add nextflow.config #62
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Moved parameters to
nextflow.config.Details of the code here:
https://github.com/evanbiederstedt/clockwork/blob/feature/revise_NF_params/nextflow.config#L9-L16
Parameters I found here:
https://github.com/evanbiederstedt/clockwork/blob/feature/revise_NF_params/nextflow.config#L18-L51
Note:
It looks like all parameter names are the unique, except for
max_forks:It's 20 here:
https://github.com/iqbal-lab-org/clockwork/blob/master/nextflow/fake_remove_contam.nf#L5
Here it's 100:
https://github.com/iqbal-lab-org/clockwork/blob/master/nextflow/generic_pipeline.nf#L6
It may be best to rename the variable for one of these.
Added default trace settings here, with fields I find useful:
https://github.com/evanbiederstedt/clockwork/blob/feature/revise_NF_params/nextflow.config#L54-L58
Added default timeline, report, and DAG graphic.
https://github.com/evanbiederstedt/clockwork/blob/feature/revise_NF_params/nextflow.config#L60-L73
You might want to remove the DAG graphic if your pipeline is stable---it will be the same thing after each pipeline run.
Also, you'll noticed I added shebangs to the NF scripts---feel free to remove if superfluous :)