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nextflow

List of commands for nextflow:

  • nextflow:tldr:1e2d1 nextflow: Pull the latest version of a remote workflow from Bitbucket.
    $ nextflow pull ${user-repo} -hub bitbucket
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  • nextflow:tldr:2640e nextflow: Update Nextflow.
    $ nextflow self-update
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  • nextflow:tldr:30ad2 nextflow: Run with a given work directory for intermediate files, save execution report.
    $ nextflow run ${workflow} -work-dir ${path-to-directory} -with-report ${report-html}
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  • nextflow:tldr:52941 nextflow: Show details of previous runs in current directory.
    $ nextflow log
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  • nextflow:tldr:8327d nextflow: Run a pipeline, use cached results from previous runs.
    $ nextflow run ${main-nf} -resume
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  • nextflow:tldr:aa7fb nextflow: Run a specific release of a remote workflow from GitHub.
    $ nextflow run ${user-repo} -revision ${release_tag}
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  • nextflow:tldr:b97fd nextflow: Remove cache and intermediate files for a specific run.
    $ nextflow clean -force ${run_name}
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  • nextflow:tldr:f755b nextflow: List all downloaded projects.
    $ nextflow list
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