fp-tools-runtime

Check or install the external programs used by prepare-atac and discover-motifs. fp-tools manages these programs separately from your other software. Linux supports read preparation and motif discovery; macOS and Windows support motif discovery.

Example command

fp-tools-runtime status

Primary inputs

The status action takes no input files. To install the programs used for motif discovery before your first run:

fp-tools-runtime install meme

On Linux, use fp-tools-runtime install core for the default prepare-atac workflow, or fp-tools-runtime install homer for its homer-atac profile.

Main outputs

The command reports each runtime component, platform, installation state, and cache location. Commands that need a managed component install it on first use, so manual installation is optional. If an installation is damaged, run fp-tools-runtime repair meme (or substitute the affected component), then check fp-tools-runtime status again.