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Hi
I have a general SBML question about unit tag and the value of multiplier for second.
Most models use **mmol_per_gDW_per_hr**, they define **mole**, **gram**, and **second**.
They all use *exp…
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= Description =
- Provide the API for adding or removing species in SBML models through the Change mechanism in SED-ML.
= Context =
- Biochemical species are central to the SBML language; it should b…
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Hi
Several BiGG models are invalid in SBML format:
- "listOfFluxObjectives cannot be empty"
e.g. iMM1415, iSynCJ816, iAT_PLT_636, iRC1080
Some models have no objective functions (see #333), but …
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## SBML test suite report
SBMLtoolkit.jl is regularly tested against the [SBML test suite](https://github.com/sbmlteam/sbml-test-suite/tree/master/cases/semantic). The last test was run on October 24…
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I'm trying to run many models in parallel for data fitting in a cluster (Hyak) using ipyparallel. However, I keep running into cryptic segmentation fault errors when loading model binaries in the remo…
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To facilitate the use of SED-ML beyond kinetic models encoded in SMBL, I think it would be helpful to add URNs for the SBML-fbc, multi, and qual packages. Because these packages are largely used separ…
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Hi,
I'm trying to download the Pexpansum model and read it using cobrapy.
I'm getting an error on cobrapy that the sbml model is not valid.
do your models works with cobrapy?
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This feature has been requested and would be useful. It's on the google groups thread: https://groups.google.com/forum/#!topic/kroneckerbio-users/__aVJ6GjF9c. We used to have is when we still used sym…
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I used http://sbml.org/Facilities/Validator/ to validate a few of the models after cobrapy said that they were invalid and the validator said that there were two issues:
SBML Validation Rule #10713…
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_From @jjkoehorst on December 21, 2017 6:56_
In a different project we are looking into using Escher in combination with SBML to generate pathway layouts using standardised or home made models. In Es…