Possible solution: allow dashes, but in the generator translate them, e.g., as a double underscore (ad forbid double underscores from the name set)

This prevents the definition of a degradation rate or other relevant properties.
It would be nice to be able to set the type of the product, but in this case I would need it to be a protein.

e.g.:

chemical reactions{
"CREB_I +Ca2+_cAMP" to "CREB"
}

"CREB" {
has a degradation.rate of 0.5
}

It is not signalled as error but it produces one at runtime:
Exception in thread "main" java.lang.IllegalStateException: "CREB" is a molecule so it cannot degrade.

There is an error with this repository's Renovate configuration that needs to be fixed. As a precaution, Renovate will stop PRs until it is resolved.

Error type: undefined. Note: this is a nested preset so please contact the preset author if you are unable to fix it yourself.

 Create circuit "Genetic Toggle Switch" containing {
        the gene promoter1 that codes {
            the protein "repressor2"
            regulated by {
                the protein "repressor1"
                with a regulating.rate of 0.1
                with a degradation.rate of 2
            }
        }

        
    } with {
        a default initial.concentration of 0
        a default degradation.rate of 0.1
    } 

gives error
The floating-point literal does not conform to the expected type Int

The readme should give a clear description and quickstart for the project

"if it's not on CI, it's not working"

On windows the java commands gets too long and fails.

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 Create circuit "Genetic Toggle Switch" containing {
        the gene promoter1 that codes {
            the protein "repressor2"
            regulated by {
                the protein "repressor1"
                with a regulating.rate of 0.1
                with a basal.rate of 0.2
            }
        }
}

gives the error:
None of the following functions can be called with the arguments supplied. a(agct.binding.Rate) defined in agct.RegulationLevel.With a(agct.regulating.Rate) defined in agct.RegulationLevel.With

We should standardize the way we import dependencies