Current:
The test_prob.py from here fails when it tries to load the dna24.json linked in your repo.
I tried to patch your dna24.json by adding fields that were present in the default dna04.2.json, but this gives another error: nupack.structure_probability returns > 1 for certain cases (see my example)
Patching another way: binding the fields present in dna04.2.json and updating them with dna24 values does work and does not give p > 1, but I am now doubtful to trust its output.
Desired:
dna24.json working out of the box- no
p > 1 cases
Current:
The
test_prob.pyfrom here fails when it tries to load thedna24.jsonlinked in your repo.I tried to patch your
dna24.jsonby adding fields that were present in the defaultdna04.2.json, but this gives another error:nupack.structure_probabilityreturns > 1 for certain cases (see my example)Patching another way: binding the fields present in
dna04.2.jsonand updating them withdna24values does work and does not givep > 1, but I am now doubtful to trust its output.Desired:
dna24.jsonworking out of the boxp > 1cases