#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 3794 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 3809 of file processor.h. 03810 { 03811 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."; 03812 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 3799 of file processor.h. 03800 {
03801 return NAME;
03802 }
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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 3814 of file processor.h. References EMAN::TypeDict::put(). 03815 { 03816 TypeDict d; 03817 d.put("value1", EMObject::FLOAT, "sig multiplier"); 03818 d.put("value2", EMObject::FLOAT, "x of center"); 03819 d.put("value3", EMObject::FLOAT, "y of center"); 03820 return d; 03821 }
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Definition at line 3804 of file processor.h. 03805 { 03806 return new BeamstopProcessor(); 03807 }
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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 3075 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(). 03076 { 03077 if (!image) { 03078 LOGWARN("NULL Image"); 03079 return; 03080 } 03081 if (image->get_zsize() > 1) { 03082 LOGERR("BeamstopProcessor doesn't support 3D model"); 03083 throw ImageDimensionException("3D model not supported"); 03084 } 03085 03086 float value1 = params["value1"]; 03087 float value2 = params["value2"]; 03088 float value3 = params["value3"]; 03089 03090 float thr = fabs(value1); 03091 float *data = image->get_data(); 03092 int cenx = (int) value2; 03093 int ceny = (int) value3; 03094 03095 int nx = image->get_xsize(); 03096 int ny = image->get_ysize(); 03097 03098 if (cenx <= 0) { 03099 cenx = nx / 2; 03100 } 03101 03102 if (ceny <= 0) { 03103 ceny = ny / 2; 03104 } 03105 03106 int mxr = (int) floor(sqrt(2.0f) * nx / 2); 03107 03108 float *mean_values = new float[mxr]; 03109 float *sigma_values = new float[mxr]; 03110 double sum = 0; 03111 int count = 0; 03112 double square_sum = 0; 03113 03114 for (int i = 0; i < mxr; i++) { 03115 sum = 0; 03116 count = 0; 03117 square_sum = 0; 03118 int nitems = 6 * i + 2; 03119 03120 for (int j = 0; j < nitems; j++) { 03121 float ang = j * 2 * M_PI / nitems; 03122 int x0 = (int) floor(cos(ang) * i + cenx); 03123 int y0 = (int) floor(sin(ang) * i + ceny); 03124 03125 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny) { 03126 continue; 03127 } 03128 03129 float f = data[x0 + y0 * nx]; 03130 sum += f; 03131 square_sum += f * f; 03132 count++; 03133 } 03134 03135 mean_values[i] = (float)sum / count; 03136 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03137 } 03138 03139 03140 for (int k = 0; k < 5; k++) { 03141 for (int i = 0; i < mxr; i++) { 03142 sum = 0; 03143 count = 0; 03144 square_sum = 0; 03145 int nitems = 6 * i + 2; 03146 double thr1 = mean_values[i] - sigma_values[i] * thr; 03147 double thr2 = mean_values[i] + sigma_values[i]; 03148 03149 for (int j = 0; j < nitems; j++) { 03150 float ang = j * 2 * M_PI / nitems; 03151 int x0 = (int) floor(cos(ang) * i + cenx); 03152 int y0 = (int) floor(sin(ang) * i + ceny); 03153 03154 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny || 03155 data[x0 + y0 * nx] < thr1 || data[x0 + y0 * nx] > thr2) { 03156 continue; 03157 } 03158 03159 sum += data[x0 + y0 * nx]; 03160 square_sum += data[x0 + y0 * nx] * data[x0 + y0 * nx]; 03161 count++; 03162 } 03163 03164 mean_values[i] = (float) sum / count; 03165 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03166 } 03167 } 03168 03169 for (int i = 0; i < nx; i++) { 03170 for (int j = 0; j < ny; j++) { 03171 03172 #ifdef _WIN32 03173 int r = Util::round(_hypot((float) i - cenx, (float) j - ceny)); 03174 #else 03175 int r = Util::round(hypot((float) i - cenx, (float) j - ceny)); 03176 #endif //_WIN32 03177 03178 if (value1 < 0) { 03179 if (data[i + j * nx] < (mean_values[r] - sigma_values[r] * thr)) { 03180 data[i + j * nx] = 0; 03181 } 03182 else { 03183 data[i + j * nx] -= mean_values[r]; 03184 } 03185 continue; 03186 } 03187 if (data[i + j * nx] > (mean_values[r] - sigma_values[r] * thr)) { 03188 continue; 03189 } 03190 data[i + j * nx] = mean_values[r]; 03191 } 03192 } 03193 03194 if( mean_values ) 03195 { 03196 delete[]mean_values; 03197 mean_values = 0; 03198 } 03199 03200 if( sigma_values ) 03201 { 03202 delete[]sigma_values; 03203 sigma_values = 0; 03204 } 03205 03206 image->update(); 03207 }
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Definition at line 141 of file processor.cpp. |