svc-jstone

Hi @yusmiatiliau, Thanks to your input data, this should now be fixed on our end and available in the next release. In the meantime, the root cause for this edge...

Dorado v1.2.0 is now released with a fix for this issue, so I'm closing it as it's considered resolved.

Hi @alexpmagalhaes , I'd like to fix this segfault as soon as possible, but I need to pinpoint the issue. Would it be possible that you rebuild Dorado with debug...

Thank you very much for helping out with the debugging @alexpmagalhaes ! Stack trace appears to be coming from the inference stage, but in your original segfault issue you ran...

Great, thank you!

Hi @alexpmagalhaes , I received an email with your updated stack trace, but I don't see it here on this issue, strange. It appears that you are running out of...

Thanks! Interesting... Just to check, is that the entire stack trace that `gdb` output? Is there a possibility you can share the data for debugging by any chance?

Does your input file have any zero length sequences by any chance?

Hi @alexpmagalhaes , After an internal discussion, this appears to be an OOM issue arising in Minimap2, on these lines: https://github.com/lh3/minimap2/blob/master/bseq.c#L60-L61 There is no sanity check here to see if...

There should have been a check that `malloc` did not return a `NULL` and an error should have been reported to the user and execution stopped. `malloc` returns a `NULL`...