#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 5825 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 5835 of file processor.h. 05836 { 05837 return "Replace a source image with Fourier noise using amplitude information that is stored in a profile."; 05838 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 5830 of file processor.h. 05831 {
05832 return NAME;
05833 }
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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 5845 of file processor.h. References EMAN::TypeDict::put(). 05846 { 05847 TypeDict d; 05848 d.put("profile", EMObject::FLOATARRAY, "The noise profile, squared amplitude. As in, what is the EMAN2CTF.background attribute"); 05849 return d; 05850 }
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Definition at line 5840 of file processor.h. 05841 { 05842 return new TestImageFourierNoiseProfile(); 05843 }
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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 6871 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. 06871 { 06872 06873 if (params.has_key("profile")==false) throw InvalidParameterException("You must supply the profile argument"); 06874 06875 if (!image->is_complex()) { 06876 int nx = image->get_xsize(); 06877 int offset = 2 - nx%2; 06878 06879 image->set_size(nx+offset,image->get_ysize(),image->get_zsize()); 06880 image->set_complex(true); 06881 if (1 == offset) image->set_fftodd(true); 06882 else image->set_fftodd(false); 06883 image->set_fftpad(true); 06884 } 06885 image->to_zero(); 06886 image->ri2ap(); 06887 06888 vector<float> profile = params["profile"]; 06889 transform(profile.begin(),profile.end(),profile.begin(),sqrtf); 06890 06891 int i = static_cast<int>(profile.size()); 06892 06893 float * d = image->get_data(); 06894 int nx = image->get_xsize(); 06895 int ny = image->get_ysize(); 06896 int nxy = image->get_ysize()*nx; 06897 int nzon2 = image->get_zsize()/2; 06898 int nyon2 = image->get_ysize()/2; 06899 float rx, ry, rz, amp, phase; 06900 int length; 06901 int twox; 06902 for (int z = 0; z< image->get_zsize(); ++z) { 06903 for (int y = 0; y < image->get_ysize(); ++y) { 06904 for (int x = 0; x < image->get_xsize()/2; ++x) { 06905 rx = (float)x; 06906 ry = (float)nyon2 - (float)y; 06907 rz = (float)nzon2 - (float)z; 06908 length = static_cast<int>(sqrt(rx*rx + ry*ry + rz*rz)); 06909 06910 twox = 2*x; 06911 size_t idx1 = twox + y*nx+(size_t)z*nxy; 06912 size_t idx2 = idx1 + 1; 06913 06914 06915 if (length >= i) { 06916 d[idx1] = 0; 06917 d[idx2] = 0; 06918 continue; 06919 } 06920 amp = profile[length]; 06921 phase = Util::get_frand(0,1)*2*M_PI; 06922 06923 06924 d[idx1] = amp; 06925 d[idx2] = phase; 06926 06927 } 06928 } 06929 } 06930 06931 image->ap2ri(); 06932 if (image->get_ndim() == 2) { 06933 bool yodd = image->get_ysize() % 2 == 1; 06934 06935 int yit = image->get_ysize()/2-1; 06936 int offset = 1; 06937 if (yodd) { 06938 offset = 0; 06939 } 06940 for (int y = 0; y < yit; ++y) { 06941 int bot_idx = (y+offset)*nx; 06942 int top_idx = (ny-1-y)*nx; 06943 float r1 = d[bot_idx]; 06944 float i1 = d[bot_idx+1]; 06945 float r2 = d[top_idx]; 06946 float i2 = d[top_idx+1]; 06947 float r = (r1 + r2)/2.0f; 06948 float i = (i1 + i2)/2.0f; 06949 d[bot_idx] = r; 06950 d[top_idx] = r; 06951 d[bot_idx+1] = i; 06952 d[top_idx+1] = -i; 06953 06954 bot_idx = (y+offset)*nx+nx-2; 06955 top_idx = (ny-1-y)*nx+nx-2; 06956 r1 = d[bot_idx]; 06957 i1 = d[bot_idx+1]; 06958 r2 = d[top_idx]; 06959 i2 = d[top_idx+1]; 06960 r = (r1 + r2)/2.0f; 06961 i = (i1 + i2)/2.0f; 06962 d[bot_idx] = r; 06963 d[top_idx] = r; 06964 d[bot_idx+1] = i; 06965 d[top_idx+1] = -i; 06966 } 06967 06968 d[1] = 0; // 0 phase for this componenet 06969 d[nx-1] = 0; // 0 phase for this component 06970 d[ny/2*nx+nx-1] = 0;// 0 phase for this component 06971 d[ny/2*nx+1] = 0;// 0 phase for this component 06972 } 06973 06974 if (image->get_ndim() != 1) image->process_inplace("xform.fourierorigin.tocorner"); 06975 image->do_ift_inplace(); 06976 image->depad(); 06977 }
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Definition at line 192 of file processor.cpp. |