#include <processor.h>
Inheritance diagram for EMAN::TestImageFourierNoiseProfile:
Public Member Functions | |
virtual 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 = "testimage.noise.fourier.profile" |
Definition at line 5856 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 5866 of file processor.h. 05867 { 05868 return "Replace a source image with Fourier noise using amplitude information that is stored in a profile."; 05869 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 5861 of file processor.h. 05862 {
05863 return NAME;
05864 }
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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 5876 of file processor.h. References EMAN::TypeDict::put(). 05877 { 05878 TypeDict d; 05879 d.put("profile", EMObject::FLOATARRAY, "The noise profile, squared amplitude. As in, what is the EMAN2CTF.background attribute"); 05880 return d; 05881 }
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Definition at line 5871 of file processor.h. 05872 { 05873 return new TestImageFourierNoiseProfile(); 05874 }
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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 6769 of file processor.cpp. References EMAN::EMData::ap2ri(), EMAN::EMData::depad(), EMAN::EMData::do_ift_inplace(), EMAN::EMData::get_data(), EMAN::Util::get_frand(), EMAN::EMData::get_ndim(), EMAN::EMData::get_xsize(), EMAN::EMData::get_ysize(), EMAN::EMData::get_zsize(), EMAN::Dict::has_key(), InvalidParameterException, EMAN::EMData::is_complex(), EMAN::length(), nx, ny, phase(), EMAN::EMData::process_inplace(), EMAN::EMData::ri2ap(), EMAN::EMData::set_complex(), EMAN::EMData::set_fftodd(), EMAN::EMData::set_fftpad(), EMAN::EMData::set_size(), sqrt(), EMAN::EMData::to_zero(), x, and y. 06769 { 06770 06771 if (params.has_key("profile")==false) throw InvalidParameterException("You must supply the profile argument"); 06772 06773 if (!image->is_complex()) { 06774 int nx = image->get_xsize(); 06775 int offset = 2 - nx%2; 06776 06777 image->set_size(nx+offset,image->get_ysize(),image->get_zsize()); 06778 image->set_complex(true); 06779 if (1 == offset) image->set_fftodd(true); 06780 else image->set_fftodd(false); 06781 image->set_fftpad(true); 06782 } 06783 image->to_zero(); 06784 image->ri2ap(); 06785 06786 vector<float> profile = params["profile"]; 06787 transform(profile.begin(),profile.end(),profile.begin(),sqrtf); 06788 06789 int i = static_cast<int>(profile.size()); 06790 06791 float * d = image->get_data(); 06792 int nx = image->get_xsize(); 06793 int ny = image->get_ysize(); 06794 int nxy = image->get_ysize()*nx; 06795 int nzon2 = image->get_zsize()/2; 06796 int nyon2 = image->get_ysize()/2; 06797 float rx, ry, rz, amp, phase; 06798 int length; 06799 int twox; 06800 for (int z = 0; z< image->get_zsize(); ++z) { 06801 for (int y = 0; y < image->get_ysize(); ++y) { 06802 for (int x = 0; x < image->get_xsize()/2; ++x) { 06803 rx = (float)x; 06804 ry = (float)nyon2 - (float)y; 06805 rz = (float)nzon2 - (float)z; 06806 length = static_cast<int>(sqrt(rx*rx + ry*ry + rz*rz)); 06807 06808 twox = 2*x; 06809 size_t idx1 = twox + y*nx+z*nxy; 06810 size_t idx2 = idx1 + 1; 06811 06812 06813 if (length >= i) { 06814 d[idx1] = 0; 06815 d[idx2] = 0; 06816 continue; 06817 } 06818 amp = profile[length]; 06819 phase = Util::get_frand(0,1)*2*M_PI; 06820 06821 06822 d[idx1] = amp; 06823 d[idx2] = phase; 06824 06825 } 06826 } 06827 } 06828 06829 image->ap2ri(); 06830 if (image->get_ndim() == 2) { 06831 bool yodd = image->get_ysize() % 2 == 1; 06832 06833 int yit = image->get_ysize()/2-1; 06834 int offset = 1; 06835 if (yodd) { 06836 offset = 0; 06837 } 06838 for (int y = 0; y < yit; ++y) { 06839 int bot_idx = (y+offset)*nx; 06840 int top_idx = (ny-1-y)*nx; 06841 float r1 = d[bot_idx]; 06842 float i1 = d[bot_idx+1]; 06843 float r2 = d[top_idx]; 06844 float i2 = d[top_idx+1]; 06845 float r = (r1 + r2)/2.0f; 06846 float i = (i1 + i2)/2.0f; 06847 d[bot_idx] = r; 06848 d[top_idx] = r; 06849 d[bot_idx+1] = i; 06850 d[top_idx+1] = -i; 06851 06852 bot_idx = (y+offset)*nx+nx-2; 06853 top_idx = (ny-1-y)*nx+nx-2; 06854 r1 = d[bot_idx]; 06855 i1 = d[bot_idx+1]; 06856 r2 = d[top_idx]; 06857 i2 = d[top_idx+1]; 06858 r = (r1 + r2)/2.0f; 06859 i = (i1 + i2)/2.0f; 06860 d[bot_idx] = r; 06861 d[top_idx] = r; 06862 d[bot_idx+1] = i; 06863 d[top_idx+1] = -i; 06864 } 06865 06866 d[1] = 0; // 0 phase for this componenet 06867 d[nx-1] = 0; // 0 phase for this component 06868 d[ny/2*nx+nx-1] = 0;// 0 phase for this component 06869 d[ny/2*nx+1] = 0;// 0 phase for this component 06870 } 06871 06872 if (image->get_ndim() != 1) image->process_inplace("xform.fourierorigin.tocorner"); 06873 image->do_ift_inplace(); 06874 image->depad(); 06875 }
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Definition at line 192 of file processor.cpp. |