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add link to cli docs
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cookbook/cofactors_rbfe.ipynb

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"\n",
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"\n",
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"<div class=\"alert alert-warning\">\n",
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"Note that partial charges are already assigned for both the ligands and cofactors. See <a href=\"https://docs.openfree.energy/en/latest/cookbook/user_charges.html\">Assigning partial charges to an OpenFF Molecule</a>.\n",
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"Note that partial charges are already assigned for both the ligands and cofactors. See <a href=\"https://docs.openfree.energy/en/latest/cookbook/user_charges.html\">Assigning partial charges to an OpenFF Molecule</a> or and <a href=\" https://docs.openfree.energy/en/latest/reference/cli/charge_molecules.html\">charge-molecules CLI command</a> for information on assigning partial charges.\n",
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"\n",
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"Supplying cofactors as SmallMoleculeCompoents means they will be parameterized using the small molecule force field, which might not be applicable in all situations.\n",
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"</div>\n"

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