Sunday 30 April 2023

How to have multiple users run the same pipeline in snakemake - metadata permissions issue

I have a pipeline that we want to store in a shared space so that all our analysts can access it and use it without having to copy the repo / singularity container. The problem is when one person runs the pipeline the files in .snakemake/metadata belong to that user. When the next user tries to run the pipeline this metadata is accessed and causes an error.

I know I could delete the data in metadata at the end of the process but ideally we want users to be able to run the pipeline in parallel (on different inputs / output). All users are within the same group but this doesn't not help

Any suggestions?



from How to have multiple users run the same pipeline in snakemake - metadata permissions issue

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