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added JAX conf
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conf/jax.config
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conf/jax.config
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params {
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config_profile_description = 'The Jackson Laboratory Sumner HPC profile provided by nf-core/configs.'
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config_profile_contact = 'Asaf Peer (@peera)'
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config_profile_url = 'https://jacksonlaboratory.sharepoint.com/sites/ResearchIT/SitePages/Welcome-to-Sumner.aspx'
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}
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executor.$slurm.queueSize = 250
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process {
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executor = "slurm"
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queue = "compute"
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clusterOptions = {task.time < 72.h ? '-q batch' : '-q long'}
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module = "slurm"
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beforeScript = 'module load singularity'
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}
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singularity.enabled = true
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singularity.autoMounts = true
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params {
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max_memory = 768.GB
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max_cpus = 70
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max_time = 336.h
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}
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docs/jax.md
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docs/jax.md
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# nf-core/configs: JAX Configuration
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All nf-core pipelines have been successfully configured for use on the JAX Sumner cluster at The Jackson Laboratory.
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To use, run the pipeline with `-profile jax`. This will download and launch the [`jax.config`](../conf/jax.config) which has been pre-configured with a setup suitable for JAX Sumner cluster. Using this profile, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline and slurm will be used as well.
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>NB: You will need an account to use the HPC cluster JAX in order to run the pipeline. If in doubt contact IT.
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>NB: Nextflow should not be executed on the login nodes. If in doubt contact IT.
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