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 1232 of file processor.cpp.

References highpass.

01233 {
01234         unsigned int c;
01235 
01236 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01237         for (c=2; c<radial_mask.size(); c++) if (radial_mask[c-1]<=radial_mask[c]) break;
01238         if (c>highpass) c=(unsigned int)highpass;               // the *2 is for the 2x oversampling
01239 
01240         radial_mask[0]=0.0;
01241 //      for (int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?radial_mask[c+1]/radial_mask[i]:1.0);
01242         for (unsigned int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?0.0f:1.0f);
01243 
01244         printf("%f %d\n",highpass,c);
01245 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01246 
01247 }

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 1211 of file processor.cpp.

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

01212 {
01213         if(params.has_key("apix")) {
01214                 image->set_attr("apix_x", (float)params["apix"]);
01215                 image->set_attr("apix_y", (float)params["apix"]);
01216                 image->set_attr("apix_z", (float)params["apix"]);
01217         }
01218 
01219         const Dict dict = image->get_attr_dict();
01220 
01221         if( params.has_key("cutoff_abs") ) {
01222                 highpass = params["cutoff_abs"];
01223         }
01224         else if( params.has_key("cutoff_freq") ) {
01225                 highpass = (float)params["cutoff_freq"] * (float)dict["apix_x"] * (float)dict["nx"] / 2.0f;
01226         }
01227         else if( params.has_key("cutoff_pixels") ) {
01228                 highpass = (float)params["cutoff_pixels"] / (float)dict["nx"];
01229         }
01230 }


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 Tue Jul 12 13:48:39 2011 for EMAN2 by  doxygen 1.4.7