Overview
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A list of commands and notes on using available clusters for parallelized algorithms. Typically used for TxBR backprojection by uploading a copy of a (combined) .txbr file and a (combined) .preali.rot.SL file to the desired cluster and running a batch script. The batch script typically has the .pbs extension.
Available Clusters
- NBCR Cluster
- Triton Cluster at SDSC
Cluster Commands
Frequently used commands
A detailed list and description of the Triton cluster commands can be found at:
http://tritonresource.sdsc.edu/jobs.php
The most used commands will be:
- qsub (submit a .pbs script to the cluster)
- qstat (check on status of submitted jobs)
- qdel (delete job on queue)
Submitting a job
Use qsub after creating a .pbs script file in the data directory. Script files can be modified by previously created .pbs files or follow the instructions on the Triton cluster site.
Warnings / Cautions!
- If the data is an 8k x 8k image set, make sure the .txbr file block size is set to 1 instead of the default 5, otherwise segmentation faults will occur on the NBCR cluster