EMAN::RotatePrecenterAligner Class Reference

rotational alignment assuming centers are correct More...

#include <aligner.h>

Inheritance diagram for EMAN::RotatePrecenterAligner:

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Collaboration diagram for EMAN::RotatePrecenterAligner:

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List of all members.

Public Member Functions

virtual EMDataalign (EMData *this_img, EMData *to_img, const string &cmp_name="dot", const Dict &cmp_params=Dict()) const
 To align 'this_img' with another image passed in through its parameters.
virtual EMDataalign (EMData *this_img, EMData *to_img) const
virtual string get_name () const
 Get the Aligner's name.
virtual string get_desc () const
virtual TypeDict get_param_types () const

Static Public Member Functions

static AlignerNEW ()

Static Public Attributes

static const string NAME = "rotate_precenter"

Detailed Description

rotational alignment assuming centers are correct

Definition at line 257 of file aligner.h.


Member Function Documentation

virtual EMData* EMAN::RotatePrecenterAligner::align ( EMData this_img,
EMData to_img 
) const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 263 of file aligner.h.

References align().

00264                 {
00265                         return align(this_img, to_img, "", Dict());
00266                 }

EMData * RotatePrecenterAligner::align ( EMData this_img,
EMData to_img,
const string &  cmp_name = "dot",
const Dict cmp_params = Dict() 
) const [virtual]

To align 'this_img' with another image passed in through its parameters.

The alignment uses a user-given comparison method to compare the two images. If none is given, a default one is used.

Parameters:
this_img The image to be compared.
to_img 'this_img" is aligned with 'to_img'.
cmp_name The comparison method to compare the two images.
cmp_params The parameter dictionary for comparison method.
Returns:
The aligned image.

Implements EMAN::Aligner.

Definition at line 300 of file aligner.cpp.

References EMAN::Util::calc_best_fft_size(), EMAN::EMData::calc_ccfx(), data, EMAN::Util::find_max(), EMAN::EMData::get_data(), EMAN::EMData::get_ysize(), ny, EMAN::EMData::process(), EMAN::EMData::set_attr(), EMAN::Transform::set_rotation(), and EMAN::EMData::unwrap().

Referenced by align().

00302 {
00303         if (!to) {
00304                 return 0;
00305         }
00306 
00307         int ny = this_img->get_ysize();
00308         int size = Util::calc_best_fft_size((int) (M_PI * ny * 1.5));
00309         EMData *e1 = this_img->unwrap(4, ny * 7 / 16, size, 0, 0, 1);
00310         EMData *e2 = to->unwrap(4, ny * 7 / 16, size, 0, 0, 1);
00311         EMData *cf = e1->calc_ccfx(e2, 0, ny);
00312 
00313         float *data = cf->get_data();
00314 
00315         float peak = 0;
00316         int peak_index = 0;
00317         Util::find_max(data, size, &peak, &peak_index);
00318         float a = (float) ((1.0f - 1.0f * peak_index / size) * 180. * 2);
00319 
00320         Transform rot;
00321         rot.set_rotation(Dict("type","2d","alpha",(float)(a*180./M_PI)));
00322         EMData* rslt = this_img->process("xform",Dict("transform",&rot));
00323         rslt->set_attr("xform.align2d",&rot);
00324 //
00325 //      Transform* t = get_set_align_attr("xform.align2d",rslt,this_img);
00326 //      t->set_rotation(Dict("type","2d","alpha",-a));
00327 //
00328 //      EMData* result this_img->transform(Dict("type","2d","alpha",(float)(a*180./M_PI)));
00329 //
00330 //      cf->set_attr("xform.align2d",t);
00331 //      delete t;
00332 //      cf->update();
00333 
00334         if( e1 )
00335         {
00336                 delete e1;
00337                 e1 = 0;
00338         }
00339 
00340         if( e2 )
00341         {
00342                 delete e2;
00343                 e2 = 0;
00344         }
00345 
00346         if (cf) {
00347                 delete cf;
00348                 cf = 0;
00349         }
00350         return rslt;
00351 }

virtual string EMAN::RotatePrecenterAligner::get_desc (  )  const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 273 of file aligner.h.

00274                 {
00275                         return "Performs rotational alignment and works accurately if the image is precentered";
00276                 }

virtual string EMAN::RotatePrecenterAligner::get_name (  )  const [inline, virtual]

Get the Aligner's name.

Each Aligner is identified by a unique name.

Returns:
The Aligner's name.

Implements EMAN::Aligner.

Definition at line 268 of file aligner.h.

References NAME.

00269                 {
00270                         return NAME;
00271                 }

virtual TypeDict EMAN::RotatePrecenterAligner::get_param_types (  )  const [inline, virtual]

Implements EMAN::Aligner.

Definition at line 283 of file aligner.h.

00284                 {
00285                         TypeDict d;
00286                         return d;
00287                 }

static Aligner* EMAN::RotatePrecenterAligner::NEW (  )  [inline, static]

Definition at line 278 of file aligner.h.

00279                 {
00280                         return new RotatePrecenterAligner();
00281                 }


Member Data Documentation

const string RotatePrecenterAligner::NAME = "rotate_precenter" [static]

Definition at line 289 of file aligner.h.

Referenced by get_name().


The documentation for this class was generated from the following files:
Generated on Mon Jul 19 12:42:13 2010 for EMAN2 by  doxygen 1.4.7