mirror of https://github.com/MillironX/nf-configs.git synced 2024-11-24 09:09:56 +00:00

Change parameters from hyphens to underscores to accurately reflect google.config

2020-11-12 11:52:58 -05:00

1.4 KiB

Raw Blame History

nf-core/configs: Google Cloud Life Sciences Configuration

To be used with the google profile by specifying the -profile google when running nf-core pipelines.

Quick Start

GOOGLE_APPLICATION_CREDENTIALS=<your_key>.json
NXF_MODE=google
nextflow run nf-core/rnaseq -profile test,google --google_bucket <gs://your_bucket/work>

Required Parameters

`--google_bucket`

The Google Cloud Storage bucket location to be used as a Nextflow work directory. Can also be specified with (-w gs://your_bucket/work).

Optional Parameters

`--google_zone`

The Google zone where the computation is executed in Compute Engine VMs. Multiple zones can be provided separating them by a comma. Default (europe-west2-c).

`--google_preemptible`

Enables the usage of preemptible virtual machines with a retry error statergy for up to 5 retries. Default (true).

`--google_debug`

Copies the /google debug directory from the VM to the task bucket directory. Useful for debugging. Default (false).

Cloud Life Sciences Setup

Please refer to the Google Cloud and Nextflow documentation which describe how to setup the Google Cloud environment.

1.4 KiB Raw Blame History