Align tilt series¶

General Workflow:¶

1. Select the tiltseries for which a tomogram is to be calculated.
2. Check the runname and enter a description.
3. Use the radio button to select Protomo Refinement or IMOD shift-only alignment.
4. To submit the job to the cluster click the "Align Tilt Series" button. Alternatively, click on "Just Show Command" to obtain a command that can be pasted into a UNIX shell.
   
5. If your job has been submitted to the cluster, a page will appear with a link "Check status of job", which allows tracking of the job via its log-file. This link is also accessible from the "1 running" option under the "Aliogn tilt series" submenu in the appion sidebar.
6. Now click on the "1 Complete" link under the "Align tilt series" submenu. This opens a summary of all tilt series alignment runs.
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Notes, Comments, and Suggestions:¶

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