IMOD alignment adding random tilt angle offsets #1277
Description
Hello!
I've been running fiducial based alignment through the built in IMOD functionality and have noticed that there are random tilt angle offsets being added to each of my tilt series. This is then changing the angles for reconstruction to random angles severely degrading the quality of the tomograms and 3D alignments. This is a flat sample with no prior tilts defined in SerialEM during collection or anywhere during processing through RELION. The 'total tilt angle offset' should be 0, but in the first tilt series the offset is 12.28 and in the second the offset is -37.19.
Im currently using RELION5.0-beta-4-commit-7f63eb on a linux workstation (Ubuntu 22.04.3).
which relion_align_tiltseries_mpi --i CtfFind/job003/tilt_series_ctf.star --o AlignTiltSeries/job004/ --tomogram_thickness 300 --imod_fiducials --fiducial_diameter 10 --batchtomo_exe /usr/local/IMOD/bin/batchruntomo --only_do_unfinished --pipeline_control AlignTiltSeries/job004///
