Lukas Heumos
Lukas Heumos
It's from ipykernel I think
@Moomboh Indeed. ete3 requires it for plotting. So I'll need to make these dependencies optional urgh.
If I did things correctly, ete3 and pyqt5 should now be optional dependencies. @tessadgreen can you please test the latest development branch?
Apparently people are working on it https://github.com/etetoolkit/ete/issues/656
@Moomboh thank you very much for your in depth response. Yes, please open a separate issue for this. I'd also be happy to get a PR in with your suggested...
> New brew install required by the _dialogue.py. The new linear programming solver requires system-wise ipopt install on Mac, which can be done with `brew install ipopt` It should only...
Yeah, I'll write up proper installation instructions soon, sorry.
@mschilli87 1. This is fixed in a big doc refactor that I'll probably merge today. It's pyqt6 and ete4 now. 2. Yes, I think this makes sense. I'll have a...
@mschilli87 investigated this a bit. Of the Coda extras, only `arviz` is required for scCODA. All other are only required for tascCODA. Have you observed any issues installing `arviz` on...
It's only required for the `summary_prepare` function which is also used for `set_fdr`. There's probably a way to make things less arviz dependent but I would need to spend some...