jwdebelius
(Justine Debelius)
June 9, 2025, 6:33pm
1
Hi All,
I'm trying to use QIIME within a Jupyter Hub server instance from docker. I cannot get the jupyter serverextension enable --py qiime2 --sys-prefix
to work. I've tried adding it various places in the docker build but non seem to give me the right answer. @SoilRotifer mentioned a similar issue a few weeks ago.
Best,
Justine
ebolyen
(Evan Bolyen)
June 9, 2025, 6:40pm
2
Hi @jwdebelius ,
It might be docker which is the issue, but there's another user with a suspiciously similar problem
Hi all,
I've used qiime2 for more than 5 years on Intel Mac. Recently, while using qiime2 on Jupyter notebook, I am facing the following error when performing a visualization. As a result, interactive figures are not shown.
Install QIIME 2 Jupyter extension with:
jupyter serverextension enable --py qiime2 --sys-prefix
then restart your server.
(Interactive output not available on static notebook viewer services like nbviewer.)
Of cource, I've tried to run jupyter serverextension enable -…
Could you reply with some of the same info?
Also, docker is super annoying with PATH sometimes, so you may need to run /opt/miniconda3/<yourenv or something>/bin/jupyter
.
Do you get any errors, or does it just blast past your RUN command and not work anyhow.