search

rpetit3 / dragonflye

:dragon: :fly: Assemble bacterial isolate genomes from Nanopore reads
GNU General Public License v3.0
115 stars 10 forks source link

Unable to verify model 'r941_min_sup_g507' #6

Closed llk578496 closed 2 years ago

llk578496 commented 2 years ago

Hi @rpetit3 ,

We tried to polish the contigs with model r941_min_sup_g507, but we get these error message:

[dragonflye] Verifying input model (--model): r941_min_sup_g507 [dragonflye] Unable to verify model 'r941_min_sup_g507', please check spelling and try again.

May I know is this model included in dragonflye?

rpetit3 commented 2 years ago

Hi @llk578496 , you can use --list_models to get the available models. Let me know if this helps

ArnieBerg commented 2 years ago

I am also getting this error now (Ubuntu 18.04). Just installed DragonFlye with conda. The real reason the error occurs is the --list_models does not return the available models. This was working previously. I need a fix.

rpetit3 commented 2 years ago

Hi @ArnieBerg,

I will look into this. Please just keep in mind Dragonflye is a tool a maintain in my free time, so, I can't give a timeframe on this issue.

If you have a solution, please feel free to submit a pull request.

Thank you for using Dragonflye, and I will try to update soon. Robert

rpetit3 commented 2 years ago

This is fixed in v1.0.7 (https://github.com/rpetit3/dragonflye/releases/tag/v1.0.7) medaka v1.5.0 changed how it reports the models. I've pinned the Bioconda recipe to always use >v1.5.0 of medaka. The new version should be available from Bioconda soon.

Please feel free to reopen

ArnieBerg commented 2 years ago

Thankful for your quick action and looking forward to installing the update!