UCSF pyem on Biowulf
UCSF pyem is a collection of Python modules and command-line utilities for electron microscopy of biological samples.
References:
- Asarnow, D., Palovcak, E., Cheng, Y. UCSF pyem v0.5. (Zenodo:2019)
Documentation
Important Notes
- Module Name: pyem (see the modules page for more information)
- singlethreaded
Interactive job
Interactive jobs should be used for debugging, graphics, or applications that cannot be run as batch jobs.
Allocate an interactive session and run the program.
Sample session (user input in bold):
[user@biowulf]$ sinteractive salloc.exe: Pending job allocation 46116226 salloc.exe: job 46116226 queued and waiting for resources salloc.exe: job 46116226 has been allocated resources salloc.exe: Granted job allocation 46116226 salloc.exe: Waiting for resource configuration salloc.exe: Nodes cn3144 are ready for job [user@cn3144 ~]$ module load pyem [user@cn3144 ~]$ star.py [user@cn3144 ~]$ exit salloc.exe: Relinquishing job allocation 46116226 [user@biowulf ~]$