Peter Vegh

I have a couple questions before looking into it in detail; in line `for i in range(len(sequence) - 6):` why do you have 6? Also should the range not increment...

I've tried your updated code (https://github.com/Edinburgh-Genome-Foundry/DnaChisel/issues/80#issuecomment-2183121437) on a simple example and it worked. I'm happy to try with sequences / tricodons that failed, if you post the full code here....

Thanks, yes can you please post how you run the code and specify the constraints, a failing example sequence and the avoid_tricodons contents here, or via email (see main github...

I'm closing this as the initial code example worked for me. Please post a full working example that reproduces the problem and I'll look into it again.

Thank you for spotting this, indeed it requires matplotlib for certain functions. It's a large dependency so I'm thinking whether to make it an optional install option (as in [DNA...

Yes I vote on that option too. I can implement it this week. @agsdot re your other question, I haven't used tailwindcss, but for semantic, the css is stored here:...

Hi thanks for trying this package. I'm not aware of an easy or built-in way of doing this. A workaround hack would be to add (random) bases to the beginning...

Thank you for describing this, it will be a good reference for the future.

Hi, I'm open to this suggestion. It will require changing `DnaOptimizationProblem.optimize_with_report()` and the sister method in `CircularDnaOptimizationProblem` and `write_optimization_report()` called by these. The two options are a flag parameter, or...

The referred PEP (https://peps.python.org/pep-0621/#license) is very old. The updated `pyproject.toml` specs are here: https://packaging.python.org/en/latest/specifications/pyproject-toml/#license The current way of specification is correct. I prefer to keep it transparent by explicitly specifying...