omnibenchmark workflow

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How to

• make install to install dependencies
• make activate to activate the environment with the dependencies (pipenv shell)
• make benchmark to run the benchmark (= trigger the Snakefile)
• make dry to dry run the benchmark (= dry run the Snakefile)
• make clean deletes the ./out and ./log output folders

Rationale

Parse a YAML specification of a benchmark and dynamically build snakemake rules to build the suitable workflow.

Branches

Develop in branch dev, seldom merged to main

Started

05 Feb 2024, Izaskun Mallona