Use resource limits and update manifest and schema #811
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I had a branch from a bit ago where I updated a few things to new Nextflow standards, and I thought it might make sense to get this in as part of #810.
The changes here implement using the "new" resource limits in Nextflow.
While I was at it, I also updated the schema to match the current parameters, which included removing what I think is an unused
CONDA_CONTAINER
parameter.I also updated some of the manifest to use the updated format, with additional information including the doi for the paper!