Moritz E. Beber

My first question is, are you sure that you do not have CPLEX installed in the same environment? It would be very unusual for cobrapy to pick the CPLEX solver...

> I have tried it on multiple machines (where I admit there is cplex installed but not enabled in cobra), and have also tried it in a docker environment and...

This is exactly the kind of thing that I'd like to address when tackling #967. I don't know how much time you have for achieving your task but it probably...

I suppose issuing a warning and maintaining the loop is the safest option? > If you agree I can start a PR. Please go ahead :slightly_smiling_face:

Just wanted to report a scenario here (maybe you have already considered it) where the current output doesn't show the unclassified reads for some reason. kraken2 report: ```tsv 100.00 16255900...

I expected to see something like this: 

I suppose it is only sensible to put as much of the code from algorithms/community/spectrum.py and algorithms/community/laplacian_spectral.py into the fitting linalg modules. Any estimate on when #741 will be merged?

I don't have a good overview right now but I know I stopped the merging effort back then because there were some spectral functions being written. So those could probably...

As a note, I've moved the functionality that I care about to https://github.com/Midnighter/dependency-info. It's based entirely on importlib metadata. It only has a very minimal feature set, though.

Now that we have subworkflows, is this already tackled, should we tackle this?