nextflow
Tool for running computational pipelines. Mostly used for bioinformatics workflows. More information: https://www.nextflow.io.
- Run a pipeline, use cached results from previous runs:
nextflow run {{main.nf}} -resume
- Run a specific release of a remote workflow from GitHub:
nextflow run {{user/repo}} -revision {{release_tag}}
- Run with a given work directory for intermediate files, save execution report:
nextflow run {{workflow}} -work-dir {{path/to/directory}} -with-report {{report.html}}
- Show details of previous runs in current directory:
nextflow log
- Remove cache and intermediate files for a specific run:
nextflow clean -force {{run_name}}
- List all downloaded projects:
nextflow list
- Pull the latest version of a remote workflow from Bitbucket:
nextflow pull {{user/repo}} -hub bitbucket
- Update Nextflow:
nextflow self-update
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