-
---
id: copasi
version: 4.35.258
specificationsUrl: https://raw.githubusercontent.com/biosimulators/Biosimulators_COPASI/37ac0ac28ccf454527a58c32f8e9efed1de3bc5f/biosimulators.json
specificationsPatch…
-
When I send a request to the /create Enpoint, containing the following JSON:
JSON
```
{
'name': 'decarboxylation',
'pubmedid': '23232',
'url': 'www.example.com',
'doi': 'doi:…
-
I am a bit lost tracing this and trying to find the error. I have the following code:
```python
omex_metadata=[{
'uri': '.',
"combine_archive_uri": BIOSIMULATIONS_ROOT_URI…
-
Execute the first part of `Scenario5/PySCeS/Cephalexin_Synthesis_Model4.ipynb` from the Lauterbach2022 repo online (either via Binder, or via Google Colab), up until the archive `Model_4.omex` is writ…
-
I think the current implementation of the pysces thinlayer does not update global parameters.
-
Identified by @bilalshaikh42. Motivated by the use of OMEX manifests by PMR.
All of the OMEX manifest I've seen have entries for their parent archives. The one exception is PMR. We could raise an w…
-
Exported COMBINE archives from Physiome, e.g., from https://models.physiomeproject.org/e/43f/download_generated_omex are missing some files.
Example missing files:
- `e/43f`
- `/components/defa…
-
A method to return the proper type from a given file ending would be helpful. I have started working on a dictionary to perform this mapping when processing files from the pmr workspaces.
```pyth…
-
---
id: smoldyn
version: "2.67.3"
specificationsUrl: https://raw.githubusercontent.com/ssandrews/Smoldyn/580f37c1c42c5ee3d1854187d37806ecd918a21c/biosimulators.json
specificationsPatch:
version: "2.…
-
---
id: netpyne
version: 1.0.0.2
specificationsUrl: https://raw.githubusercontent.com/biosimulators/Biosimulators_pyNeuroML/49a209029c515b25dc7350fce1396098f0fa817f/biosimulators-netpyne.json
spec…