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EMAN::NormalizeProcessor Class Reference

Base class for normalization processors. More...

#include <processor.h>

Inheritance diagram for EMAN::NormalizeProcessor:

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Collaboration diagram for EMAN::NormalizeProcessor:

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List of all members.

Public Member Functions

void process_inplace (EMData *image)
 To process an image in-place.

Static Public Member Functions

string get_group_desc ()
 Get the description of this group of processors.

Protected Member Functions

virtual float calc_sigma (EMData *image) const
virtual float calc_mean (EMData *image) const =0

Detailed Description

Base class for normalization processors.

Each specific normalization processor needs to define how to calculate mean and how to calculate sigma.

Definition at line 3936 of file processor.h.


Member Function Documentation

virtual float EMAN::NormalizeProcessor::calc_mean EMData image  )  const [protected, pure virtual]
 

Implemented in EMAN::NormalizeUnitProcessor, EMAN::NormalizeUnitSumProcessor, EMAN::NormalizeStdProcessor, EMAN::NormalizeMaskProcessor, EMAN::NormalizeEdgeMeanProcessor, EMAN::NormalizeCircleMeanProcessor, EMAN::NormalizeLREdgeMeanProcessor, and EMAN::NormalizeMaxMinProcessor.

Referenced by process_inplace().

float NormalizeProcessor::calc_sigma EMData image  )  const [protected, virtual]
 

Reimplemented in EMAN::NormalizeUnitProcessor, EMAN::NormalizeUnitSumProcessor, EMAN::NormalizeMaskProcessor, and EMAN::NormalizeMaxMinProcessor.

Definition at line 3396 of file processor.cpp.

References EMAN::EMData::get_attr().

Referenced by process_inplace().

03397 {
03398         return image->get_attr("sigma");
03399 }

string EMAN::NormalizeProcessor::get_group_desc  )  [inline, static]
 

Get the description of this group of processors.

This function is defined in a parent class. It gives a introduction to a group of processors.

Returns:
The description of this group of processors.

Reimplemented from EMAN::Processor.

Definition at line 3941 of file processor.h.

03942                 {
03943                         return "Base class for normalization processors. Each specific normalization processor needs to define how to calculate mean and how to calculate sigma.";
03944                 }

void NormalizeProcessor::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 3401 of file processor.cpp.

References calc_mean(), calc_sigma(), data, EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), EMAN::Util::goodf(), EMAN::EMData::is_complex(), LOGWARN, and EMAN::EMData::update().

03402 {
03403         if (!image) {
03404                 LOGWARN("cannot do normalization on NULL image");
03405                 return;
03406         }
03407 
03408         if (image->is_complex()) {
03409                 LOGWARN("cannot do normalization on complex image");
03410                 return;
03411         }
03412 
03413         float sigma = calc_sigma(image);
03414         if (sigma == 0 || !Util::goodf(&sigma)) {
03415                 LOGWARN("cannot do normalization on image with sigma = 0");
03416                 return;
03417         }
03418 
03419         float mean = calc_mean(image);
03420 
03421         size_t size = (size_t)image->get_xsize() * image->get_ysize() * image->get_zsize();
03422         float *data = image->get_data();
03423 
03424         for (size_t i = 0; i < size; ++i) {
03425                 data[i] = (data[i] - mean) / sigma;
03426         }
03427 
03428         image->update();
03429 }


The documentation for this class was generated from the following files:
Generated on Mon Mar 7 18:17:41 2011 for EMAN2 by  doxygen 1.3.9.1