Sibbe Bakker

Hey @KatrinaLutap and @yiluheihei I get the same error with this script. What may help to prevent the error? ```R #'@title Linear discriminant analysis Effect Size analysis script. #'@description In...

Looking at the code, the function `check_rank_names` checks whether the names of the taxa are all in the variable `available_ranks`. https://github.com/yiluheihei/microbiomeMarker/blob/afe4745f3e27f0401d0e96cc412af9b6ab50c83d/R/utilities.R#L31-L36 This global constant is defined here: https://github.com/yiluheihei/microbiomeMarker/blob/afe4745f3e27f0401d0e96cc412af9b6ab50c83d/data-raw/available_ranks.R#L1-L11 So in...

Nice to see that the PR is merged, but it is not yet build into the new docker image. @amorehead can you repost the docker (https://hub.docker.com/r/drailab/neuralplexer)

Thank you, that is clear! Two more questions, 1) How would I turn p1 to up:p1? I did not understand how this would work: an example such as this ```...

Oke great, that works. I came up with this code to add the up namespace to my proteins. ``` clusterA(a, p1) . clusterA(a, p2) . clusterA(a, p3) . clusterA(a, p4)...

Is there also a way to have a default namespace so as to not use relative iri's?

Thanks @mmarx and @Laschoking . When I will find the time I will try to add this example in a generalised way to the documentation

When I do this the file names get changed: from clusterhasTotalConnections.csv to https___example.org_clusterhasTotalConnections.csv. This turn the output into a html document that just contains example data. ``` ; . Example...

```bash apptainer run --nv results/dependencies/neuralplexer/neuralplexer.sif neuralplexer-inference --task=batched_structure_sampling --model-checkpoint results/dependencies/neuralplexer/data/neuralplexermodels_downstream_datasets_predictions/models/complex_structure_prediction.ckpt --out-path results/data/test/2024-05-13_20:16/ --input-receptor "FGGGFGGGGGSGSGSGG|FGGGFGGGGGSGSGSGG|FGGSGSGSGG" --input-ligand "data/lig_ref.sdf|data/lig_ref.sdf" --sampler langevin_simulated_annealing --n-samples 10 --cuda ``` The sequences are provided as text directly to the...

@ehsansyh I got the same issue, made an issue for it: #40