Marcel Schilling
Marcel Schilling
@johannesostner, @Zethson: Could you please comment if this is still a concern when using the the scCODA implementation from pertpy? I ran the same analysis twice and got identical results....
@Zethson: Thanks for the fast feedback, as always. I don't mind installing the DE dependencies. I just wanted to report the inconsistency between documentation and reality. 😉 Off-Topic: How long...
I tried three time and it always stopped at the same step. Running `pytest --ignore=tests/metadata/test_drug.py` now. 🤞🏻 Thank you for the help. --- PS: I am hitting several failing tests...
1. Install [the dependecies](https://qpdf.readthedocs.io/en/stable/installation.html#basic-dependencies) (How depends on your system). 2. Build [using Cmake](https://qpdf.readthedocs.io/en/stable/installation.html#basic-build-invocation) (`cmake -S . -B build && cmake --build build`). 3. Install [using Cmake](https://qpdf.readthedocs.io/en/stable/installation.html#installation-and-packaging) (`cmake --install`). 4. Voila!...
@shihsama: Do you have a public (small) dataset that could be used as an example for this issue? If you could provide some code for me to reproduce the 'long'...
No worries. I wouldn't get to this before next week or the one after anyway. Until then it would really help me to have a small example I can copy/paste...
From a quick look, this line might be responsible for the deviation: https://github.com/scverse/pertpy/blob/1e52b1f9ee948afab1a926c98ac9223f43006e45/pertpy/tools/_coda/_base_coda.py#L1010 It also suggests that the `condition` part in my example above was expected to be `Condition`. Is...
@Zethson: I think it is hard to predict all potential cases with complex models. Plus patsy is a moving target as well as pointed out above. I can give it...
@Zethson: >It does but only if the solver is edger (see just a few lines above). That's why I uses 'conditionally'/'optional'. I think adding a milo group for this dependency...
Yes. Can do so tomorrow in the morning.