#include <processor.h>
Inheritance diagram for EMAN::LocalNormProcessor:
Public Member Functions | |
void | process_inplace (EMData *image) |
To process an image in-place. | |
virtual string | get_name () const |
Get the processor's name. | |
virtual string | get_desc () const |
Get the descrition of this specific processor. | |
virtual TypeDict | get_param_types () const |
Get processor parameter information in a dictionary. | |
Static Public Member Functions | |
Processor * | NEW () |
Static Public Attributes | |
const string | NAME = "normalize.local" |
threshold is an isosurface threshold at which all desired features are visible, radius is a normalization size similar to an lp= value.
threshold | an isosurface threshold at which all desired features are visible | |
radius | a normalization size similar to an lp= value | |
apix | Angstrom per pixel ratio |
Definition at line 5230 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 5245 of file processor.h. 05246 { 05247 return "This processor attempts to perform a 'local normalization' so low density and high density features will be on a more even playing field in an isosurface display. threshold is an isosurface threshold at which all desired features are visible, radius is a feature size over which to equalize."; 05248 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 5235 of file processor.h. 05236 {
05237 return NAME;
05238 }
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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 5250 of file processor.h. References EMAN::TypeDict::put(). 05251 { 05252 TypeDict d; 05253 d.put("threshold", EMObject::FLOAT, "an isosurface threshold at which all desired features are visible"); 05254 d.put("radius", EMObject::FLOAT, "a normalization size similar to an lp= value"); 05255 d.put("apix", EMObject::FLOAT, "Angstrom per pixel ratio"); 05256 return d; 05257 }
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Definition at line 5240 of file processor.h. 05241 { 05242 return new LocalNormProcessor(); 05243 }
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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 5800 of file processor.cpp. References EMAN::EMData::copy(), EMAN::EMData::div(), EMAN::EMData::get_ysize(), LOGWARN, EMAN::EMData::mult(), ny, and EMAN::EMData::process_inplace(). 05801 { 05802 if (!image) { 05803 LOGWARN("NULL Image"); 05804 return; 05805 } 05806 float apix = params["apix"]; 05807 float threshold = params["threshold"]; 05808 float radius = params["radius"]; 05809 05810 if (apix > 0) { 05811 int ny = image->get_ysize(); 05812 radius = ny * apix / radius; 05813 //printf("Norm filter radius=%1.1f\n", radius); 05814 } 05815 05816 EMData *blur = image->copy(); 05817 EMData *maskblur = image->copy(); 05818 05819 maskblur->process_inplace("threshold.binary", Dict("value", threshold)); 05820 maskblur->process_inplace("filter.lowpass.gauss", Dict("cutoff_pixels", radius)); 05821 // maskblur->process_inplace("filter.highpass.tanh", Dict("highpass", -10.0f)); 05822 maskblur->process_inplace("threshold.belowtozero", Dict("minval", 0.001f)); 05823 // maskblur->process_inplace("threshold.belowtozero", Dict("minval", 0.001f)); 05824 05825 05826 blur->process_inplace("threshold.belowtozero", Dict("minval", threshold)); 05827 blur->process_inplace("filter.lowpass.gauss", Dict("cutoff_pixels", radius)); 05828 // blur->process_inplace("filter.highpass.tanh", Dict("cutoff_abs", -10.0f)); 05829 05830 maskblur->div(*blur); 05831 image->mult(*maskblur); 05832 // maskblur->write_image("norm.mrc", 0, EMUtil::IMAGE_MRC); 05833 05834 if( maskblur ) 05835 { 05836 delete maskblur; 05837 maskblur = 0; 05838 } 05839 05840 if( blur ) 05841 { 05842 delete blur; 05843 blur = 0; 05844 } 05845 }
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Definition at line 176 of file processor.cpp. |