Marcus Stoiber

This looks to be due to the recent move to default vbz compression of raw signal. Please find details for addressing this issue here: https://github.com/nanoporetech/vbz_compression

@orangehe Did the above suggestions help resolve this issue for you?

@orangehe , I noticed that you have the `--ignore-read-locks` flag set. I'm wondering if you might have zombie processes still accessing the FAST5 files and blocking the current processes from...

This looks as though it may have to do with [VBZ compression and the HDF5 plugin](https://github.com/nanoporetech/vbz_compression). Have you installed the plugin?

As this project has only limited support currently, I would recommend downgrading the ggplot2 version to fix this issue. Mixing the python and R+ggplot2 for plotting is one reason for...

You could run `python -c 'import mappy; aligner = mappy.Aligner("/tombotest/fast5/msmeg.fasta")'` to help diagnose the underlying issue here.

There is not an attribute in the FAST5 indicating whether the sample is DNA or RNA, so the function in tombo to guess this is found here: https://github.com/nanoporetech/tombo/blob/master/tombo/tombo_helper.py#L872 I would...

Could you post the full set of commands run in order to obtain this error?

This is most likely due to the coverage filter applied during the detect modifications step. Not at my computer right now but the command line help should identify the correct...

Setting `--single-read-threshold` to `0.2 0.25` still discards calls between 0.2 and 0.25 in aggregation to compute the fraction modified. This is the reason for the difference in values reported in...