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lbcb-sci / herro

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).
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error correction fails when ran with batched alignments #55

Open nponts opened 1 week ago

nponts commented 1 week ago

Hi! i decided to give a try to Herro, and after repeating errors others did before me (which means a solution was out there) I found my own brand new problem... + an additional question actually...

The problem: when i run herro inference without using already made batched alignments, it runs (still waiting for the result for now); when i run herro inference with already made batched alignments (the read-alns option), it finishes quickly with "processed 0 reads" although parsing occurred fine - what can go wrong?

The question: I work with mostly small haploid fungal genomes; your model was trained on human data. Do you think it still applies?

Thank you!!!

nponts commented 1 week ago

Update: fails no matter what... Always get "processed 0 reads"...