Basecalling options not included in basecaller.cfg.

epi2me-labs / wf-bacterial-genomes

Small variant calling for haploid samples

https://labs.epi2me.io/

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Basecalling options not included in basecaller.cfg. #34

Closed YoungMunLEE closed 4 months ago

YoungMunLEE commented 6 months ago

Ask away!

The latest version uses dna_r10.4.1_e8.2_400bps_sup@v4.3.0 for basecalling with MinKNOW. However, there are currently no available options to select. The latest version available is v4.2.0. What should be done in this case?

julibeg commented 6 months ago

Hi @YoungMunLEE,

Thank you for bringing this to our attention. The list of available models will be updated with the next release.

julibeg commented 4 months ago

Hi @YoungMunLEE,

This was updated in v1.3.0, which also retired the --basecaller_cfg parameter (as on recently basecalled data the workflow should now be able to detect the basecall model automatically).

I'm closing this issue for now; please feel free to re-open if you run into the same problem with the most recent version.