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cli: output file exists handling

Status: Open.

#1934 In OpenFreeEnergy/openfe;

· atravitz opened on Apr 9, 2026

move network plotting to konnektor

priority:medium

Status: Draft (not ready).

OpenFreeEnergy/openfenumber 1522

#1522 In OpenFreeEnergy/openfe;

· atravitz opened on Sep 18, 2025

re-evaluate stdout

clicommand-line interfacecommand-line interface

priority:medium

Status: Open.

#988 In OpenFreeEnergy/openfe;

· atravitz opened on Oct 28, 2024

RFE Protocol uses stateA / stateB from the mappings instead of the provided ChemicalSystems

Status: Open.

#1371 In OpenFreeEnergy/openfe;

· IAlibay opened on Jun 13, 2025

Make restraint objects GufeTokenizable

Status: Open.

#1388 In OpenFreeEnergy/openfe;

· jthorton opened on Jun 26, 2025

Settings objects should not allow invalid options

Status: Open.

#1389 In OpenFreeEnergy/openfe;

· jthorton opened on Jun 26, 2025

Running pytest -v --pyargs openfe openfecli leaves open too many files

priority:medium

Status: Open.

#1548 In OpenFreeEnergy/openfe;

· mikemhenry opened on Oct 3, 2025

Add docs about force field choices and enumerate all the possible small molecule force fields.

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

#1840 In OpenFreeEnergy/openfe;

· IAlibay opened on Feb 12, 2026