Nils Homer

@jmarshall open to whatever works here

See the too usage for information about the `--extract-umis-from-read-names` option: http://fulcrumgenomics.github.io/fgbio/tools/latest/FastqToBam.html. Pay attention to the description of the required format of the read name If you have paired end reads...

Try `./reconf`

@sstadick hit this recently for the same target, and your suggestion fixed it! Perhaps this should be added to the README?

@dbolser would you like to reopen this issue, and assign it to me?

Thanks, I’m unlikely to get to this anytime soon, so if others want to add the test VCF before I do, I won’t be offended.

This would be very useful, any updates?

I just hit this again!

I also hit this, but in 7.3.8. There were upstream jobs that failed, and I had `--keep-going` set. I think it was a red herring.

Different use case is to split the output of duplex reads from nanopore: https://github.com/nanoporetech/dorado?tab=readme-ov-file#duplex