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isovic / racon

Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr.214270.116 Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:
https://github.com/lbcb-sci/racon
MIT License
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segmentation fault #137

Closed MichelMoser closed 5 years ago

MichelMoser commented 5 years ago

Hi,

I get a segmentaton fault when running racon on a 2 TB RAM machine. Unfortunately, there is no more messages showing...

command:

[racon::Polisher::initialize] loaded target sequences 4.484466 s                                
[racon::Polisher::initialize] loaded sequences 638.382458 s               
Segmentation fault

I am using racon: v1.4.4.

Dataset sizes: reads: 27 GB assembly: 800 MB overlaps: 28 GB

Any ideas how to resolve the issue?

rvaser commented 5 years ago

Hello, which format is your overlaps file?

Best regards, Robert

rvaser commented 5 years ago

I think I found the problem, will update racon soon.

rvaser commented 5 years ago

Please try out v1.4.5 at https://github.com/lbcb-sci/racon.

MichelMoser commented 5 years ago

thanks, works now