#include <processor.h>
Inheritance diagram for EMAN::CTFSNRWeightProcessor:
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 | |
static Processor * | NEW () |
Static Public Attributes | |
static const string | NAME = "ctf.snr.weight" |
Definition at line 5932 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 5942 of file processor.h. 05943 { 05944 return "Weight the amplitudes of an image based on radial noise and snr curves "; 05945 }
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Get the processor's name. Each processor is identified by a unique name.
Implements EMAN::Processor. Definition at line 5937 of file processor.h. References NAME. 05938 { 05939 return NAME; 05940 }
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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 5952 of file processor.h. References EMAN::EMObject::FLOAT, EMAN::EMObject::FLOATARRAY, and EMAN::TypeDict::put(). 05953 { 05954 TypeDict d; 05955 d.put("noise", EMObject::FLOATARRAY, "The noise profile, squared amplitude. As in, what is the EMAN2CTF.background attribute"); 05956 d.put("snr", EMObject::FLOATARRAY, "Squared amplitude divided by squared noise amplitude. As in, what is the EMAN2CTF.snr attribute"); 05957 d.put("boost", EMObject::FLOAT, "Multiplicative signal boost"); 05958 return d; 05959 }
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Definition at line 5947 of file processor.h. 05948 { 05949 return new CTFSNRWeightProcessor(); 05950 }
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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 6816 of file processor.cpp. References EMAN::EMData::ap2ri(), EMAN::EMData::calc_radial_dist(), EMAN::EMData::copy(), EMAN::EMData::depad(), EMAN::EMData::do_fft_inplace(), EMAN::EMData::do_ift_inplace(), EMAN::EMData::get_data(), EMAN::EMData::get_ndim(), get_xsize(), EMAN::EMData::get_xsize(), get_ysize(), EMAN::EMData::get_ysize(), get_zsize(), EMAN::EMData::get_zsize(), EMAN::Dict::has_key(), InvalidParameterException, EMAN::EMData::is_complex(), EMAN::length(), EMAN::Processor::params, EMAN::EMData::process_inplace(), EMAN::EMData::ri2ap(), EMAN::EMData::ri2inten(), EMAN::Dict::set_default(), sqrt(), and x. 06816 { 06817 if (params.has_key("noise")==false) throw InvalidParameterException("You must supply the noise argument"); 06818 if (params.has_key("snr")==false) throw InvalidParameterException("You must supply the snr argument"); 06819 06820 float boost = params.set_default("boost",1.0f); 06821 06822 if (!image->is_complex()) { 06823 image->do_fft_inplace(); 06824 } 06825 EMData* cpy = image->copy(); 06826 cpy->ri2inten(); 06827 vector<float> sf = cpy->calc_radial_dist(cpy->get_ysize()/2,0.0,1.0,1); 06828 transform(sf.begin(),sf.end(),sf.begin(),sqrtf); 06829 delete cpy; 06830 06831 image->ri2ap(); 06832 06833 vector<float> noise = params["noise"]; 06834 vector<float> snr = params["snr"]; 06835 06836 // copy(snr.begin(), snr.end(), ostream_iterator<float>(cout, "\n")); 06837 // copy(noise.begin(), noise.end(), ostream_iterator<float>(cout, "\n")); 06838 06839 for(vector<float>::iterator it = noise.begin(); it != noise.end(); ++it){ 06840 if ((*it) == 0) *it = 1; 06841 } 06842 for(vector<float>::iterator it = snr.begin(); it != snr.end(); ++it){ 06843 if ((*it) < 0) *it = 0; 06844 } 06845 // Subtract the mean from the data and store it in data_mm 06846 transform(snr.begin(),snr.end(),noise.begin(),snr.begin(),std::multiplies<float>()); 06847 transform(snr.begin(),snr.end(),snr.begin(),sqrtf); 06848 // copy(snr.begin(), snr.end(), ostream_iterator<float>(cout, "\n")); 06849 // copy(noise.begin(), noise.end(), ostream_iterator<float>(cout, "\n")); 06850 06851 int i = static_cast<int>(snr.size()); 06852 06853 float * d = image->get_data(); 06854 int nx = image->get_xsize(); 06855 // int ny = image->get_ysize(); 06856 int nxy = image->get_ysize()*nx; 06857 int nzon2 = image->get_zsize()/2; 06858 int nyon2 = image->get_ysize()/2; 06859 float rx, ry, rz, amp; 06860 int length; 06861 int twox; 06862 image->process_inplace("xform.fourierorigin.tocenter"); 06863 for (int z = 0; z< image->get_zsize(); ++z) { 06864 for (int y = 0; y < image->get_ysize(); ++y) { 06865 for (int x = 0; x < image->get_xsize()/2; ++x) { 06866 rx = (float)x; 06867 ry = (float)nyon2 - (float)y; 06868 rz = (float)nzon2 - (float)z; 06869 length = static_cast<int>(sqrt(rx*rx + ry*ry + rz*rz)); 06870 06871 twox = 2*x; 06872 size_t idx1 = twox + y*nx+z*nxy; 06873 if (length >= i || length >= (int)sf.size()) { 06874 d[idx1] = 0; 06875 continue; 06876 } else { 06877 amp = boost*snr[length]; 06878 // if (amp > 0) amp =sqrtf(amp); 06879 // else amp = 0; 06880 } 06881 06882 if (sf[length] == 0) { 06883 d[idx1] = 0; 06884 continue; 06885 } 06886 06887 // size_t idx2 = idx1 + 1; 06888 // cout << d[idx1] << " " << sf[length] << endl; 06889 d[idx1] /= sf[length]; 06890 if (d[idx1] < 0) { 06891 d[idx1] *= amp; 06892 }else { 06893 d[idx1] *= -amp; 06894 } 06895 // d[idx2] = phase; 06896 06897 } 06898 } 06899 } 06900 06901 image->ap2ri(); 06902 if (image->get_ndim() != 1) image->process_inplace("xform.fourierorigin.tocorner"); 06903 image->do_ift_inplace(); 06904 image->depad(); 06905 }
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Definition at line 5961 of file processor.h. Referenced by get_name(). |