how to run the workflow in HPC with Slurm scheduler and singularity

epi2me-labs / wf-pore-c

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how to run the workflow in HPC with Slurm scheduler and singularity #62

Closed dnaase closed 5 months ago

dnaase commented 5 months ago

Ask away!

I can run the pipeline in one of the computer nodes in our HPC with -profile singularity. Since the files are large, I am wondering if it is possible to run the workflow with other profile (-profile) that enables the Slurm scheduler (with singularity container), so jobs can be submitted parallel to many computer nodes in our HPC?

thanks

cjw85 commented 5 months ago

Please refer to the nextflow documentation for how to run our Nextflow workflows on an HPC cluster. You can provide an additional config file containing the configuration that you need.