#include <reconstructor.h>
Inheritance diagram for EMAN::ReconstructorVolumeData:
Public Member Functions | |
ReconstructorVolumeData () | |
Only constructor All member variables are zeroed. | |
virtual | ~ReconstructorVolumeData () |
Destructor safely frees memory. | |
const EMData *const | get_emdata () |
Get the main image pointer, probably redundant (not used). | |
Protected Member Functions | |
void | free_memory () |
Free allocated memorys The inherited class may have allocated image of tmp_data In either case you can safely call this function to delete either of those pointers, even if they bdb:refine_03#threed_00are NULL. | |
virtual void | normalize_threed (const bool sqrt_damp=false) |
Normalize on the assumption that image is a Fourier volume and that tmp_data is a volume of weights corresponding in size to this Fourier volume. | |
virtual void | zero_memory () |
Sends the pixels in tmp_data and image to zero Convenience only. | |
Protected Attributes | |
EMData * | image |
Inheriting class allocates this, probably in setup(). | |
EMData * | tmp_data |
Inheriting class may allocate this, probably in setup(). | |
int | nx |
int | nx2 |
int | ny |
int | ny2 |
int | nz |
int | nz2 |
int | subnx |
int | subny |
int | subnz |
int | subx0 |
int | suby0 |
int | subz0 |
Private Member Functions | |
ReconstructorVolumeData (const ReconstructorVolumeData &that) | |
Disallow copy construction. | |
ReconstructorVolumeData & | operator= (const ReconstructorVolumeData &) |
Disallow assignment. |
One EMData object basically stores the real pixel data, the other is used for storing normalization values. This class was originally added simply to encapsulate the the things common to FourierReconstructor, WienerFourierReconstructor and BackProjectionReconstructor. It was never expected to instantiated on its own, and is intended to be a parent of the Reconstructor class. d.woolford May 2007
Definition at line 202 of file reconstructor.h.
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Only constructor All member variables are zeroed.
Definition at line 208 of file reconstructor.h. 00208 : image(0), tmp_data(0), nx(0), ny(0), nz(0), subnx(0), subny(0), subnz(0), subx0(0), suby0(0), subz0(0) {}
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Destructor safely frees memory.
Definition at line 212 of file reconstructor.h. References free_memory(). 00212 { free_memory(); }
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Disallow copy construction.
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Free allocated memorys The inherited class may have allocated image of tmp_data In either case you can safely call this function to delete either of those pointers, even if they bdb:refine_03#threed_00are NULL.
Reimplemented in EMAN::FourierReconstructor. Definition at line 243 of file reconstructor.h. 00244 { 00245 if (image != 0) {delete image; image = 0;} 00246 if ( tmp_data != 0 ) { delete tmp_data; tmp_data = 0; } 00247 }
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Get the main image pointer, probably redundant (not used).
Definition at line 216 of file reconstructor.h. 00216 { return image; }
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Normalize on the assumption that image is a Fourier volume and that tmp_data is a volume of weights corresponding in size to this Fourier volume. This means tmp_data is assumed to have have as many x pixels as image. Definition at line 246 of file reconstructor.cpp. References EMAN::EMData::get_data(), image, norm(), NullPointerException, nx, ny, nz, rdata, sqrt(), subnx, subny, subx0, tmp_data, and y. Referenced by EMAN::FourierReconstructor::finish(), and EMAN::FourierReconstructorSimple2D::finish(). 00248 { 00249 float* norm = tmp_data->get_data(); 00250 float* rdata = image->get_data(); 00251 00252 // printf("%d %d %d %d %d %d\n",subnx,subny,subnz,image->get_xsize(),image->get_ysize(),image->get_zsize()); 00253 00254 // FIXME should throw a sensible error 00255 if ( 0 == norm ) throw NullPointerException("The normalization volume was null!"); 00256 if ( 0 == rdata ) throw NullPointerException("The complex reconstruction volume was null!"); 00257 00258 for (int i = 0; i < subnx * subny * subnz; i += 2) { 00259 float d = norm[i/2]; 00260 if (sqrt_damp) d*=sqrt(d); 00261 if (d == 0) { 00262 rdata[i] = 0; 00263 rdata[i + 1] = 0; 00264 } 00265 else { 00266 // rdata[i]=1.0/d; 00267 // rdata[i+1]=0.0; // for debugging only 00268 rdata[i] /= d; 00269 rdata[i + 1] /= d; 00270 } 00271 } 00272 00273 // enforce complex conj, only works on subvolumes if the complete conjugate plane is in the volume 00274 if (subx0==0 && subnx>1 && subny==ny && subnz==nz) { 00275 for (int z=0; z<=nz/2; z++) { 00276 for (int y=1; y<=ny; y++) { 00277 if (y==0 && z==0) continue; 00278 // x=0 00279 int i=(y%ny)*subnx+(z%nz)*subnx*subny; 00280 int i2=(ny-y)*subnx+((nz-z)%nz)*subnx*subny; 00281 float ar=(rdata[i]+rdata[i2])/2.0f; 00282 float ai=(rdata[i+1]-rdata[i2+1])/2.0f; 00283 rdata[i]=ar; 00284 rdata[i2]=ar; 00285 rdata[i+1]=ai; 00286 rdata[i2+1]=-ai; 00287 } 00288 } 00289 } 00290 00291 if (subx0+subnx==nx && subnx>1 && subny==ny && subnz==nz) { 00292 for (int z=0; z<=nz/2; z++) { 00293 for (int y=1; y<=ny; y++) { 00294 if (y==0 && z==0) continue; 00295 // x=0 00296 int i=(y%ny)*subnx+(z%nz)*subnx*subny+subnx-2; 00297 int i2=(ny-y)*subnx+((nz-z)%nz)*subnx*subny+subnx-2; 00298 float ar=(rdata[i]+rdata[i2])/2.0f; 00299 float ai=(rdata[i+1]-rdata[i2+1])/2.0f; 00300 rdata[i]=ar; 00301 rdata[i2]=ar; 00302 rdata[i+1]=ai; 00303 rdata[i2+1]=-ai; 00304 } 00305 } 00306 } 00307 }
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Disallow assignment.
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Sends the pixels in tmp_data and image to zero Convenience only.
Definition at line 259 of file reconstructor.h. References EMAN::EMData::to_zero(). 00260 { 00261 if (tmp_data != 0 ) tmp_data->to_zero(); 00262 if (image != 0 ) image->to_zero(); 00263 }
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Inheriting class allocates this, probably in setup().
Definition at line 220 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 225 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 225 of file reconstructor.h. |
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Definition at line 226 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 226 of file reconstructor.h. |
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Definition at line 227 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 227 of file reconstructor.h. |
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Definition at line 229 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 230 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 231 of file reconstructor.h. |
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Definition at line 233 of file reconstructor.h. Referenced by normalize_threed(). |
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Definition at line 234 of file reconstructor.h. |
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Definition at line 235 of file reconstructor.h. |
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Inheriting class may allocate this, probably in setup().
Definition at line 222 of file reconstructor.h. Referenced by normalize_threed(). |