ILRI Research Computing

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====== nextflow ======
Nextflow is a bioinformatics workflow manager that enables the development of portable and reproducible workflows. It supports deploying workflows on a variety of execution platforms including local, HPC schedulers, AWS Batch, Google Genomics Pipelines, and Kubernetes. Additionally, it provides support for manage your workflow dependencies through built-in support for Conda, Docker, Singularity, and Modules.

===== Information =====

  * Version: 24.04 (real version 24.04.2)
  * Added: February, 2020
  * Updated: June, 2024
  * Link: https://github.com/nextflow-io/nextflow

===== Usage =====

See versions of nextflow which are available:
<code>$ module avail nextflow</code>

Load one version into your environment and run it:
<code>$ module load nextflow/24.04
$ nextflow</code>

See [[https://www.nextflow.io/docs/latest/index.html|the nextflow documentation]] for information about how to use it.

**Note:**: by default nextflow writes temporary data to ''/tmp'', which may not have adequate storage space depending on your pipeline. Please configure your workflow to use ''/var/scratch'' instead. See the configuration link above for information about how to do that. 

===== Installation ======
Notes from the sysadmin during installation:

<code>$ sudo mkdir -p /export/apps/nextflow/24.04/bin
$ sudo wget https://github.com/nextflow-io/nextflow/releases/download/v24.04.2/nextflow-24.04.2-all -O /export/apps/nextflow/24.04/bin/nextflow
$ sudo chmod +x /export/apps/nextflow/24.04/bin/nextflow</code>