Bug: Bokeh broken for ANCOM analysis visualization

[Greg_Poore]

I finished the Moving Pictures tutorial and found that the last 2 visualizations using Bokeh did not function on my personal machine or when using the QIIME 2 website link. I feel as though there may be a bug with the package or its interface with QIIME 2. I’ll attach some links below:

• Link to premade QIIME 2 output visualization from Moving Pictures tutorial (no Bokeh plot appears): https://view.qiime2.org/visualization/?type=html&src=https%3A%2F%2Fdocs.qiime2.org%2F2018.6%2Fdata%2Ftutorials%2Fmoving-pictures%2Fl6-ancom-Subject.qzv
• Link to Moving Pictures tutorial (one can click on the last link to see the issue): https://docs.qiime2.org/2018.6/tutorials/moving-pictures/

Thanks for the help!

[colinbrislawn (Colin J Brislawn)]

Hello Greg,

Good catch! This plot is also empty on my computer.

Official Qiime demo visualization that should work (but doesn’t).

[mortonjt (Jamie Morton)]

This has already been raised here: Dots are missing the ANCOM plot?

The problem likely has to do with the latest bokeh install: https://github.com/qiime2/q2-composition/issues/56

The workaround for now is to downgrade bokeh to a previous version. bokeh==0.13.0 should do the trick.

[thermokarst (Matthew Ryan Dillon)]

Is there an issue for this?

Yep, it is linked to in the topic thread @mortonjt referenced above. Will repeat here for completeness:

Issue: Bokeh plot appears to be broken