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:
Thanks for the help!
1 Like
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)
July 24, 2018, 2:17am
3
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.
1 Like
colinbrislawn:
Is there an issue for this?
Yep, it is linked to in the topic thread @mortonjt referenced above. Will repeat here for completeness:
opened 12:59PM - 17 Jul 18 UTC
closed 05:15PM - 24 Aug 18 UTC
type:bug
bug-sev:3|medium
bug-type:2|workaround-req
lang:javascript
lang:jinja2
lang:misc
lang:python
scope:0|this-project
src:forum
stat:in-progress
time:1|short
**Description**
The bokeh plots embedded in the viz appear to be broken - the c… onsole warning says "`[bokeh] could not set initial ranges`".
**Steps to reproduce the behavior**
1. Open this [example plot](https://view.qiime2.org/visualization/?type=html&src=https%3A%2F%2Fdocs.qiime2.org%2F2018.6%2Fdata%2Ftutorials%2Fmoving-pictures%2Fancom-Subject.qzv)
2. Open browser's developer console.
**Expected behavior**
The Bokeh plot should be present and not empty. There should be no errors in the dev console.
**Screenshots**
![screen shot 2018-07-17 at 5 59 01 am](https://user-images.githubusercontent.com/274668/42818733-8a08a712-8986-11e8-98f6-964db30c04c9.png)
**Computation Environment**
- OS: Darwin & Linux (example viz above created by Busywork)
- QIIME 2 Release 2018.6
**References**
1. [Original forum post](https://forum.qiime2.org/t/dots-are-missing-the-ancom-plot/5045)
2. [Second forum post](https://forum.qiime2.org/t/bug-bokeh-broken-for-ancom-analysis-visualization/5200)
system
(system)
Closed
August 25, 2018, 6:12am
8
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