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nanoporetech / megalodon

Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.
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Guppy version string does not match expected pattern #341

Open alexandergfuji opened 1 year ago

alexandergfuji commented 1 year ago

hi, I'm having some trouble getting megalodon to run. The error I get is : "Guppy version string does not match expected pattern"

I used the following command: megalodon /fast5/directory/ --guppy-config dna_r9.4.1_450bps_modbases_5mc_hac.cfg --guppy-server-path path/to/guppy_basecall_server --outputs mod_mappings mods --reference path/to/reference.fna.mmi --mod-motif m CG 0 --devices 1 --processes 16 --overwrite

I am working in a conda environment I used pip install megalodon, which installed version 2.4.1 I'm using version 6.4.6 of the GPU version of guppy, which has been used to successfully basecall before.

Any advice on how to resolve this? I've seen the same issue in another older thread, but didn't find a solution there.

marcus1487 commented 1 year ago

megalodon is deprecated and this issue will not be fixed. Please convert your pipelines to the recommendations in the README or contact support for alternative options.