Autotests: Replace Add/Remove Hydrogens operations with valid helper functions

[AlexeyGirin]

Identify all Add/Remove Hydrogens operations made by using methods
selectTopPanelButton(TopPanelButton.toggleExplicitHydrogens, page);
and replace them with proper methods (create them if needed)

Do not forget to wrap it into

    await waitForSpinnerFinishedWork(
      page,
      async () =>
        await selectTopPanelButton(
          TopPanelButton.toggleExplicitHydrogens,
          page,
        ),
    );

Hint: Try to find TopPanelButton.toggleExplicitHydrogens