EMAN2
Public Member Functions | Static Public Member Functions | Static Public Attributes
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>

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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

static ProcessorNEW ()

Static Public Attributes

static 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:
val1number of pixels to expand
val2number of Gaussian pixels to expand, following the first expansion

Definition at line 6226 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 6236 of file processor.h.

                {
                        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.";
                }
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 6231 of file processor.h.

References NAME.

                {
                        return NAME;
                }
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 6246 of file processor.h.

References EMAN::EMObject::FLOAT, and EMAN::TypeDict::put().

                {
                        TypeDict d;
                        d.put("val1", EMObject::FLOAT, "number of pixels to expand");
                        d.put("val2", EMObject::FLOAT, "number of Gaussian pixels to expand, following the first expansion");
                        return d;
                }
static Processor* EMAN::IterBinMaskProcessor::NEW ( ) [inline, static]

Definition at line 6241 of file processor.h.

                {
                        return new IterBinMaskProcessor();
                }
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:
imageThe image to be processed.

Implements EMAN::Processor.

Definition at line 7234 of file processor.cpp.

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

{
        if (!image) {
                LOGWARN("NULL Image");
                return;
        }

        float val1 = params["val1"];
        float val2 = params["val2"];

        int nx = image->get_xsize();
        int ny = image->get_ysize();
        int nz = image->get_zsize();
        EMData *image2 = new EMData(nx,ny,nz);

        // Got a compile warning complaining that these things were never used. Hope I didn't break anything - apologies if so (d.woolford)
//      float *dat = image->get_data();
//      float *dat2 = image2->get_data();


        float *d = image->get_data();
        float *d2 = image2->get_data();

        const int nxy = nx * ny;
        size_t size = (size_t)nx * ny * nz;

        // TODO: THIS IS EXTREMELY INEFFICIENT
        if (nz != 1) {
                for (int l = 1; l <= (int) val1+val2; ++l) {
                        for (size_t i=0; i<size; i++) d2[i]=d[i];
                        for (int k = 1; k < nz - 1; ++k) {
                                for (int j = 1; j < ny - 1; ++j) {
                                        for (int i = 1; i < nx - 1; ++i) {
                                                size_t t = i + j*nx+(size_t)k*nx*ny;
                                                if (d[t]) continue;
                                                if (d2[t - 1] || d2[t + 1] || d2[t + nx] || d2[t - nx] || d2[t + nxy] || d2[t - nxy]) d[t] = (float) l + 1;
                                        }
                                }
                        }
                }
        }
        else {
                for (int l = 1; l <= (int) val1+val2; ++l) {
                        for (size_t i=0; i<size; i++) d2[i]=d[i];
                        for (int j = 1; j < ny - 1; ++j) {
                                for (int i = 1; i < nx - 1; ++i) {
                                        size_t t = i + j * nx;
                                        if (d[t]) continue;
                                        if (d2[t - 1] || d2[t + 1] || d2[t + nx] || d2[t - nx]) d[t] = (float) l + 1;
                                }
                        }
                }
        }

        vector<float> vec;
        for (int i=0; i<val1+2; i++) vec.push_back(1.0);
        for (int i=0; i<val2; i++) {
                vec.push_back(exp(-pow(2.0f*i/(val2),2.0f)));
//              printf("%f\n",exp(-pow(2.0*i/(val1-val2),2.0)));
        }
        for (size_t i = 0; i < size; ++i) if (d[i]) d[i]=vec[(int)d[i]];

        image->update();
        delete image2;
}

Member Data Documentation

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

Definition at line 6254 of file processor.h.

Referenced by get_name().


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