When running the snakemake inference workflow, scripts are not run in the container. If the snakemake version on the host system is different than in the container, this might cause an error.
My specific case:
host: snakemake 9.19.0 (~/.local/lib/python3.12/site-packages)
container: snakemake 9.16.3 (/usr/local/lib/python3.12/site-packages, container's own python3.12)
The script was generate_pseudo_cl_cov.py.
Fix is to pip-install snakemake 9.16.3, but maybe a more robust solution is possible.
When running the snakemake inference workflow, scripts are not run in the container. If the snakemake version on the host system is different than in the container, this might cause an error.
My specific case:
The script was generate_pseudo_cl_cov.py.
Fix is to pip-install snakemake 9.16.3, but maybe a more robust solution is possible.