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In chem_op, `mpnn_feat(mol, ..)`, `GetFeaturesForMol` takes 7-10ms/mol:
```python
factory = ChemicalFeatures.BuildFeatureFactory(fdef_name)
# [..]
feats = factory.GetFeaturesForMol(mol)
```
Then…
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I was just testing ARAXi example 2:
request = { "previous_message_processing_plan": { "processing_actions": [
"create_message",
"add_qnode(name=DOID:14330, id=n00)",
…
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**Report ID:**
MUF2FD2N-euc
**Exporter used:**
Better BibTeX
**Expected behavior:**
No matter whether the journal field contains a full our abbreviated journal name, the journal titles should…
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when I run this DSL in the `node-normalization` branch:
```
add_qnode(curie=DOID:11830, type=disease, id=n00)
add_qnode(type=gene, curie=[UniProtKB:P39060, UniProtKB:O43829, UniProtKB:P20849], is_s…
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When I run `python ARAX_query.py 6237` locally (in `master`, with the latest changes), I'm getting this error:
`ERROR: An uncaught error occurred: A process in the process pool was terminated abrup…
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I think I understand the purpose of each node and transition, but the A-FO transition stood out to me, since it creates FOE nodes without creating FI nodes. The L-FO transition makes a FI node that co…
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Hi, I'm trying to train the UniversalODE model of the predator-prey example but sciml_train fails (apparently caused by Zygote.gradient)
```
using DiffEqFlux, Flux, Optim, OrdinaryDiffEq, CUDA, Di…
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DSL command:
```python
query = { "previous_message_processing_plan": { "processing_actions": [
"create_message",
#"add_qnode(id=n00, curie=DOID:0050156)", # idiopathic pul…
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I thought it would be an interesting to start building in parallel a new DSL for biological reactions on top of [SciCompDSL.jl](https://github.com/JuliaDiffEq/SciCompDSL.jl). I have some ideas about i…
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**Submitting author:** @ashleefv (Ashlee N. Ford Versypt)
**Repository:** https://github.com/SMRuggiero/sbmltoodepy
**Version:** v1.0.3
**Editor:** @mgymrek
**Reviewer:** @SirSharpest, @marouenbg
**Ar…