From 688df26df8b5fb1b7f25788fa04e4abe7dc2aa60 Mon Sep 17 00:00:00 2001 From: Phil Ewels Date: Mon, 16 Sep 2019 11:11:05 +0200 Subject: [PATCH] nextflow: add page (#3265) --- pages/linux/nextflow.md | 36 ++++++++++++++++++++++++++++++++++++ 1 file changed, 36 insertions(+) create mode 100644 pages/linux/nextflow.md diff --git a/pages/linux/nextflow.md b/pages/linux/nextflow.md new file mode 100644 index 0000000000..386799e999 --- /dev/null +++ b/pages/linux/nextflow.md @@ -0,0 +1,36 @@ +# nextflow + +> Tool for running computational pipelines. Mostly used for bioinformatics workflows. +> Homepage: . + +- 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`