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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 3851 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 3335 of file processor.cpp.

References EMAN::EMData::get_attr().

Referenced by process_inplace().

03336 {
03337         return image->get_attr("sigma");
03338 }

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 3856 of file processor.h.

03857                 {
03858                         return "Base class for normalization processors. Each specific normalization processor needs to define how to calculate mean and how to calculate sigma.";
03859                 }

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 3340 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().

03341 {
03342         if (!image) {
03343                 LOGWARN("cannot do normalization on NULL image");
03344                 return;
03345         }
03346 
03347         if (image->is_complex()) {
03348                 LOGWARN("cannot do normalization on complex image");
03349                 return;
03350         }
03351 
03352         float sigma = calc_sigma(image);
03353         if (sigma == 0 || !Util::goodf(&sigma)) {
03354                 LOGWARN("cannot do normalization on image with sigma = 0");
03355                 return;
03356         }
03357 
03358         float mean = calc_mean(image);
03359 
03360         size_t size = (size_t)image->get_xsize() * (size_t)image->get_ysize() *
03361                           (size_t)image->get_zsize();
03362         float *data = image->get_data();
03363 
03364         for (size_t i = 0; i < size; i++) {
03365                 data[i] = (data[i] - mean) / sigma;
03366         }
03367 
03368         image->update();
03369 }


The documentation for this class was generated from the following files:
Generated on Thu Dec 9 13:48:03 2010 for EMAN2 by  doxygen 1.3.9.1