#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 5346 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 5361 of file processor.h. 05362 { 05363 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."; 05364 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 5351 of file processor.h. 05352 {
05353 return NAME;
05354 }
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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 5366 of file processor.h. References EMAN::TypeDict::put(). 05367 { 05368 TypeDict d; 05369 d.put("threshold", EMObject::FLOAT, "an isosurface threshold at which all desired features are visible"); 05370 d.put("radius", EMObject::FLOAT, "a normalization size similar to an lp= value"); 05371 d.put("apix", EMObject::FLOAT, "Angstrom per pixel ratio"); 05372 return d; 05373 }
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Definition at line 5356 of file processor.h. 05357 { 05358 return new LocalNormProcessor(); 05359 }
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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 5990 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(). 05991 { 05992 if (!image) { 05993 LOGWARN("NULL Image"); 05994 return; 05995 } 05996 float apix = params["apix"]; 05997 float threshold = params["threshold"]; 05998 float radius = params["radius"]; 05999 06000 if (apix > 0) { 06001 int ny = image->get_ysize(); 06002 radius = ny * apix / radius; 06003 //printf("Norm filter radius=%1.1f\n", radius); 06004 } 06005 06006 EMData *blur = image->copy(); 06007 EMData *maskblur = image->copy(); 06008 06009 maskblur->process_inplace("threshold.binary", Dict("value", threshold)); 06010 maskblur->process_inplace("filter.lowpass.gauss", Dict("cutoff_pixels", radius)); 06011 // maskblur->process_inplace("filter.highpass.tanh", Dict("highpass", -10.0f)); 06012 maskblur->process_inplace("threshold.belowtozero", Dict("minval", 0.001f)); 06013 // maskblur->process_inplace("threshold.belowtozero", Dict("minval", 0.001f)); 06014 06015 06016 blur->process_inplace("threshold.belowtozero", Dict("minval", threshold)); 06017 blur->process_inplace("filter.lowpass.gauss", Dict("cutoff_pixels", radius)); 06018 // blur->process_inplace("filter.highpass.tanh", Dict("cutoff_abs", -10.0f)); 06019 06020 maskblur->div(*blur); 06021 image->mult(*maskblur); 06022 // maskblur->write_image("norm.mrc", 0, EMUtil::IMAGE_MRC); 06023 06024 if( maskblur ) 06025 { 06026 delete maskblur; 06027 maskblur = 0; 06028 } 06029 06030 if( blur ) 06031 { 06032 delete blur; 06033 blur = 0; 06034 } 06035 }
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Definition at line 177 of file processor.cpp. |