#include <processor.h>
Inheritance diagram for EMAN::NonConvexProcessor:
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 = "math.nonconvex" |
Definition at line 3696 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 3710 of file processor.h. 03711 { 03712 return "Makes a curve or plane monotonically decreasing and non-convex. Useful in generating background curves from power spectra. Anchored at edges and (in 2d) at the center. If local value > mean(surrounding values) => mean(surrounding values)."; 03713 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 3701 of file processor.h. 03702 {
03703 return NAME;
03704 }
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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 3715 of file processor.h. 03716 { 03717 TypeDict d; 03718 /* d.put("mask", EMObject::EMDATA, "mask object: nonzero pixel positions will be used to fit plane. default = 0"); 03719 d.put("changeZero", EMObject::INT, "if zero pixels are modified when removing gradient. default = 0"); 03720 d.put("planeParam", EMObject::FLOATARRAY, "fitted plane parameters output");*/ 03721 return d; 03722 }
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Definition at line 3705 of file processor.h. 03706 { 03707 return new NonConvexProcessor(); 03708 }
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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 2780 of file processor.cpp. References EMAN::EMData::calc_radial_dist(), EMAN::EMData::copy(), EMAN::EMData::get_data(), EMAN::EMData::get_value_at(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), ImageDimensionException, LOGWARN, EMAN::EMData::process_inplace(), EMAN::EMData::set_complex(), EMAN::EMData::set_fftpad(), EMAN::EMData::set_value_at_fast(), EMAN::EMData::update(), x, and y. 02780 { 02781 if (!image) { LOGWARN("NULL IMAGE"); return; } 02782 //int isinten=image->get_attr_default("is_intensity",0); 02783 02784 // 1-D 02785 if (image->get_ysize()==1) { 02786 02787 } 02788 // 2-D 02789 else if (image->get_zsize()==1) { 02790 // if (!isinten) throw ImageDimensionException("Only complex intensity images currently supported by NonConvexProcessor"); 02791 int nx2=image->get_xsize()/2; 02792 int ny2=image->get_ysize()/2; 02793 vector<float> rdist = image->calc_radial_dist(nx2*1.5,0,1,false); // radial distribution to make sure nonconvex values decrease radially 02794 // Make sure rdist is decreasing (or flat) 02795 for (int i=1; i<nx2; i++) { 02796 if (rdist[i]>rdist[i-1]) rdist[i]=rdist[i-1]; 02797 } 02798 02799 image->process_inplace("xform.fourierorigin.tocenter"); 02800 EMData* binary=image->copy(); 02801 02802 // First we eliminate convex points from the input image (set to zero) 02803 for (int x=0; x<image->get_xsize(); x+=2) { 02804 for (int y=1; y<image->get_ysize()-1; y++) { 02805 int r=(int)hypot((float)(x/2),(float)(y-ny2)); 02806 float cen=(*binary)(x,y); 02807 if (x==0 || x==nx2*2-2 || (cen>(*binary)(x+2,y) || cen>(*binary)(x-2,y) || cen>(*binary)(x,y+1) || cen >(*binary)(x,y-1) || (*binary)(x,y)>rdist[r])) { // point is considered nonconvex if lower than surrounding values and lower than mean 02808 image->set_value_at_fast(x/2+nx2,y,0.0); // we are turning image into a full real-space intensity image for now 02809 image->set_value_at_fast(nx2-x/2,ny2*2-y-1,0.0); 02810 } 02811 else { 02812 image->set_value_at_fast(x/2+nx2,y,cen); // we are turning image into a full real-space intensity image for now 02813 image->set_value_at_fast(nx2-x/2,ny2*2-y-1,cen); // It will contain non-zero values only for nonconvex points 02814 } 02815 } 02816 } 02817 image->set_value_at_fast(nx2+1,ny2,(*binary)(2,ny2)); // We keep the points near the Fourier origin as a central anchor even though it's convex 02818 image->set_value_at_fast(nx2-1,ny2,(*binary)(2,ny2)); // We keep the points near the Fourier origin as a central anchor even though it's convex 02819 image->set_value_at_fast(nx2,ny2+1,(*binary)(0,ny2+1)); // We keep the points near the Fourier origin as a central anchor even though it's convex 02820 image->set_value_at_fast(nx2,ny2-1,(*binary)(0,ny2-1)); // We keep the points near the Fourier origin as a central anchor even though it's convex 02821 for (int y=0; y<ny2*2; y++) image->set_value_at_fast(0,y,0.0f); 02822 02823 // Now make a binary version of the convex points 02824 float *idat=image->get_data(); 02825 float *bdat=binary->get_data(); 02826 int nxy=(nx2*ny2*4); 02827 for (int i=0; i<nxy; i++) { 02828 bdat[i]=idat[i]==0?0:1.0f; // binary version of the convex points in image 02829 } 02830 binary->update(); 02831 02832 // We now use a Gaussian filter on both images, to use Gaussian interpolation to fill in zero values 02833 image->set_complex(false); // so we can use a Gaussian filter on it 02834 binary->set_complex(false); 02835 02836 /* image->write_image("con.hdf",0);*/ 02837 image->set_fftpad(false); 02838 binary->set_fftpad(false); 02839 02840 // Gaussian blur of both images 02841 image->process_inplace("filter.lowpass.gauss",Dict("cutoff_abs",0.04f)); 02842 binary->process_inplace("filter.lowpass.gauss",Dict("cutoff_abs",0.04f)); 02843 02844 /* image->write_image("con.hdf",1); 02845 binary->write_image("con.hdf",2);*/ 02846 02847 for (int x=0; x<image->get_xsize(); x+=2) { 02848 for (int y=0; y<image->get_ysize(); y++) { 02849 float bv=binary->get_value_at(x/2+nx2,y); 02850 image->set_value_at_fast(x,y,image->get_value_at(x/2+nx2,y)/(bv<=0?1.0f:bv)); 02851 image->set_value_at_fast(x+1,y,0.0); 02852 } 02853 } 02854 image->set_complex(true); 02855 image->set_fftpad(true); 02856 image->process_inplace("xform.fourierorigin.tocorner"); 02857 delete binary; 02858 } 02859 else throw ImageDimensionException("3D maps not yet supported by NonConvexProcessor"); 02860 02861 }
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Definition at line 118 of file processor.cpp. |