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EMAN::HighpassAutoPeakProcessor Class Reference

This processor attempts to remove the low resolution peak present in all cryoEM data. More...

#include <processor.h>

Inheritance diagram for EMAN::HighpassAutoPeakProcessor:

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Collaboration diagram for EMAN::HighpassAutoPeakProcessor:

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List of all members.

Public Member Functions

string get_name () const
 Get the processor's name.
string get_desc () const
 Get the descrition of this specific processor.

Static Public Member Functions

ProcessorNEW ()

Static Public Attributes

const string NAME = "filter.highpass.autopeak"

Protected Member Functions

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

Protected Attributes

float highpass

Detailed Description

This processor attempts to remove the low resolution peak present in all cryoEM data.

Definition at line 894 of file processor.h.


Member Function Documentation

void HighpassAutoPeakProcessor::create_radial_func vector< float > &  radial_mask,
EMData image
const [protected, virtual]
 

Implements EMAN::FourierAnlProcessor.

Definition at line 1136 of file processor.cpp.

References highpass.

01137 {
01138         unsigned int c;
01139 
01140 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01141         for (c=2; c<radial_mask.size(); c++) if (radial_mask[c-1]<=radial_mask[c]) break;
01142         if (c>highpass) c=(unsigned int)highpass;               // the *2 is for the 2x oversampling
01143 
01144         radial_mask[0]=0.0;
01145 //      for (int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?radial_mask[c+1]/radial_mask[i]:1.0);
01146         for (unsigned int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?0.0f:1.0f);
01147 
01148         printf("%f %d\n",highpass,c);
01149 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01150 
01151 }

string EMAN::HighpassAutoPeakProcessor::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 906 of file processor.h.

00907                 {
00908                         return "Attempts to automatically remove the low resolution peak present in virtually all cryoEM data.";
00909                 }

string EMAN::HighpassAutoPeakProcessor::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 897 of file processor.h.

00898                 {
00899                         return NAME;
00900                 }

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

Definition at line 901 of file processor.h.

00902                 {
00903                         return new HighpassAutoPeakProcessor();
00904                 }

void HighpassAutoPeakProcessor::preprocess EMData image  )  [protected, virtual]
 

Reimplemented from EMAN::FourierAnlProcessor.

Definition at line 1115 of file processor.cpp.

References EMAN::EMData::get_attr_dict(), EMAN::Dict::has_key(), highpass, and EMAN::EMData::set_attr().

01116 {
01117         if(params.has_key("apix")) {
01118                 image->set_attr("apix_x", (float)params["apix"]);
01119                 image->set_attr("apix_y", (float)params["apix"]);
01120                 image->set_attr("apix_z", (float)params["apix"]);
01121         }
01122 
01123         const Dict dict = image->get_attr_dict();
01124 
01125         if( params.has_key("cutoff_abs") ) {
01126                 highpass = params["cutoff_abs"];
01127         }
01128         else if( params.has_key("cutoff_freq") ) {
01129                 highpass = (float)params["cutoff_freq"] * (float)dict["apix_x"] * (float)dict["nx"] / 2.0f;
01130         }
01131         else if( params.has_key("cutoff_pixels") ) {
01132                 highpass = (float)params["cutoff_pixels"] / (float)dict["nx"];
01133         }
01134 }


Member Data Documentation

float EMAN::HighpassAutoPeakProcessor::highpass [protected]
 

Definition at line 916 of file processor.h.

Referenced by create_radial_func(), and preprocess().

const string HighpassAutoPeakProcessor::NAME = "filter.highpass.autopeak" [static]
 

Definition at line 70 of file processor.cpp.


The documentation for this class was generated from the following files:
Generated on Thu Dec 9 13:47:40 2010 for EMAN2 by  doxygen 1.3.9.1