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HaplotypeCallerSpark crashes:8 parallel GATk jobs (8 samples) using 5 Spark cpus on each in a node with 40 cpus #5717
User Question: I'm trying to speed up the process of calling variants using SPARK. I have access to a slurm HPC cluster, so I guess it's not that straightforward to run GATK in a proper distributed master-slave architecture (if there is any tutorial on how to setup slurm jobs to use GATK Spark tools on multiple nodes I would appreciate it a lot).
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