autosolvate.startboxgen autosolvate.solventBoxBuilder autosolvate.solventBoxBuilder.build autosolvate.solventBoxBuilder.getSolutePDB autosolvate.solventBoxBuilder.getFrcmod autosolvate.solventBoxBuilder.getHeadTail autosolvate.solventBoxBuilder.writeTleapcmd1 autosolvate.solventBoxBuilder.createLib autosolvate.solventBoxBuilder.writeTleapcmd_add_solvent autosolvate.solventBoxBuilder.processPackmolPDB autosolvate.solventBoxBuilder.packSLUSLV autosolvate.solventBoxBuilder.writeTleapcmd_custom_solvated autosolvate.solventBoxBuilder.createAmberParm autosolvate.generatetrajs.startmd autosolvate.generatetrajs.writeMMminInput autosolvate.generatetrajs.writeMMheatInput autosolvate.generatetrajs.writeMMNVEInput autosolvate.generatetrajs.writeMMNPTInput autosolvate.generatetrajs.runMM autosolvate.generatetrajs.writeQMMMTemplate autosolvate.generatetrajs.writeQMMMMinInput autosolvate.generatetrajs.writeQMMMInput autosolvate.generatetrajs.runQMMM autosolvate.clustergen.clustergen autosolvate.clustergen.startclustergen