Same as FourierProcessor, except first computes the current image radial power spectrum and passes it to the processor (no radial oversampling, number of elements = radius) More...

#include <processor.h>

Inheritance diagram for EMAN::FourierAnlProcessor:

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Collaboration diagram for EMAN::FourierAnlProcessor:

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Public Member Functions
void	process_inplace (EMData *image)
	To process an image in-place. More...

TypeDict	get_param_types () const
	Get processor parameter information in a dictionary. More...

Public Member Functions inherited from EMAN::Processor
virtual	~Processor ()

virtual EMData *	process (const EMData *const image)
	To proccess an image out-of-place. More...

virtual void	process_list_inplace (vector< EMData * > &images)
	To process multiple images using the same algorithm. More...

virtual string	get_name () const =0
	Get the processor's name. More...

virtual Dict	get_params () const
	Get the processor parameters in a key/value dictionary. More...

virtual void	set_params (const Dict &new_params)
	Set the processor parameters using a key/value dictionary. More...

virtual string	get_desc () const =0
	Get the descrition of this specific processor. More...

Static Public Member Functions
static string	get_group_desc ()

Static Public Member Functions inherited from EMAN::Processor
static string	get_group_desc ()
	Get the description of this group of processors. More...

static void	EMFourierFilterInPlace (EMData *fimage, Dict params)
	Compute a Fourier-filter processed image in place. More...

static EMData *	EMFourierFilter (EMData *fimage, Dict params)
	Compute a Fourier-processor processed image without altering the original image. More...

Protected Member Functions
virtual void	preprocess (EMData *)

virtual void	create_radial_func (vector< float > &radial_mask, EMData *image) const =0

Additional Inherited Members
Public Types inherited from EMAN::Processor
enum	fourier_filter_types { TOP_HAT_LOW_PASS , TOP_HAT_HIGH_PASS , TOP_HAT_BAND_PASS , TOP_HOMOMORPHIC , GAUSS_LOW_PASS , GAUSS_HIGH_PASS , GAUSS_BAND_PASS , GAUSS_INVERSE , GAUSS_HOMOMORPHIC , BUTTERWORTH_LOW_PASS , BUTTERWORTH_HIGH_PASS , BUTTERWORTH_HOMOMORPHIC , KAISER_I0 , KAISER_SINH , KAISER_I0_INVERSE , KAISER_SINH_INVERSE , SHIFT , TANH_LOW_PASS , TANH_HIGH_PASS , TANH_HOMOMORPHIC , TANH_BAND_PASS , RADIAL_TABLE , CTF_ }
	Fourier filter Processor type enum. More...

Protected Attributes inherited from EMAN::Processor
Dict	params

Detailed Description

Same as FourierProcessor, except first computes the current image radial power spectrum and passes it to the processor (no radial oversampling, number of elements = radius)

Parameters

cutoff_abs	Processor radius in terms of Nyquist (0-.5).
cutoff_pixels	Width in Fourier pixels (0 - size()/2).
cutoff_freq	Resolution in 1/A (0 - 1 / size*apix).
apix	Override A/pix in the image header (changes x,y and z).

Definition at line 390 of file processor.h.

Member Function Documentation

◆ create_radial_func()

virtual void EMAN::FourierAnlProcessor::create_radial_func	(	vector< float > &	radial_mask,
		EMData *	image
	)		const

protectedpure virtual

Implemented in EMAN::LowpassAutoBProcessor, EMAN::HighpassAutoPeakProcessor, EMAN::MatchSFProcessor, and EMAN::SetSFProcessor.

Referenced by process_inplace().

◆ get_group_desc()

static string EMAN::FourierAnlProcessor::get_group_desc ( )

inlinestatic

Definition at line 395 of file processor.h.

                {
                        return "Fourier Filter processors are a group of processor in the frequency domain. Before using such processors on an image, the image must be transformed from real space to the fourier space. FourierProcessor class is the base class of fourier space processors. Each specific processor is either a lowpass filter processor, or a highpass filter processor, or neighter. The unit of lowpass and highpass parameters are in terms of Nyquist, valid range is [0,0.5]. ";
                }

◆ get_param_types()

TypeDict EMAN::FourierAnlProcessor::get_param_types ( ) const

inlinevirtual

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.

Reimplemented in EMAN::LowpassAutoBProcessor, EMAN::MatchSFProcessor, and EMAN::SetSFProcessor.

Definition at line 400 of file processor.h.

                {
                        TypeDict d;
                        d.put("cutoff_abs", EMObject::FLOAT, "Processor radius in terms of Nyquist (0-.5)");
                        d.put("cutoff_pixels", EMObject::FLOAT, " Width in Fourier pixels (0 - size()/2)");
                        d.put("cutoff_freq", EMObject::FLOAT, "1/Resolution in 1/A (0 - 1 / 2*apix). eg - a 20 A filter is cutoff_freq=0.05");
                        d.put("apix", EMObject::FLOAT, " Override A/pix in the image header (changes x,y and z)");
                        d.put("return_radial", EMObject::BOOL, "Return the radial filter function as an attribute (filter_curve)");
                        d.put("interpolate", EMObject::BOOL, "Whether or not to interpolate the radial scaling function. Default=false. Prb should be true.");
                        return d;
                }

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

Referenced by EMAN::LowpassAutoBProcessor::get_param_types().

◆ preprocess()

virtual void EMAN::FourierAnlProcessor::preprocess ( EMData * )

inlineprotectedvirtual

Reimplemented in EMAN::LowpassAutoBProcessor, and EMAN::HighpassAutoPeakProcessor.

Definition at line 413 of file processor.h.

413{}

Referenced by process_inplace().

◆ process_inplace()

void FourierAnlProcessor::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 734 of file processor.cpp.

{
        if (!image) {
                LOGWARN("NULL Image");
                return;
        }
 
        preprocess(image);
 
//      int array_size = FFTRADIALOVERSAMPLE * image->get_ysize();
//      float step=0.5f/array_size;
//
//      vector < float >yarray(array_size);
 
        bool return_radial=(bool)params.set_default("return_radial",0);
        bool interpolate=(bool)params.set_default("interpolate",1);
 
        float cornerscale;
        if (image->get_zsize()>1) cornerscale=sqrt(3.0);
        else cornerscale=sqrt(2.0);
 
        if (image->is_complex()) {
                vector <float>yarray = image->calc_radial_dist(floor(image->get_ysize()*cornerscale/2),0,1.0,1);
                create_radial_func(yarray,image);
                image->apply_radial_func(0, 1.0f/image->get_ysize(), yarray,interpolate);
                if (return_radial) image->set_attr("filter_curve",yarray);
        }
        else {
                EMData *fft = image->do_fft();
                vector <float>yarray = fft->calc_radial_dist((int)floor(fft->get_ysize()*cornerscale/2.0),0,1.0,1);
                create_radial_func(yarray,fft);
                // 4/30/10 stevel turned off interpolation to fix problem with matched filter
                // 9/12/14 stevel, not sure why I turned off interp. Seems to cause rather than fix problems. Adding option to enable. Afraid to turn it on
                fft->apply_radial_func(0, 1.0f/image->get_ysize(), yarray,interpolate);
                EMData *ift = fft->do_ift();
 
                memcpy(image->get_data(),ift->get_data(),ift->get_xsize()*ift->get_ysize()*ift->get_zsize()*sizeof(float));
                if (return_radial) image->set_attr("filter_curve",yarray);
 
//              for (int i=0; i<yarray.size(); i++) printf("%d\t%f\n",i,yarray[i]);
 
                //ift->update(); Unecessary
 
                delete fft;
                delete ift;
 
        }
 
        image->update();
}

References EMAN::EMData::apply_radial_func(), EMAN::EMData::calc_radial_dist(), create_radial_func(), LOGWARN, EMAN::Processor::params, preprocess(), EMAN::Dict::set_default(), and sqrt().

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

Public Member Functions

Static Public Member Functions

Protected Member Functions