Richard Harris

Hi @Mon3trK, Thank you for your patience. After some consideration, we’ve decided not to add this feature at this time. Our reasoning is as follows: 1. For users where file...

Hi @zwets, Can you share the SAM header line which contains the previous dorado command used by `--resume-from` ```bash ❯ samtools view test.bam -H | head | grep "dorado basecaller"...

@zwets, thanks. The issue might be that the bam file is truncated and is not getting read correctly by htslib in dorado. ``` [W::bam_hdr_read] EOF marker is absent. The input...

Hi @zwets, Thanks for the detailed debugging information it's very much appreciated! This is going to be very helpful to us when we get around to fixing this. Best regards,...

Hi @zwets, I haven't been able to reproduce the bug by intentionally truncating a BAM file and using it in --resume-from so I've got no fix for the dot tsunami....

Closing as I haven't been able to reproduce this issue and we've improved error messaging when using --resume-from without headers.

@FerranLlobetC, please create a new ticket and reference this one as this has been closed as information in the template (e.g. Dorado version) is important. Kind regards, Rich

Hi @achang44, Your version of dorado is too old - v5 models were added in 0.7.0+. Please update and try again. Best regards, Rich

Hi @ylaforgue59, Does your dataset have a short read distribution? Many of your reads might not be passing the alignment stage if they are short as there are some minimum...

Ah ok, your dataset is not appropriate for use with Herro error correction which [states](https://github.com/lbcb-sci/herro?tab=readme-ov-file#herro): > length of ≥ 10000bp is recommended. Your stats show the majority of your reads...