2019-09-16 10:11:05 +01:00
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# nextflow
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> Tool for running computational pipelines. Mostly used for bioinformatics workflows.
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2019-10-07 14:31:50 +01:00
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> More information: <https://www.nextflow.io>.
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2019-09-16 10:11:05 +01:00
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- Run a pipeline, use cached results from previous runs:
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`nextflow run {{main.nf}} -resume`
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- Run a specific release of a remote workflow from GitHub:
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`nextflow run {{user/repo}} -revision {{release_tag}}`
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- Run with a given work directory for intermediate files, save execution report:
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`nextflow run {{workflow}} -work-dir {{/path/to/directory}} -with-report {{report.html}}`
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- Show details of previous runs in current directory:
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`nextflow log`
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- Remove cache and intermediate files for a specific run:
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`nextflow clean -force {{run_name}}`
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- List all downloaded projects:
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`nextflow list`
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- Pull the latest version of a remote workflow from Bitbucket:
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`nextflow pull {{user/repo}} -hub bitbucket`
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- Update Nextflow:
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`nextflow self-update`
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