irida
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Upgrade SNVPhyl tools in Galaxy Docker
Describe the bug
The current version of Galaxy Docker used by IRIDA does not have the latest tools for SNVPhyl installed.
Steps to reproduce the problem
- Launch the latest IRIDA
- Launch the latest Galaxy Docker
- Launch SNVPhyl
- You will get an error.
Expected behaviour
I expected SNVPhyl to succeed.
Additional context
None
Would it help to switch to my deployment implementation? https://github.com/brinkmanlab/irida-container
So SNVPhyl is actually upgraded in Galaxy Docker and has been upgraded for a while. The issue is that we haven't updated our documentation to reference the newer Docker image. The up-to-date version of Galaxy/IRIDA Docker can be run with:
docker run -d -p 48888:80 -v /path/to/irida/data:/path/to/irida/data phacnml/galaxy-irida-20.09
(that is, we switched from phacnml/galaxy-irida-20.05
to phacnml/galaxy-irida-20.09
).
Thanks for the suggestion @innovate-invent. However we luckily don't need to re-build Docker at this stage. So maybe something we can look into later.