#include <processor.h>
Inheritance diagram for EMAN::NormalizeToLeastSquareProcessor:
Public Member Functions | |
void | process_inplace (EMData *image) |
To process an image in-place. | |
string | get_name () const |
Get the processor's name. | |
TypeDict | get_param_types () const |
Get processor parameter information in a dictionary. | |
string | get_desc () const |
Get the descrition of this specific processor. | |
Static Public Member Functions | |
Processor * | NEW () |
Static Public Attributes | |
const string | NAME = "normalize.toimage" |
to | reference image normalize to | |
low_threshold | only take into account the reference image's pixel value between high and low threshold (zero is ignored) | |
high_threshold | only take into account the reference image's pixel value between high and low threshold (zero is ignored) |
Definition at line 4368 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 4392 of file processor.h. 04393 { 04394 return "use least square method to normalize"; 04395 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 4373 of file processor.h. 04374 {
04375 return NAME;
04376 }
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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 4383 of file processor.h. References EMAN::TypeDict::put(). 04384 { 04385 TypeDict d; 04386 d.put("to", EMObject::EMDATA, "reference image normalize to"); 04387 d.put("low_threshold", EMObject::FLOAT, "only take into account the reference image's pixel value between high and low threshold (zero is always ignored)"); 04388 d.put("high_threshold", EMObject::FLOAT, "only take into account the reference image's pixel value between high and low threshold (zero is always ignored)"); 04389 return d; 04390 }
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Definition at line 4378 of file processor.h. 04379 { 04380 return new NormalizeToLeastSquareProcessor(); 04381 }
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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 3696 of file processor.cpp. References b, EMAN::EMData::get_data(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), EMAN::Dict::has_key(), LOGWARN, nx, ny, EMAN::EMData::set_attr(), t, and EMAN::EMData::update(). 03697 { 03698 if (!image) { 03699 LOGWARN("NULL Image"); 03700 return; 03701 } 03702 03703 EMData *to = params["to"]; 03704 03705 float low_threshold = FLT_MIN; 03706 string low_thr_name = "low_threshold"; 03707 if (params.has_key(low_thr_name)) { 03708 low_threshold = params[low_thr_name]; 03709 } 03710 03711 float high_threshold = FLT_MAX; 03712 string high_thr_name = "high_threshold"; 03713 if (params.has_key(high_thr_name)) { 03714 high_threshold = params[high_thr_name]; 03715 } 03716 03717 float *rawp = image->get_data(); 03718 float *refp = to->get_data(); 03719 03720 int nx = image->get_xsize(); 03721 int ny = image->get_ysize(); 03722 int nz = image->get_zsize(); 03723 size_t size = nx * ny * nz; 03724 03725 float sum_x = 0; 03726 float sum_y = 0; 03727 int count = 0; 03728 03729 for (size_t i = 0; i < size; i++) { 03730 if (refp[i] >= low_threshold && refp[i] <= high_threshold && refp[i] != 0.0 && rawp[i] != 0.0) { 03731 count++; 03732 sum_x += refp[i]; 03733 sum_y += rawp[i]; 03734 } 03735 } 03736 03737 float sum_x_mean = sum_x / count; 03738 float sum_tt = 0; 03739 float b = 0; 03740 03741 float t; 03742 for (size_t i = 0; i < size; i++) { 03743 if (refp[i] >= low_threshold && refp[i] <= high_threshold && refp[i] != 0.0 && rawp[i] != 0.0) { 03744 t = refp[i] - sum_x_mean; 03745 sum_tt += t * t; 03746 b += t * rawp[i]; 03747 } 03748 } 03749 03750 b /= sum_tt; 03751 03752 float a = (sum_y - sum_x * b) / count; 03753 float scale = 1 / b; 03754 float shift = -a / b; 03755 03756 for (size_t i = 0; i < size; i++) { 03757 rawp[i] = (rawp[i] - a) / b; 03758 } 03759 03760 image->update(); 03761 03762 params["scale"] = scale; 03763 params["shift"] = shift; 03764 03765 image->set_attr("norm_mult",scale); 03766 image->set_attr("norm_add",shift); 03767 03768 }
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Definition at line 153 of file processor.cpp. |