#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 | |
static Processor * | NEW () |
Static Public Attributes | |
static const string | NAME = "testimage.noise.fourier.profile" |
Definition at line 5897 of file processor.h.
virtual string EMAN::TestImageFourierNoiseProfile::get_desc | ( | ) | const [inline, virtual] |
Get the descrition of this specific processor.
This function must be overwritten by a subclass.
Implements EMAN::Processor.
Definition at line 5907 of file processor.h.
05908 { 05909 return "Replace a source image with Fourier noise using amplitude information that is stored in a profile."; 05910 }
virtual string EMAN::TestImageFourierNoiseProfile::get_name | ( | ) | const [inline, virtual] |
Get the processor's name.
Each processor is identified by a unique name.
Implements EMAN::Processor.
Definition at line 5902 of file processor.h.
References NAME.
05903 { 05904 return NAME; 05905 }
virtual TypeDict EMAN::TestImageFourierNoiseProfile::get_param_types | ( | ) | const [inline, virtual] |
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 5917 of file processor.h.
References EMAN::EMObject::FLOATARRAY, and EMAN::TypeDict::put().
05918 { 05919 TypeDict d; 05920 d.put("profile", EMObject::FLOATARRAY, "The noise profile, squared amplitude. As in, what is the EMAN2CTF.background attribute"); 05921 return d; 05922 }
static Processor* EMAN::TestImageFourierNoiseProfile::NEW | ( | ) | [inline, static] |
Definition at line 5912 of file processor.h.
05913 { 05914 return new TestImageFourierNoiseProfile(); 05915 }
void TestImageFourierNoiseProfile::process_inplace | ( | EMData * | image | ) | [virtual] |
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.
image | The image to be processed. |
Implements EMAN::Processor.
Definition at line 6907 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(), EMAN::Processor::params, 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(), and x.
06907 { 06908 06909 if (params.has_key("profile")==false) throw InvalidParameterException("You must supply the profile argument"); 06910 06911 if (!image->is_complex()) { 06912 int nx = image->get_xsize(); 06913 int offset = 2 - nx%2; 06914 06915 image->set_size(nx+offset,image->get_ysize(),image->get_zsize()); 06916 image->set_complex(true); 06917 if (1 == offset) image->set_fftodd(true); 06918 else image->set_fftodd(false); 06919 image->set_fftpad(true); 06920 } 06921 image->to_zero(); 06922 image->ri2ap(); 06923 06924 vector<float> profile = params["profile"]; 06925 transform(profile.begin(),profile.end(),profile.begin(),sqrtf); 06926 06927 int i = static_cast<int>(profile.size()); 06928 06929 float * d = image->get_data(); 06930 int nx = image->get_xsize(); 06931 int ny = image->get_ysize(); 06932 int nxy = image->get_ysize()*nx; 06933 int nzon2 = image->get_zsize()/2; 06934 int nyon2 = image->get_ysize()/2; 06935 float rx, ry, rz, amp, phase; 06936 int length; 06937 int twox; 06938 for (int z = 0; z< image->get_zsize(); ++z) { 06939 for (int y = 0; y < image->get_ysize(); ++y) { 06940 for (int x = 0; x < image->get_xsize()/2; ++x) { 06941 rx = (float)x; 06942 ry = (float)nyon2 - (float)y; 06943 rz = (float)nzon2 - (float)z; 06944 length = static_cast<int>(sqrt(rx*rx + ry*ry + rz*rz)); 06945 06946 twox = 2*x; 06947 size_t idx1 = twox + y*nx+z*nxy; 06948 size_t idx2 = idx1 + 1; 06949 06950 06951 if (length >= i) { 06952 d[idx1] = 0; 06953 d[idx2] = 0; 06954 continue; 06955 } 06956 amp = profile[length]; 06957 phase = Util::get_frand(0,1)*2*M_PI; 06958 06959 06960 d[idx1] = amp; 06961 d[idx2] = phase; 06962 06963 } 06964 } 06965 } 06966 06967 image->ap2ri(); 06968 if (image->get_ndim() == 2) { 06969 bool yodd = image->get_ysize() % 2 == 1; 06970 06971 int yit = image->get_ysize()/2-1; 06972 int offset = 1; 06973 if (yodd) { 06974 offset = 0; 06975 } 06976 for (int y = 0; y < yit; ++y) { 06977 int bot_idx = (y+offset)*nx; 06978 int top_idx = (ny-1-y)*nx; 06979 float r1 = d[bot_idx]; 06980 float i1 = d[bot_idx+1]; 06981 float r2 = d[top_idx]; 06982 float i2 = d[top_idx+1]; 06983 float r = (r1 + r2)/2.0f; 06984 float i = (i1 + i2)/2.0f; 06985 d[bot_idx] = r; 06986 d[top_idx] = r; 06987 d[bot_idx+1] = i; 06988 d[top_idx+1] = -i; 06989 06990 bot_idx = (y+offset)*nx+nx-2; 06991 top_idx = (ny-1-y)*nx+nx-2; 06992 r1 = d[bot_idx]; 06993 i1 = d[bot_idx+1]; 06994 r2 = d[top_idx]; 06995 i2 = d[top_idx+1]; 06996 r = (r1 + r2)/2.0f; 06997 i = (i1 + i2)/2.0f; 06998 d[bot_idx] = r; 06999 d[top_idx] = r; 07000 d[bot_idx+1] = i; 07001 d[top_idx+1] = -i; 07002 } 07003 07004 d[1] = 0; // 0 phase for this componenet 07005 d[nx-1] = 0; // 0 phase for this component 07006 d[ny/2*nx+nx-1] = 0;// 0 phase for this component 07007 d[ny/2*nx+1] = 0;// 0 phase for this component 07008 } 07009 07010 if (image->get_ndim() != 1) image->process_inplace("xform.fourierorigin.tocorner"); 07011 image->do_ift_inplace(); 07012 image->depad(); 07013 }
const string TestImageFourierNoiseProfile::NAME = "testimage.noise.fourier.profile" [static] |