#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 3791 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 3806 of file processor.h. 03807 { 03808 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."; 03809 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 3796 of file processor.h. References NAME. 03797 { 03798 return NAME; 03799 }
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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 3811 of file processor.h. References EMAN::EMObject::FLOAT, and EMAN::TypeDict::put(). 03812 { 03813 TypeDict d; 03814 d.put("value1", EMObject::FLOAT, "sig multiplier"); 03815 d.put("value2", EMObject::FLOAT, "x of center"); 03816 d.put("value3", EMObject::FLOAT, "y of center"); 03817 return d; 03818 }
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Definition at line 3801 of file processor.h. 03802 { 03803 return new BeamstopProcessor(); 03804 }
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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 3000 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(). 03001 { 03002 if (!image) { 03003 LOGWARN("NULL Image"); 03004 return; 03005 } 03006 if (image->get_zsize() > 1) { 03007 LOGERR("BeamstopProcessor doesn't support 3D model"); 03008 throw ImageDimensionException("3D model not supported"); 03009 } 03010 03011 float value1 = params["value1"]; 03012 float value2 = params["value2"]; 03013 float value3 = params["value3"]; 03014 03015 float thr = fabs(value1); 03016 float *data = image->get_data(); 03017 int cenx = (int) value2; 03018 int ceny = (int) value3; 03019 03020 int nx = image->get_xsize(); 03021 int ny = image->get_ysize(); 03022 03023 if (cenx <= 0) { 03024 cenx = nx / 2; 03025 } 03026 03027 if (ceny <= 0) { 03028 ceny = ny / 2; 03029 } 03030 03031 int mxr = (int) floor(sqrt(2.0f) * nx / 2); 03032 03033 float *mean_values = new float[mxr]; 03034 float *sigma_values = new float[mxr]; 03035 double sum = 0; 03036 int count = 0; 03037 double square_sum = 0; 03038 03039 for (int i = 0; i < mxr; i++) { 03040 sum = 0; 03041 count = 0; 03042 square_sum = 0; 03043 int nitems = 6 * i + 2; 03044 03045 for (int j = 0; j < nitems; j++) { 03046 float ang = j * 2 * M_PI / nitems; 03047 int x0 = (int) floor(cos(ang) * i + cenx); 03048 int y0 = (int) floor(sin(ang) * i + ceny); 03049 03050 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny) { 03051 continue; 03052 } 03053 03054 float f = data[x0 + y0 * nx]; 03055 sum += f; 03056 square_sum += f * f; 03057 count++; 03058 } 03059 03060 mean_values[i] = (float)sum / count; 03061 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03062 } 03063 03064 03065 for (int k = 0; k < 5; k++) { 03066 for (int i = 0; i < mxr; i++) { 03067 sum = 0; 03068 count = 0; 03069 square_sum = 0; 03070 int nitems = 6 * i + 2; 03071 double thr1 = mean_values[i] - sigma_values[i] * thr; 03072 double thr2 = mean_values[i] + sigma_values[i]; 03073 03074 for (int j = 0; j < nitems; j++) { 03075 float ang = j * 2 * M_PI / nitems; 03076 int x0 = (int) floor(cos(ang) * i + cenx); 03077 int y0 = (int) floor(sin(ang) * i + ceny); 03078 03079 if (x0 < 0 || y0 < 0 || x0 >= nx || y0 >= ny || 03080 data[x0 + y0 * nx] < thr1 || data[x0 + y0 * nx] > thr2) { 03081 continue; 03082 } 03083 03084 sum += data[x0 + y0 * nx]; 03085 square_sum += data[x0 + y0 * nx] * data[x0 + y0 * nx]; 03086 count++; 03087 } 03088 03089 mean_values[i] = (float) sum / count; 03090 sigma_values[i] = (float) sqrt(square_sum / count - mean_values[i] * mean_values[i]); 03091 } 03092 } 03093 03094 for (int i = 0; i < nx; i++) { 03095 for (int j = 0; j < ny; j++) { 03096 03097 #ifdef _WIN32 03098 int r = Util::round(_hypot((float) i - cenx, (float) j - ceny)); 03099 #else 03100 int r = Util::round(hypot((float) i - cenx, (float) j - ceny)); 03101 #endif //_WIN32 03102 03103 if (value1 < 0) { 03104 if (data[i + j * nx] < (mean_values[r] - sigma_values[r] * thr)) { 03105 data[i + j * nx] = 0; 03106 } 03107 else { 03108 data[i + j * nx] -= mean_values[r]; 03109 } 03110 continue; 03111 } 03112 if (data[i + j * nx] > (mean_values[r] - sigma_values[r] * thr)) { 03113 continue; 03114 } 03115 data[i + j * nx] = mean_values[r]; 03116 } 03117 } 03118 03119 if( mean_values ) 03120 { 03121 delete[]mean_values; 03122 mean_values = 0; 03123 } 03124 03125 if( sigma_values ) 03126 { 03127 delete[]sigma_values; 03128 sigma_values = 0; 03129 } 03130 03131 image->update(); 03132 }
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Definition at line 3820 of file processor.h. Referenced by get_name(). |