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

static ProcessorNEW ()

Static Public Attributes

static 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 1204 of file processor.cpp.

References highpass.

01205 {
01206         unsigned int c;
01207 
01208 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01209         for (c=2; c<radial_mask.size(); c++) if (radial_mask[c-1]<=radial_mask[c]) break;
01210         if (c>highpass) c=(unsigned int)highpass;               // the *2 is for the 2x oversampling
01211 
01212         radial_mask[0]=0.0;
01213 //      for (int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?radial_mask[c+1]/radial_mask[i]:1.0);
01214         for (unsigned int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?0.0f:1.0f);
01215 
01216         printf("%f %d\n",highpass,c);
01217 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01218 
01219 }

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.

References NAME.

00898                 {
00899                         return NAME;
00900                 }

static 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 1183 of file processor.cpp.

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

01184 {
01185         if(params.has_key("apix")) {
01186                 image->set_attr("apix_x", (float)params["apix"]);
01187                 image->set_attr("apix_y", (float)params["apix"]);
01188                 image->set_attr("apix_z", (float)params["apix"]);
01189         }
01190 
01191         const Dict dict = image->get_attr_dict();
01192 
01193         if( params.has_key("cutoff_abs") ) {
01194                 highpass = params["cutoff_abs"];
01195         }
01196         else if( params.has_key("cutoff_freq") ) {
01197                 highpass = (float)params["cutoff_freq"] * (float)dict["apix_x"] * (float)dict["nx"] / 2.0f;
01198         }
01199         else if( params.has_key("cutoff_pixels") ) {
01200                 highpass = (float)params["cutoff_pixels"] / (float)dict["nx"];
01201         }
01202 }


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 911 of file processor.h.

Referenced by get_name().


The documentation for this class was generated from the following files:
Generated on Mon May 2 13:29:55 2011 for EMAN2 by  doxygen 1.4.7