#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 | |
static Processor * | NEW () |
Static Public Attributes | |
static 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.
string EMAN::BeamstopProcessor::get_desc | ( | ) | const [inline, virtual] |
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 }
string EMAN::BeamstopProcessor::get_name | ( | ) | const [inline, virtual] |
Get the processor's name.
Each processor is identified by a unique name.
Implements EMAN::Processor.
Definition at line 3875 of file processor.h.
References NAME.
03876 { 03877 return NAME; 03878 }
TypeDict EMAN::BeamstopProcessor::get_param_types | ( | ) | const [inline, virtual] |
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::EMObject::FLOAT, and 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 }
static Processor* EMAN::BeamstopProcessor::NEW | ( | ) | [inline, static] |
void BeamstopProcessor::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.
image | The image to be processed. |
Implements EMAN::Processor.
Definition at line 3166 of file processor.cpp.
References EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), ImageDimensionException, LOGERR, LOGWARN, EMAN::Processor::params, EMAN::Util::round(), sqrt(), and EMAN::EMData::update().
03167 { 03168 if (!image) { 03169 LOGWARN("NULL Image"); 03170 return; 03171 } 03172 if (image->get_zsize() > 1) { 03173 LOGERR("BeamstopProcessor doesn't support 3D model"); 03174 throw ImageDimensionException("3D model not supported"); 03175 } 03176 03177 float value1 = params["value1"]; 03178 float value2 = params["value2"]; 03179 float value3 = params["value3"]; 03180 03181 float thr = fabs(value1); 03182 float *data = image->get_data(); 03183 int cenx = (int) value2; 03184 int ceny = (int) value3; 03185 03186 int nx = image->get_xsize(); 03187 int ny = image->get_ysize(); 03188 03189 if (cenx <= 0) { 03190 cenx = nx / 2; 03191 } 03192 03193 if (ceny <= 0) { 03194 ceny = ny / 2; 03195 } 03196 03197 int mxr = (int) floor(sqrt(2.0f) * nx / 2); 03198 03199 float *mean_values = new float[mxr]; 03200 float *sigma_values = new float[mxr]; 03201 double sum = 0; 03202 int count = 0; 03203 double square_sum = 0; 03204 03205 for (int i = 0; i < mxr; i++) { 03206 sum = 0; 03207 count = 0; 03208 square_sum = 0; 03209 int nitems = 6 * i + 2; 03210 03211 for (int j = 0; j < nitems; j++) { 03212 float ang = j * 2 * M_PI / nitems; 03213 int x0 = (int) floor(cos(ang) * i + cenx); 03214 int y0 = (int) floor(sin(ang) * i + ceny); 03215 03216 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny) { 03217 continue; 03218 } 03219 03220 float f = data[x0 + y0 * nx]; 03221 sum += f; 03222 square_sum += f * f; 03223 count++; 03224 } 03225 03226 mean_values[i] = (float)sum / count; 03227 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03228 } 03229 03230 03231 for (int k = 0; k < 5; k++) { 03232 for (int i = 0; i < mxr; i++) { 03233 sum = 0; 03234 count = 0; 03235 square_sum = 0; 03236 int nitems = 6 * i + 2; 03237 double thr1 = mean_values[i] - sigma_values[i] * thr; 03238 double thr2 = mean_values[i] + sigma_values[i]; 03239 03240 for (int j = 0; j < nitems; j++) { 03241 float ang = j * 2 * M_PI / nitems; 03242 int x0 = (int) floor(cos(ang) * i + cenx); 03243 int y0 = (int) floor(sin(ang) * i + ceny); 03244 03245 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny || 03246 data[x0 + y0 * nx] < thr1 || data[x0 + y0 * nx] > thr2) { 03247 continue; 03248 } 03249 03250 sum += data[x0 + y0 * nx]; 03251 square_sum += data[x0 + y0 * nx] * data[x0 + y0 * nx]; 03252 count++; 03253 } 03254 03255 mean_values[i] = (float) sum / count; 03256 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03257 } 03258 } 03259 03260 for (int i = 0; i < nx; i++) { 03261 for (int j = 0; j < ny; j++) { 03262 03263 #ifdef _WIN32 03264 int r = Util::round(_hypot((float) i - cenx, (float) j - ceny)); 03265 #else 03266 int r = Util::round(hypot((float) i - cenx, (float) j - ceny)); 03267 #endif //_WIN32 03268 03269 if (value1 < 0) { 03270 if (data[i + j * nx] < (mean_values[r] - sigma_values[r] * thr)) { 03271 data[i + j * nx] = 0; 03272 } 03273 else { 03274 data[i + j * nx] -= mean_values[r]; 03275 } 03276 continue; 03277 } 03278 if (data[i + j * nx] > (mean_values[r] - sigma_values[r] * thr)) { 03279 continue; 03280 } 03281 data[i + j * nx] = mean_values[r]; 03282 } 03283 } 03284 03285 if( mean_values ) 03286 { 03287 delete[]mean_values; 03288 mean_values = 0; 03289 } 03290 03291 if( sigma_values ) 03292 { 03293 delete[]sigma_values; 03294 sigma_values = 0; 03295 } 03296 03297 image->update(); 03298 }
const string BeamstopProcessor::NAME = "mask.beamstop" [static] |