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MK 3 - MarKer 3D

(9/9/95)

PURPOSE

Align two sets of markers for two-tilt geometry in terms of three Eulerian angles.

SEE ALSO

MK [Marker program]

USAGE

.OPERATION: MK 3

.ENTER NUMBER OF MARKERS IN MODELS: 12
[Enter number of markers in each of the files containing 3D coordinates (X,Y,Z), as found by MK command.]

.ENTER NAME OF 3-D MODEL FILE: COORDS001
[Enter the name of the document file in which 3-D markers coordinates (X,Y,Z) are stored. It should correspond to the first single-tilt series. This will be reference model - the corresponding Eulerian angles will not be changed.]

.ENTER NAME OF 3-D MODEL FILE: COORDS002
[Enter the name of the document file in which 3-D markers coordinates (X,Y,Z) are stored. It should correspond to the second single-tilt series. This is 3D model which will be aligned and corresponding Eulerian angles will be changed.]

.ENTER DOC FILE TO HOLD CORRECTIONS: CORRECT101
[Enter the name of the output document file in which corrections will be stored (see note 2).]

.IMAGE SERIES CORRECTION: CCB002
[Enter the name of the document files with corrections of the second series (as produced by 'MK'). It can be angular document file of the second series as well. Only second column is used and it should contain theta (tilt) angle of the second series, psi and phi are ignored since it is assumed that it was single-tilt series.]

.DOCUMENT FILE: ANGLES_SECOND
[Enter the name of the output angular document files in which modified Eulerian angles will be stored. These angles are the same as they would result from the application of 'VO RA' command using Eulerian angles found by current run of 'MK 3'.]

NOTES

  1. Input document files must have 3D markers coordinates stored X - first column, Y - second column, Z - third column. Number of markers has to be exactly the same in both the input document files. The order of markers coordinates has to be the same in both the input document files (marker #3 in the first file has to correspond to the marker #3 in the second file). Both sets of markers should have their centers of gravity at point (0,0,0).

  2. The document file with corrections has the following format:
    key=1 : Eulerian angles psi, theta, phi.

    key=2 : scale, xshift, yshift, zshift

    To modify Eulerian angles of the second set (aligned) the corresponding angular document file has to be processed using command 'VO RA 'and Eulerian angles stored at key=1.
    Scale stored at key=2 has to be used to modify input images from second series to adjust their scale to the first series (command 'RT SQ').
    Shifts stored at key=2 should be all zero. If they are not the input coordinates were probably incorrect (see note 1).

  3. Written by: Paul A. Penczek

SUBROUTINES

MRK3, MRGET3D, MRQUATER, MRROTATE, MRSCALE3, MRERROR, MRDOCCOR, MRNEWANGLE, CALD

CALLER

UTIL3

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