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lbcb-sci / raven

De novo genome assembler for long uncorrected reads
MIT License
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error at polishing stage #42

Open fmarletaz opened 3 years ago

fmarletaz commented 3 years ago

Hello, Thanks for developing Raven. I am trying to assemble a 2.5Gb genome with Raven using ~200Gb of CLR reads. The assembly progresses to the polishing stage, but I end with the following error: 

[racon::Polisher::Polish] minimized 11278 - 15451 / 15451 15.802887s
[racon::Polisher::Polish] mapped sequences 1652.453550s
[racon::Polisher::Polish] found 9617833 overlaps 6140.732715s
[racon::Polisher::Polish] reverse complemented sequences 1.986854s
[racon::Polisher::Polish] aligned 9617833 / 9617833 overlaps [================] 5401.589224s
[racon::Polisher::Polish] prepared 5396414 window placeholders 79.317244s
/var/spool/slurmd/job6175577/slurm_script: line 16: 92163 Illegal instruction     (core dumped) raven -t 48 Ma_subreads.fasta --resume

Do you have any suggestion? Thanks a lot!

rvaser commented 3 years ago

Hi Ferdinand, which version are you using? Did you compile from source or conda/brew? The error means that your machine does not support SIMD instructions Raven was compiled with.

Best regards, Robert