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I see errors with `cbmpy.CBGLPK.glpk_FluxVariabilityAnalysis` in 0.8.1 and swiglpk 4.65.1, 5.0.0, and 5.0.3 from PyPI. Is a newer version of swiglpk needed?
```
> solution = cbmpy.CBGLPK.glp…
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CBMPy, COBRApy, MASSpy, and RBApy can run more quickly with commercial alternatives (e.g., Gurobi, CPLEX) to open-source dependencies (i.e. GLPK).
- CBMPy: CPLEX
- COBRApy: CPLEX or Gurobi
- MASSp…
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Currently `test_biosimulators` runs tests on the following biosimulators: biosimulators_tellurium, biosimulators_cobrapy, biosimulators_cbmpy, biosimulators_bionetgen, biosimulators_gillespy2, biosimu…
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If passing a dict with only a subset of all reaction bounds the function fails.
If you change the first line from:
`fbids = self.getFluxBoundIds()`
to
`fbids = bounds.keys()`
you can change all b…
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Hello, I am trying to create a model of Macaca Mulatta (mmul) using MetaDraft. I have the `.faa` file for mmul, along with a Homo Sapien `.gbff` file and an SBML file (Recon3D from the BiGG database).…
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When I do
```
import cbmpy as cbm
mod = cbm.CBRead.readSBML3FBC('e_coli_core.xml.gz')
print(mod.getAllProteinGeneAssociations()['G_b4395'])
mod.deleteReactionAndBounds('R_PGM')
print(m…
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When I do
```
import cbmpy as cbm
mod = cbm.CBRead.readSBML3FBC('e_coli_core.xml.gz')
mod.getGene('G_b4395').setLabel('b4301')
```
I receive - as expected - a warning that the gene labe…
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Let's say I take an existing model and do
```
import cbmpy as cbm
mod = cbm.CBRead.readSBML3FBC('e_coli_core.xml.gz')
cbm.doFBAMinSum(mod)
```
everything will work as expected.
However,…
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Model [01186](https://github.com/sbmlteam/sbml-test-suite/blob/7ab011efe471877987b5d6dcba8cc19a6ff71254/cases/semantic/01186/01186-model.m) (steady state metabolic model) is expected to pass in COBRAp…
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According to GPL:
If the program does terminal interaction, make it output a short
notice like this when it starts in an interactive mode:
{project} Copyright (C) {year} {fullname}
…