Adapt number of threads in authentication script

NBISweden / aMeta

Ancient microbiome snakemake workflow

MIT License

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Adapt number of threads in authentication script #45

Closed clami66 closed 2 years ago

clami66 commented 2 years ago

In scripts/authentic.sh the number of threads is hardcoded as 4, guess this should be passed as parameter from the -j option of the Snakemake invocation?

percyfal commented 2 years ago

Yes, good that you bring this up. This is due to the fact that MaltExtract and postprocessing.AMPS.r were hardcoded to use 4 threads. The threads should be parametrized with an extra option to authentic.sh.