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 993 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 1239 of file processor.cpp.

References highpass.

01240 {
01241         unsigned int c;
01242 
01243 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01244         for (c=2; c<radial_mask.size(); c++) if (radial_mask[c-1]<=radial_mask[c]) break;
01245         if (c>highpass) c=(unsigned int)highpass;               // the *2 is for the 2x oversampling
01246 
01247         radial_mask[0]=0.0;
01248 //      for (int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?radial_mask[c+1]/radial_mask[i]:1.0);
01249         for (unsigned int i=1; i<radial_mask.size(); i++) radial_mask[i]=(i<=c?0.0f:1.0f);
01250 
01251         printf("%f %d\n",highpass,c);
01252 //      for (unsigned int i=0; i<radial_mask.size(); i++) printf("%d\t%f\n",i,radial_mask[i]);
01253 
01254 }

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 1005 of file processor.h.

01006                 {
01007                         return "Attempts to automatically remove the low resolution peak present in virtually all cryoEM data.";
01008                 }

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 996 of file processor.h.

References NAME.

00997                 {
00998                         return NAME;
00999                 }

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

Definition at line 1000 of file processor.h.

01001                 {
01002                         return new HighpassAutoPeakProcessor();
01003                 }

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

Reimplemented from EMAN::FourierAnlProcessor.

Definition at line 1218 of file processor.cpp.

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

01219 {
01220         if(params.has_key("apix")) {
01221                 image->set_attr("apix_x", (float)params["apix"]);
01222                 image->set_attr("apix_y", (float)params["apix"]);
01223                 image->set_attr("apix_z", (float)params["apix"]);
01224         }
01225 
01226         const Dict dict = image->get_attr_dict();
01227 
01228         if( params.has_key("cutoff_abs") ) {
01229                 highpass = params["cutoff_abs"];
01230         }
01231         else if( params.has_key("cutoff_freq") ) {
01232                 highpass = (float)params["cutoff_freq"] * (float)dict["apix_x"] * (float)dict["nx"] / 2.0f;
01233         }
01234         else if( params.has_key("cutoff_pixels") ) {
01235                 highpass = (float)params["cutoff_pixels"] / (float)dict["nx"];
01236         }
01237 }


Member Data Documentation

float EMAN::HighpassAutoPeakProcessor::highpass [protected]

Definition at line 1015 of file processor.h.

Referenced by create_radial_func(), and preprocess().

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

Definition at line 1010 of file processor.h.

Referenced by get_name().


The documentation for this class was generated from the following files:
Generated on Thu May 3 10:09:40 2012 for EMAN2 by  doxygen 1.4.7