analysis.tetrad: Broken for toytree and updated Tetrad API

[isaacovercast]

The tetrad analysis tool is broken by default and it's tricky to actually get it running, but you can do so by pinning the toytree version and checkout out the last known working commit from the tetrad repo, like this:

conda create -n tetrad python=3.10
conda activate tetrad
conda install -c eaton-lab -c bioconda -c conda-forge ipyrad toytree=2.0.4 tetrad=0.9.14
git clone https://github.com/eaton-lab/tetrad.git
cd tetrad
git checkout d7792d3101281014e7d4f648f6f11da4bf0799f9
pip install -e .

Then it should work.

[isaacovercast]

If you install python 3.11 instead you'll get an 'invalid mode' error because the toytree 2.0.4 branch used a 'rU' mode which got removed in 3.11