Will deep-signal plant accept remora?

[vidsvur]

Hello,

We have been facing issues trying to run tombo (similar to issue #33).

1. We have tried converting multi-read fast5s to single-read fast5s, and this still didn't work
2. We also tried an older version of guppy as we saw in this issue.

We were wondering if we could use remora instead of tombo? Will that be an acceptable input into deepsignal-plant?

[PengNi]

Hi @vidsvur , thank you very much for using our tool. To run tombo and deepsignal-plant, besides converting multi-read fast5s to single-read fast5s, the VBZ pulugin may also should be set as a environment PATH:

# download ont-vbz-hdf-plugin-1.0.1-Linux-x86_64.tar.gz (or newer version) and set HDF5_PLUGIN_PATH
# https://github.com/nanoporetech/vbz_compression/releases
wget https://github.com/nanoporetech/vbz_compression/releases/download/v1.0.1/ont-vbz-hdf-plugin-1.0.1-Linux-x86_64.tar.gz
tar zxvf ont-vbz-hdf-plugin-1.0.1-Linux-x86_64.tar.gz
export HDF5_PLUGIN_PATH=/abslolute/real/path/to/ont-vbz-hdf-plugin-1.0.1-Linux/usr/local/hdf5/lib/plugin

deepsignal-plant doesn't accept either guppy or remora as the input yet. We now are updating this tool to abandon tombo, but it may still need months.

Best, Peng