Motivelist

Motivelist files are files of the *.em format. A motivelist contains information about individual subtomograms, specifically their location in the parent tomogram, and their shift and orientation with respect to a reference as determined by subtomogram alignment.

Specification

Motivelists are 20-by-n matrices of type double for n subtomograms. Depending on the NamingConvention used in SubTomogramAverageMPI, the motivelist structure differs for reasons of legacy support. The NamingConvention TomoParticle is the preferred variant and should always be used.

NamingConvention TomoParticle

Using this naming convention the filename of the particles with prefix

 'example_' 

will be built as

 'example_(row 5)_(row 6).em'.

Row	Content
1	Cross correlation coefficient in the last alignment
2	x-coordinate in the reconstruction volume (not used by any recent program -- legacy content)
3	y-coordinate in the reconstruction volume (not used by any recent program -- legacy content)
4	No defined content -- customizable, suggested use: Tomogram specific particle number
5	Tomogram number
6	Particle number (global)
7	Running number of wedge volume
8	x-coordinate in the reconstruction volume
9	y-coordinate in the reconstruction volume
10	z-coordinate in the reconstruction volume
11	x-shift in subvolume – after rotation of template
12	y-shift in subvolume – after rotation of template
13	z-shift in subvolume – after rotation of template
14	x-shift in subvolume – before rotation of template (not used by any recent program -- legacy content)
15	y-shift in subvolume – before rotation of template (not used by any recent program -- legacy content)
16	z-shift in subvolume – before rotation of template (not used by any recent program -- legacy content)
17	Phi [deg]
18	Psi [deg]
19	Theta [deg]
20	class number

Old NamingConvention

Using this naming convention the filename of the particles with prefix

 'example_' 

will be built as

 'example_(row 4).em'.

Row	Content
1	Cross correlation coefficient in the last alignment
2	x-coordinate in the reconstruction volume (not used by any recent program -- legacy content)
3	y-coordinate in the reconstruction volume (not used by any recent program -- legacy content)
4	Particle number (global)
5	No defined content -- customizable, suggested use: Tomogram number
6	No defined content -- customizable, suggested use: Tomogram specific particle number
7	Running number of wedge volume
8	x-coordinate in the reconstruction volume
9	y-coordinate in the reconstruction volume
10	z-coordinate in the reconstruction volume
11	x-shift in subvolume – after rotation of template
12	y-shift in subvolume – after rotation of template
13	z-shift in subvolume – after rotation of template
14	x-shift in subvolume – before rotation of template (not used by any recent program -- legacy content)
15	y-shift in subvolume – before rotation of template (not used by any recent program -- legacy content)
16	z-shift in subvolume – before rotation of template (not used by any recent program -- legacy content)
17	Phi [deg]
18	Psi [deg]
19	Theta [deg]
20	class number