Memory issues with Razers3

FRED-2 / OptiType

Precision HLA typing from next-generation sequencing data

BSD 3-Clause "New" or "Revised" License

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Memory issues with Razers3 #44

Closed alexanderwhatley closed 7 years ago

alexanderwhatley commented 7 years ago

I have a 28GB bam file, and I'm running into memory issues with Razers3 even when I allocate 32GB of RAM for this job. Do you have any recommendations on what to do? Thanks.

andras86 commented 7 years ago

Is this the intermediate bam file produced by OptiType, or you're trying to give OT a bam file (reads mapped against full reference genome) as input?

alexanderwhatley commented 7 years ago

I fixed this problem by breaking up the BAM file to only include chromosome 6 data.