#include <processor.h>
Inheritance diagram for EMAN::BeamstopProcessor:
Public Member Functions | |
void | process_inplace (EMData *image) |
To process an image in-place. | |
string | get_name () const |
Get the processor's name. | |
string | get_desc () const |
Get the descrition of this specific processor. | |
TypeDict | get_param_types () const |
Get processor parameter information in a dictionary. | |
Static Public Member Functions | |
Processor * | NEW () |
Static Public Attributes | |
const string | NAME = "mask.beamstop" |
If value1<0 also does radial subtract.
value1 | sig multiplier | |
value2 | x of center | |
value3 | y of center |
Definition at line 3870 of file processor.h.
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Get the descrition of this specific processor. This function must be overwritten by a subclass.
Implements EMAN::Processor. Definition at line 3885 of file processor.h. 03886 { 03887 return "Try to eliminate beamstop in electron diffraction patterns. value1=sig multiplier; value2,value3 are x,y of center, if value1<0 also does radial subtract."; 03888 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 3875 of file processor.h. 03876 {
03877 return NAME;
03878 }
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Get processor parameter information in a dictionary. Each parameter has one record in the dictionary. Each record contains its name, data-type, and description.
Reimplemented from EMAN::Processor. Definition at line 3890 of file processor.h. References EMAN::TypeDict::put(). 03891 { 03892 TypeDict d; 03893 d.put("value1", EMObject::FLOAT, "sig multiplier"); 03894 d.put("value2", EMObject::FLOAT, "x of center"); 03895 d.put("value3", EMObject::FLOAT, "y of center"); 03896 return d; 03897 }
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Definition at line 3880 of file processor.h. 03881 { 03882 return new BeamstopProcessor(); 03883 }
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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.
Implements EMAN::Processor. Definition at line 3170 of file processor.cpp. References data, EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), ImageDimensionException, LOGERR, LOGWARN, nx, ny, EMAN::Util::round(), sqrt(), and EMAN::EMData::update(). 03171 { 03172 if (!image) { 03173 LOGWARN("NULL Image"); 03174 return; 03175 } 03176 if (image->get_zsize() > 1) { 03177 LOGERR("BeamstopProcessor doesn't support 3D model"); 03178 throw ImageDimensionException("3D model not supported"); 03179 } 03180 03181 float value1 = params["value1"]; 03182 float value2 = params["value2"]; 03183 float value3 = params["value3"]; 03184 03185 float thr = fabs(value1); 03186 float *data = image->get_data(); 03187 int cenx = (int) value2; 03188 int ceny = (int) value3; 03189 03190 int nx = image->get_xsize(); 03191 int ny = image->get_ysize(); 03192 03193 if (cenx <= 0) { 03194 cenx = nx / 2; 03195 } 03196 03197 if (ceny <= 0) { 03198 ceny = ny / 2; 03199 } 03200 03201 int mxr = (int) floor(sqrt(2.0f) * nx / 2); 03202 03203 float *mean_values = new float[mxr]; 03204 float *sigma_values = new float[mxr]; 03205 double sum = 0; 03206 int count = 0; 03207 double square_sum = 0; 03208 03209 for (int i = 0; i < mxr; i++) { 03210 sum = 0; 03211 count = 0; 03212 square_sum = 0; 03213 int nitems = 6 * i + 2; 03214 03215 for (int j = 0; j < nitems; j++) { 03216 float ang = j * 2 * M_PI / nitems; 03217 int x0 = (int) floor(cos(ang) * i + cenx); 03218 int y0 = (int) floor(sin(ang) * i + ceny); 03219 03220 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny) { 03221 continue; 03222 } 03223 03224 float f = data[x0 + y0 * nx]; 03225 sum += f; 03226 square_sum += f * f; 03227 count++; 03228 } 03229 03230 mean_values[i] = (float)sum / count; 03231 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03232 } 03233 03234 03235 for (int k = 0; k < 5; k++) { 03236 for (int i = 0; i < mxr; i++) { 03237 sum = 0; 03238 count = 0; 03239 square_sum = 0; 03240 int nitems = 6 * i + 2; 03241 double thr1 = mean_values[i] - sigma_values[i] * thr; 03242 double thr2 = mean_values[i] + sigma_values[i]; 03243 03244 for (int j = 0; j < nitems; j++) { 03245 float ang = j * 2 * M_PI / nitems; 03246 int x0 = (int) floor(cos(ang) * i + cenx); 03247 int y0 = (int) floor(sin(ang) * i + ceny); 03248 03249 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny || 03250 data[x0 + y0 * nx] < thr1 || data[x0 + y0 * nx] > thr2) { 03251 continue; 03252 } 03253 03254 sum += data[x0 + y0 * nx]; 03255 square_sum += data[x0 + y0 * nx] * data[x0 + y0 * nx]; 03256 count++; 03257 } 03258 03259 mean_values[i] = (float) sum / count; 03260 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03261 } 03262 } 03263 03264 for (int i = 0; i < nx; i++) { 03265 for (int j = 0; j < ny; j++) { 03266 03267 #ifdef _WIN32 03268 int r = Util::round(_hypot((float) i - cenx, (float) j - ceny)); 03269 #else 03270 int r = Util::round(hypot((float) i - cenx, (float) j - ceny)); 03271 #endif //_WIN32 03272 03273 if (value1 < 0) { 03274 if (data[i + j * nx] < (mean_values[r] - sigma_values[r] * thr)) { 03275 data[i + j * nx] = 0; 03276 } 03277 else { 03278 data[i + j * nx] -= mean_values[r]; 03279 } 03280 continue; 03281 } 03282 if (data[i + j * nx] > (mean_values[r] - sigma_values[r] * thr)) { 03283 continue; 03284 } 03285 data[i + j * nx] = mean_values[r]; 03286 } 03287 } 03288 03289 if( mean_values ) 03290 { 03291 delete[]mean_values; 03292 mean_values = 0; 03293 } 03294 03295 if( sigma_values ) 03296 { 03297 delete[]sigma_values; 03298 sigma_values = 0; 03299 } 03300 03301 image->update(); 03302 }
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Definition at line 136 of file processor.cpp. |