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medulka Mar 22, 2021
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medulka Mar 22, 2021
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Expand Up @@ -80,6 +80,7 @@ Nextflow works best when you have an active internet connection, as it is able t
* Use `-resume` to restart pipelines that did not complete. This ensures that successful tasks from the previous run wont be re-executed.
* Use `nextflow log` to find names of all previous runs in your directory. These can be used with `-resume` to restart specific runs.
* Be clever with multiple Nextflow configuration locations. For example, use `-profile` for your cluster configuration, `~/.nextflow/config` for your personal config such as `params.email` and a working directory `nextflow.config` file for reproducible run-specific configuration.
* If you use Singularity, we recommend that you specify a cache directory with the [nextflow environment variable](https://www.nextflow.io/docs/latest/config.html#environment-variables) `NXF_SINGULARITY_CACHEDIR` in your `~./bash_profile` or `~/.bashrc` during the installation. This will store all your container images in one place, rather than repeatedly downloading it each time you run a pipeline. Just the base directory needs to be specified, Nextflow handles the folders and file names for you.

## Helper tools

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