector<float> vec;
06786         for (int i=0; i<val1+2; i++) vec.push_back(1.0);
06787         for (int i=0; i<val2; i++) {
06788                 vec.push_back(exp(-pow(2.0f*i/(val2),2.0f)));
06789 //              printf("%f\n",exp(-pow(2.0*i/(val1-val2),2.0)));
06790         }
06791         for (size_t i = 0; i < size; ++i) if (d[i]) d[i]=vec[(int)d[i]];
06792 
06793         image->update();
06794         delete image2;
06795 }


Member Data Documentation

const string IterBinMaskProcessor::NAME = "mask.addshells.gauss" [static]
 

Definition at line 189 of file processor.cpp.


The documentation for this class was generated from the following files:
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