.Selection doc file: SELECTREF
[Enter selection document file name containing the numbers
of the input images in the first column.]
.Expected size of the object: 25
[Expected size of the object in pixels should not exceed image size.]
.First and last ring: 5,15
[In the rotational alignment, only rings with the radii in the range
5-15 (in pixel units) will be analyzed.]
.Enter template for 2-D image name: IMG****
[Give the template of the existing files to be aligned.]
.Selection doc file: SELECTIMG
[Enter selection document file name containing the numbers
of the input images in the first column.]
.DOCUMENT FILE: PRM101
[The document files will contain three alignment parameters:
rotation angle and x- and y-shifts. These parameters can be used
directly in the RT SQ operation to produce an aligned image series
from the input image series. When used in conjunction with the Random
Conical 3D reconstruction, the rotation angle (phi) has to have its sign
changed.
The fourth column contains value of the correlation coefficient between
the image and the most similar reference image.
The fifth column contains number of the most similar reference image.
The sixth column contains number of the current aligned image.]
NOTES
;b11.alm ;rotate and shift images according to the parameters found by AP MR ;Register x25 represents the corresponding reference projection to which ;that particle is matched. Since the reference projections 88-174 are ;mirror images of the first 87, those particles that correspond to the ;mirrored reference projections are mirrored back to correspond to the ;first 87 projections. md vb off md set mp 2 do lb1 i=1,900 x55=x0 ud ic,x55,x21,x22,x23,x24,x25,x26 docali if(x25.gt.87) goto lb2 rt sq win/ser00x26 ali/sar00x26 x21 x22,x23 goto lb1 lb2 rt sq win/ser00x26 _1 x21 x22,x23 mr _1 ali/sar00x26 Y lb1 en