Richard Harris
Richard Harris
Collecting the error messages: ### Command: ``` $DORADO_DIR basecaller hac $POD5_DIR --min-qscore 7 --emit-moves --mm2-opts "-x map-ont --secondary=no" --verbose -r --reference $FASTA -x cuda:0 --resume-from ${BAM_FILE}_temp.bam --modified-bases-models $MODEL > "$BAM_FILE"...
Hi @didacjs, This looks like a data issue but what's in the header of `${BAM_FILE}_temp.bam`?
I've had a look at your pod5 file and I've found this bad read which fails to decompress which would cause issues in pod5. ```text 8c63bb2e-556b-45ca-bc77-9a4fe1492744 ``` This snippet will...
Closing as this is explained in more detail in the [new docs](https://dorado-docs.readthedocs.io/en/latest/basecaller/mods/#via-modified-bases-models-cli-argument).
Hi @gringer and @heruiyang, Can you please share you system information / GPU info? Can you also please try `sup,m6A,pseU` with a reduced `--chunksize 9216` - this might indicate excessive...
Are you able to narrow down the problematic reads further and share a few of them privately with us? We can do a deeper dive on this internally and get...
@gringer, thanks for collecting these reads. I'll send instructions on how to share the pod5 data with us shortly
@gringer, if you're happy to share these reads publicly you can share them on GH
@gringer, does this issue still persist in the latest release 0.8.3?
Closing as had no response.