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EMAN::IterationAverager Class Reference

IterationAverager averages images by doing the smoothing iteration. More...

#include <averager.h>

Inheritance diagram for EMAN::IterationAverager:

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List of all members.

Public Member Functions

 IterationAverager ()
void add_image (EMData *image)
 To add an image to the Averager.
EMDatafinish ()
 Finish up the averaging and return the result.
string get_name () const
 Get the Averager's name.
string get_desc () const

Static Public Member Functions

AveragerNEW ()

Static Public Attributes

const string NAME = "iteration"

Private Attributes

EMDatasigma_image
int nimg

Detailed Description

IterationAverager averages images by doing the smoothing iteration.

Definition at line 343 of file averager.h.


Constructor & Destructor Documentation

IterationAverager::IterationAverager  ) 
 

Definition at line 524 of file averager.cpp.

00524                                      : nimg(0)
00525 {
00526 
00527 }


Member Function Documentation

void IterationAverager::add_image EMData image  )  [virtual]
 

To add an image to the Averager.

This image will be averaged in this function.

Parameters:
image The image to be averaged.

Implements EMAN::Averager.

Definition at line 529 of file averager.cpp.

References EMAN::EMData::copy_head(), EMAN::EMData::get_data(), get_name(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), EMAN::EMUtil::is_same_size(), LOGERR, nimg, nx, ny, and EMAN::EMData::set_size().

00530 {
00531         if (!image) {
00532                 return;
00533         }
00534 
00535         if (nimg >= 1 && !EMUtil::is_same_size(image, result)) {
00536                 LOGERR("%sAverager can only process same-size Image",
00537                                                          get_name().c_str());
00538                 return;
00539         }
00540 
00541         nimg++;
00542 
00543         int nx = image->get_xsize();
00544         int ny = image->get_ysize();
00545         int nz = image->get_zsize();
00546         size_t image_size = (size_t)nx * ny * nz;
00547 
00548         if (nimg == 1) {
00549                 result = image->copy_head();
00550                 result->set_size(nx, ny, nz);
00551                 sigma_image = image->copy_head();
00552                 sigma_image->set_size(nx, ny, nz);
00553         }
00554 
00555         float *image_data = image->get_data();
00556         float *result_data = result->get_data();
00557         float *sigma_image_data = sigma_image->get_data();
00558 
00559         for (size_t j = 0; j < image_size; ++j) {
00560                 float f = image_data[j];
00561                 result_data[j] += f;
00562                 sigma_image_data[j] += f * f;
00563         }
00564 
00565 
00566 }

EMData * IterationAverager::finish  )  [virtual]
 

Finish up the averaging and return the result.

Returns:
The averaged image.

Implements EMAN::Averager.

Definition at line 568 of file averager.cpp.

References EMAN::EMData::append_image(), EMAN::Util::eman_erfc(), EMAN::EMData::get_attr(), EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), nimg, nx, ny, sqrt(), and EMAN::EMData::update().

00569 {
00570         if (nimg < 1) {
00571                 return result;
00572         }
00573 
00574         int nx = result->get_xsize();
00575         int ny = result->get_ysize();
00576         int nz = result->get_zsize();
00577         size_t image_size = (size_t)nx * ny * nz;
00578 
00579         float *result_data = result->get_data();
00580         float *sigma_image_data = sigma_image->get_data();
00581 
00582         for (size_t j = 0; j < image_size; ++j) {
00583                 result_data[j] /= nimg;
00584                 float f1 = sigma_image_data[j] / nimg;
00585                 float f2 = result_data[j];
00586                 sigma_image_data[j] = sqrt(f1 - f2 * f2) / sqrt((float)nimg);
00587         }
00588 
00589         result->update();
00590         sigma_image->update();
00591 
00592         result->append_image("iter.hed");
00593         float sigma = sigma_image->get_attr("sigma");
00594         float *sigma_image_data2 = sigma_image->get_data();
00595         float *result_data2 = result->get_data();
00596         float *d2 = new float[nx * ny];
00597         size_t sec_size = nx * ny * sizeof(float);
00598 
00599         memcpy(d2, result_data2, sec_size);
00600         memcpy(sigma_image_data2, result_data2, sec_size);
00601 
00602         printf("Iter sigma=%f\n", sigma);
00603 
00604         for (int k = 0; k < 1000; k++) {
00605                 for (int i = 1; i < nx - 1; i++) {
00606                         for (int j = 1; j < ny - 1; j++) {
00607                                 int l = i + j * nx;
00608                                 float c1 = (d2[l - 1] + d2[l + 1] + d2[l - nx] + d2[l + nx]) / 4.0f - d2[l];
00609                                 float c2 = fabs(result_data2[l] - sigma_image_data2[l]) / sigma;
00610                                 result_data2[l] += c1 * Util::eman_erfc(c2) / 100.0f;
00611                         }
00612                 }
00613 
00614                 memcpy(d2, result_data2, sec_size);
00615         }
00616 
00617         if( d2 )
00618         {
00619                 delete[]d2;
00620                 d2 = 0;
00621         }
00622 
00623         sigma_image->update();
00624         if( sigma_image )
00625         {
00626                 delete sigma_image;
00627                 sigma_image = 0;
00628         }
00629 
00630         result->update();
00631         result->append_image("iter.hed");
00632 
00633 
00634         return result;
00635 }

string EMAN::IterationAverager::get_desc  )  const [inline, virtual]
 

Implements EMAN::Averager.

Definition at line 355 of file averager.h.

00356                 {
00357                         return "Unknown";
00358                 }

string EMAN::IterationAverager::get_name  )  const [inline, virtual]
 

Get the Averager's name.

Each Averager is identified by a unique name.

Returns:
The Averager's name.

Implements EMAN::Averager.

Definition at line 350 of file averager.h.

Referenced by add_image().

00351                 {
00352                         return NAME;
00353                 }

Averager* EMAN::IterationAverager::NEW  )  [inline, static]
 

Definition at line 360 of file averager.h.

00361                 {
00362                         return new IterationAverager();
00363                 }


Member Data Documentation

const string IterationAverager::NAME = "iteration" [static]
 

Definition at line 49 of file averager.cpp.

int EMAN::IterationAverager::nimg [private]
 

Definition at line 369 of file averager.h.

Referenced by add_image(), and finish().

EMData* EMAN::IterationAverager::sigma_image [private]
 

Definition at line 368 of file averager.h.


The documentation for this class was generated from the following files:
Generated on Mon Aug 13 13:41:35 2012 for EMAN2 by  doxygen 1.3.9.1