Issue: Importing AFIS Beam Shift in Import Movies

Hi all,

I’m following Case 1 of the EPU AFIS Beam Shift Import. Using the “Import Movies” job, my .eer files are well imported however, my .xml files were not (1st Image). I do not receive any error messages from this.

The .xml files are only able to be read through the “Import Beam Shift” job. Is there something I’m missing to allow the .xml files to be read in “Import Movies”? I included the beam shift scatter plot from my “Import Beam Shift” job.

Thanks!

Not an answer per se, but I have encountered the same issue

@ryt2 Please can you post, for both the Import Movies and Import Beam Shift jobs

  1. the CryoSPARC version
  2. all custom (non-default) job parameters

Hi, the CryoSPARC version is 4.7.1
Import Movies parameters


Import Beam Shift parameters

Thanks

If the micrographs and xml files are in the same place (each pair is in the same directory) you don’t need to specify a directory for the xml files - CryoSPARC will pick them up automatically.

Also, if using a version of EPU newer than 3.7(.1), beam shift groups are included in the filename, so you can split the optics groups up like you would data from SerialEM without needing the xml.

Thanks @ryt2 for posting the parameters.

Please can you also show the top of Import Movies job’s event log after pushing the Show from top button.
image


Ah, I see the beam shift scatter plots with that! Thank you so much for the help!