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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 257 of file averager.h.


Constructor & Destructor Documentation

IterationAverager::IterationAverager  ) 
 

Definition at line 366 of file averager.cpp.

00366                                      : nimg(0)
00367 {
00368 
00369 }


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 371 of file averager.cpp.

References 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().

00372 {
00373         if (!image) {
00374                 return;
00375         }
00376 
00377         if (nimg >= 1 && !EMUtil::is_same_size(image, result)) {
00378                 LOGERR("%sAverager can only process same-size Image",
00379                                                          get_name().c_str());
00380                 return;
00381         }
00382 
00383         nimg++;
00384 
00385         int nx = image->get_xsize();
00386         int ny = image->get_ysize();
00387         int nz = image->get_zsize();
00388         size_t image_size = nx * ny * nz;
00389 
00390         if (nimg == 1) {
00391                 result = new EMData();
00392                 result->set_size(nx, ny, nz);
00393                 sigma_image = new EMData();
00394                 sigma_image->set_size(nx, ny, nz);
00395         }
00396 
00397         float *image_data = image->get_data();
00398         float *result_data = result->get_data();
00399         float *sigma_image_data = sigma_image->get_data();
00400 
00401         for (size_t j = 0; j < image_size; j++) {
00402                 float f = image_data[j];
00403                 result_data[j] += f;
00404                 sigma_image_data[j] += f * f;
00405         }
00406 
00407 
00408 }

EMData * IterationAverager::finish  )  [virtual]
 

Finish up the averaging and return the result.

Returns:
The averaged image.

Implements EMAN::Averager.

Definition at line 410 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().

00411 {
00412         if (nimg < 1) {
00413                 return result;
00414         }
00415 
00416         int nx = result->get_xsize();
00417         int ny = result->get_ysize();
00418         int nz = result->get_zsize();
00419         size_t image_size = nx * ny * nz;
00420 
00421         float *result_data = result->get_data();
00422         float *sigma_image_data = sigma_image->get_data();
00423 
00424         for (size_t j = 0; j < image_size; j++) {
00425                 result_data[j] /= nimg;
00426                 float f1 = sigma_image_data[j] / nimg;
00427                 float f2 = result_data[j];
00428                 sigma_image_data[j] = sqrt(f1 - f2 * f2) / sqrt((float)nimg);
00429         }
00430 
00431         result->update();
00432         sigma_image->update();
00433 
00434         result->append_image("iter.hed");
00435         float sigma = sigma_image->get_attr("sigma");
00436         float *sigma_image_data2 = sigma_image->get_data();
00437         float *result_data2 = result->get_data();
00438         float *d2 = new float[nx * ny];
00439         size_t sec_size = nx * ny * sizeof(float);
00440 
00441         memcpy(d2, result_data2, sec_size);
00442         memcpy(sigma_image_data2, result_data2, sec_size);
00443 
00444         printf("Iter sigma=%f\n", sigma);
00445 
00446         for (int k = 0; k < 1000; k++) {
00447                 for (int i = 1; i < nx - 1; i++) {
00448                         for (int j = 1; j < ny - 1; j++) {
00449                                 int l = i + j * nx;
00450                                 float c1 = (d2[l - 1] + d2[l + 1] + d2[l - nx] + d2[l + nx]) / 4.0f - d2[l];
00451                                 float c2 = fabs(result_data2[l] - sigma_image_data2[l]) / sigma;
00452                                 result_data2[l] += c1 * Util::eman_erfc(c2) / 100.0f;
00453                         }
00454                 }
00455 
00456                 memcpy(d2, result_data2, sec_size);
00457         }
00458 
00459         if( d2 )
00460         {
00461                 delete[]d2;
00462                 d2 = 0;
00463         }
00464 
00465         sigma_image->update();
00466         if( sigma_image )
00467         {
00468                 delete sigma_image;
00469                 sigma_image = 0;
00470         }
00471 
00472         result->update();
00473         result->append_image("iter.hed");
00474 
00475 
00476         return result;
00477 }

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

Implements EMAN::Averager.

Definition at line 269 of file averager.h.

00270                 {
00271                         return "Unknown";
00272                 }

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 264 of file averager.h.

Referenced by add_image().

00265                 {
00266                         return NAME;
00267                 }

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

Definition at line 274 of file averager.h.

00275                 {
00276                         return new IterationAverager();
00277                 }


Member Data Documentation

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

Definition at line 47 of file averager.cpp.

int EMAN::IterationAverager::nimg [private]
 

Definition at line 283 of file averager.h.

Referenced by add_image(), and finish().

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

Definition at line 282 of file averager.h.


The documentation for this class was generated from the following files:
Generated on Thu Dec 9 13:47:14 2010 for EMAN2 by  doxygen 1.3.9.1