Racon consumes too much memory

Open TypicalSEE opened this issue 5 years ago • 1 comments

Hi, I am using Racon to polish a small plant genome(~ 300Mb). But I noticed that Racon consumes about 250GB memory, which seems to be a little high. The PAF file generated by minimap2 is of 1.9GB size and the ONT gzipped fastq file is ~50GB. Is there any way to reduce the memory usage? Thanks!

Jul 19 '20 07:07 TypicalSEE

Hello, Racon loads all the input files into memory, hence the high memory consumption. You could try using the racon_wrapper to downsample the reads, but that might affect accuracy.

Best regards, Robert

Jul 20 '20 07:07 rvaser