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### Contact Details
_No response_
### Location
runBiosimulations
### What happened?
When running the attached SED-ML file, biosimulations claims there's an error:
```
target /sbml:sā¦
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MoBi-Import of [BIOMD0000000528](http://www.ebi.ac.uk/biomodels-main/BIOMD0000000528) and [BIOMD0000000489](http://www.ebi.ac.uk/biomodels-main/BIOMD0000000489) Biomodels fails due to wrong import of ā¦
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The key idea of memote is that
> Models should, for the benefit of the community and for research gain, live up to certain standards and minimal functionality.
Within the memote manuscript it isā¦
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= Description =
- Provide the API for adding or removing compartments in SBML models through the Change mechanism in SED-ML.
= Context =
- Compartments are an important element of the SBML language, ā¦
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Write a utility that can convert an SBML model to a scipy/LSODA model so that the model can be simulated using the builtin scipy tools. At the moment this is a tedious thing to do. One use case is forā¦
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We should update the example of multicompartmental model use in the SBML specification (example 7.8 on p. 130 of SBML Level 3 Version 2 Core Release 2 of 29 March 2019 as the current definition is proā¦
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in the SBML model (e_coli_core), if I set the extracellular species as a boundary species (e.g. for kinetic simulation), and then load the model to cobra, even though the exchange reactions (and boundā¦
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Hello
I am trying to create a cobra model using sample SBML files downloaded from [KEGG converter](http://www.grissom.gr/keggconverter/). The ``io`` method ``read_sbml_model`` is able to generate mā¦
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Atomizer fails with the following error when I try to run it on a small SBML level 3 model:
```
Traceback (most recent call last):
File "", line 68, in
File "", line 58, in main
File "/Uā¦
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Currently the SEDML xpath expressions are resolved via heuristic from xpath string without using the xml of the model. This should be changed to use xpath from xml library with model xml.
This curreā¦