Is it possible to change the GCP bucket-dir by process?

[Matthew Galvin]

Hi all,

Does anyone know if I can change the GCS bucket-dir on a per process basis? I kick off my pipeline with the following command:

./nextflow run main.nf -bucket-dir $GCP_BUCKET_DIR -resume

I was hoping I could specify the bucket-dir in the process block of the nextflow config, but I do not see a configuration option in the documentation. My process definition looks something like this:

process {
    withName:BASE_QUALITY_RECALIBRATION {
        executor = 'google-lifesciences'
        container = "${params.gcr_root}/gatk:4.1.9.0"
    }
}

Does anyone know if this is possible?

Thanks,

Matthew

[Paolo Di Tommaso]

No, it's not possible.

p

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