Upon request, Q-Chem will generate an input file for MolDen, a freely-available molecular visualization program.G. Schaftenaar and J. H. Noordik (2000), 15 MolDen can be used to view ball-and-stick molecular models (including stepwise visualization of a geometry optimization), molecular orbitals, vibrational normal modes, and vibrational spectra. MolDen also contains a powerful Z-matrix editor. In conjunction with Q-Chem, orbital visualization via MolDen is currently supported for , , and functions (pure or Cartesian), as well as pure functions. Upon setting MOLDEN_FORMAT to TRUE, Q-Chem will append a MolDen-formatted input file to the end of the Q-Chem log file. As some versions of MolDen have difficulty parsing the Q-Chem log file itself, we recommend that the user cut and paste the MolDen-formatted part of the Q-Chem log file into a separate file to be read by MolDen.
MolDen-formatted files can also be read by MacMolPlt, another freely-available visualization program.B. M. Bode and M. S. Gordon (1998), 14 MacMolPlt generates orbital iso-contour surfaces much more rapidly than MolDen, however, within MacMolPlt these surfaces are only available for Cartesian Gaussian basis functions, i.e., PURECART = 2222, which may not be the default.
$molecule 0 1 O H 1 0.95 H 1 0.95 2 104.5 $end $rem METHOD hf BASIS cc-pvtz PRINT_ORBITALS true (default is to print 5 virtual orbitals) MOLDEN_FORMAT true $end
For geometry optimizations and vibrational frequency calculations, one need only set MOLDEN_FORMAT to TRUE, and the relevant geometry or normal mode information will automatically appear in the MolDen section of the Q-Chem log file.
$molecule 0 1 O H 1 0.95 H 1 0.95 2 104.5 $end $rem JOBTYPE opt METHOD hf BASIS 6-31G* MOLDEN_FORMAT true $end