Amdahl Parallel Runs
Last updated on 2023-08-02 | Edit this page
- How can we collect data on Amdahl run times?
- Collect systematic data on the runtime of the amdahl code
Using what we have learned so far, including Snakemake profiles and rules, we will now compose a Snakefile that runs the Amdahl example code over a range of parallel widths. This workflow will generate the data we will use in the next module to demonstrate the diminishing returns of increasing parallelism.
Compose the Snakemake file that does what we want.
We can put the widths in a list and iterate over them. We will use the profile generated previously to ensure that the jobs run on the cluster.
Throw the switch!
Arbitrary parameters are still finite, so you could just generate a flat list of all the combinations, and iterate over that. Or you could generate two lists and do a nested loop.