Cardinal

Batch Limit Rules

The PBS compatibility layer is disabled on Cardinal so PBS batch scripts WON'T work on Cardinal, though it works on the Pitzer cluster. You also need to use sbatch (instead of qsub) command to submit jobs. Refer to the Slurm migration page to understand how to use Slurm. 

Memory limit

It is strongly suggested to consider the memory use to the available per-core memory when users request OSC resources for their jobs.

System Downtime August 6 2024

A downtime for OSC HPC systems is scheduled from 7 a.m. to 9 p.m., Tuesday, August 6 2024. The downtime will affect the Pitzer, Owens and Ascend Clusters, web portals, and HPC file servers. There will be a short outage of the state-wide licenses; MyOSC (the client portal) will be available during the downtime. In preparation for the downtime, the batch scheduler will not start jobs that cannot be completed before 7 a.m., August 6. Jobs that are not started on clusters will be held until after the downtime and then started once the system is returned to production status.

AutoDock

AutoDock is a a suite of automated docking tools. It is designed to predict how small molecules, such as substrates or drug candidates, bind to a receptor of known 3D structure. AutoDock has applications in X-ray crystallography, structure-based drug design, lead optimization, etc.

Nextflow

Nextflow is a workflow system for creating scalable, portable, and reproducible workflows. Nextflow is based on the dataflow programming model which simplifies complex distributed pipelines.

Nodejs

Nodejs is used to create server-side web applications, and it is perfect for data-intensive applications since it uses an asynchronous, event-driven model

Tinker

Tinker is a molecular modeling package. Tinker provides a general set of tools for molecular mechanics and molecular dynamics.

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