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To be used with the `google` profile by specifying the `-profile google` when running nf-core pipelines. To be used with the `google` profile by specifying the `-profile google` when running nf-core pipelines.
![Google Cloud](images/google-cloud-logo.svg "https://cloud.google.com/life-sciences/docs/tutorials/nextflow") ![Google Cloud](images/google-cloud-logo.svg "https://cloud.google.com/life-sciences/docs/tutorials/nextflow")
## Quick Start ## Quick Start
```
```bash
GOOGLE_APPLICATION_CREDENTIALS=<your_key>.json GOOGLE_APPLICATION_CREDENTIALS=<your_key>.json
NXF_MODE=google NXF_MODE=google
nextflow run nf-core/rnaseq -profile google,test --google_bucket <gs://your_bucket/work> nextflow run nf-core/rnaseq -profile google,test --google_bucket <gs://your_bucket/work>
``` ```
### Required Parameters ### Required Parameters
#### `--google-bucket` #### `--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`). 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 ### Optional Parameters
#### `--google-zone` #### `--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`). 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` #### `--google-preemptible`
Enables the usage of preemptible virtual machines with a retry error statergy for up to 5 retries. Default (`true`). Enables the usage of preemptible virtual machines with a retry error statergy for up to 5 retries. Default (`true`).
#### `--google-debug` #### `--google-debug`
Copies the /google debug directory from the VM to the task bucket directory. Useful for debugging. Default (`false`). Copies the /google debug directory from the VM to the task bucket directory. Useful for debugging. Default (`false`).
## Cloud Life Sciences Setup ## Cloud Life Sciences Setup
Please refer to the [Google Cloud](https://cloud.google.com/life-sciences/docs/tutorials/nextflow) and [Nextflow](https://www.nextflow.io/docs/latest/google.html#cloud-life-sciences) documentation which describe how to setup the Google Cloud environment. Please refer to the [Google Cloud](https://cloud.google.com/life-sciences/docs/tutorials/nextflow) and [Nextflow](https://www.nextflow.io/docs/latest/google.html#cloud-life-sciences) documentation which describe how to setup the Google Cloud environment.