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Bugfix Boresch Correction #258

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@fjclark fjclark commented Nov 1, 2024

This pull request closes #248. I've updated the Boresch restraint correction to be consistent with the definitions of the restraint energies and forces as E = k * x **2 and F = 2 * k * x. To make this clear to the user, I've also updated the restraints docstrings and tutorial page to make this explicit, and have referred to the "k"s as "half force constants". This isn't the cleanest vocabulary, so please let me know if there's a better way to explain this.

  • I confirm that I have merged the latest version of devel into this branch before issuing this pull request (e.g. by running git pull origin devel): [y]
  • I confirm that I have added a changelog entry to the changelog (we will add a link to this PR as part of the review): [y]
  • I confirm that I have permission to release this code under the GPL3 license: [y]

Suggested reviewers:

@chryswoods, @lohedges

Thanks.

Previously, the correction was implemented assuming F=kx. This lead
to erroneously favourable absolute free energies of binding by
1.23 kcal mol-1.
Update the restraint function docstrings, restraints tutorial,
and changelog.
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Definition of force constants inconsistent between Boresch restraints correction and applied restraints
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