search

phac-nml / irida-plugin-amr-detection

IRIDA Plugin for AMR Detection
Apache License 2.0
3 stars 3 forks source link

RGI command not found (v4.2.2) #10

Closed deepsidhu85 closed 3 years ago

deepsidhu85 commented 4 years ago

When running the amr detection pipeline the analysis fails when trying to run rgi with the error: rgi: command not found

For now to fix this issue you can run the following commands: conda activate /tool_deps/_conda/envs/__rgi@4.2.2 conda install -c defaults -c conda-forge -c bioconda rgi=4.2.2

apetkau commented 3 years ago

Fixed in release 0.2.0 (updates RGI to 5.1.1) - https://github.com/phac-nml/irida-plugin-amr-detection/releases/tag/0.2.0