Pre-flight Checklist ✅¶

Make sure the following are in place before running wf2wf on a workflow.

Item	Why it matters	How to verify
Python ≥ 3.9	wf2wf targets modern Python	`python --version`
Source workflow parses cleanly	Importers need syntactically correct input	Run engine’s own lint/dry-run (see below)
External binaries (if used)	`docker`, `micromamba`, `conda-lock`, `apptainer`	`which docker`, etc.
Network access to registries	Auto-env image pushes/pulls	`docker login <registry>` or firewalls
Write permission in working dir	Exporters create files and temp dirs	`touch test && rm test`

Recommended pre-checks for each engine¶

snakemake --lint --snakefile Snakefile
snakemake --dag   --snakefile Snakefile | dot -Tpng > dag.png

cwltool --validate workflow.cwl

nextflow run -n -preview main.nf

miniwdl check pipeline.wdl

If the native tool cannot parse the workflow, wf2wf will likely fail or lose information.

Tool	Used for	Install
`conda-lock`	dependency locking	`pip install conda-lock`
`micromamba`	fast conda solves	See https://mamba.readthedocs.io/
`docker buildx`	OCI builds	Docker Desktop or `apt install docker-buildx-plugin`
`buildah`	rootless builds	`dnf install buildah`
`apptainer`	HPC `.sif` images	https://apptainer.org/
`syft` & `grype`	SBOM & CVE scan	`brew install syft grype`

All are optional – wf2wf falls back to stubs – but enable the full feature set.