CONSENT-correction core dumped

[lirr-lichen]

Hi，when I use this fastq(https://github.com/lirr-lichen/1_testdata.git samle97.570.fastq )， with commond：CONSENT-correct --in samle97.570.fastq --out CONSENT.fasta --tmpdir ./ --nproc 12 --type ONT I meet this： CONSENT-correct: line 199: 297133 Segmentation fault (core dumped) $LRSCf/bin/CONSENT-correction -a $tmpdir/"$alignments" -s "$minSupport" -S "$maxSupport" -l "$windowSize" -k "$merSize" -c "$commonKMers" -A "$minAnchors" -f "$solid" -m "$windowOverlap" -j "$nproc" -r "$reads" -M "$maxMSA" -p "$LRSCf" >> "$out"

but when I use other fastq with the same commond, I do not meet this，and can run to the end。

Is there somethin wrong with this fastq?

Thank you

[morispi]

Hello,

This is strange, CONSENT works fine until the end on that file here. Not exactly sure what could be causing the issue.

Can you tell me a bit more about your computing environment? Operating systems, compilers versions, etc?

Best, Pierre

[lirr-lichen]

Sorry for getting back to you so late.
When I use other fastq with the same commond, CONSENT works fine. So I think this error may not due to the computing environment. Finaly, I use seqtk software abstract fasta from samle97.570.fastq. And then use the same CONSENT commond, it works fine until the end.
I hope this information may help.

Best, Lichen

[morispi]

Hello,

Sorry for getting back to you so late as well.

If it does work with other files, it might not be a problem with the computing environment indeed. However, I tried running CONSENT on the file you encountered errors with, on two different computers, and I was unable to reproduce the issue.

I'm not exactly sure what could be causing it. Can you provide me the seqtk command you used to see if I can further help?

Best, Pierre