dsarov / ARDaP

Comprehensive resistance detection from WGS data
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Add gatk cluster parameters #27

Closed thomcuddihy closed 3 years ago

thomcuddihy commented 3 years ago

The main.nf code still has references to these parameters. Since they're not set, they default to 'null', and gatk fails to run in the master vcf process.

Either reinstate these parameters or fix main.nf code as intended