gaussian-step 2024.10.15

A SEAMM plugin for A SEAMM plug-in for Gaussian

SEAMM Gaussian Plug-in

A SEAMM plug-in for A SEAMM plug-in for Gaussian

• Free software: BSD-3-Clause

• Documentation: https://molssi-seamm.github.io/gaussian_step/index.html

• Code: https://github.com/molssi-seamm/gaussian_step

Features

• Please edit this section!

Acknowledgements

This package was created with Cookiecutter and the molssi-seamm/cookiecutter-seamm-plugin project template.

Developed by the Molecular Sciences Software Institute (MolSSI), which receives funding from the National Science Foundation under award ACI-1547580

History

2024.10.15: Bugfix: errors using short names of methods and functionals

• There were bugs in the code that caused errors when using short names, e.g. “HF” or “CCD” for the method, or e.g. “B3LYP” for the density fnctional.

2024.10.10: Enhancement: added sempiempirical methods

• Added the various semiempirical methods supported by Gaussian so they can be used from SEAMM.

2024.8.23: Enhancements: added bond orders and improved transition state optimization

• Added ability to calculate the Wiberg bond order matrix and optionally use to set the bond orders of the structure.

• Enhanced the optimization for transitions states to capture the vibrational analysis if the second derivatives are calculated, and report on the stability of the structure.

2024.7.27: Bugfix: issues when used in loop

• Fixed a bug that caused the plug-in to fail when used in a loop.

• Improved the creation of the gaussian.ini file to both work better and keep the comments in the file.

2024.6.5: Cleaned up logging from code.

• The logging was a bit aggressive, so moved most logging down to the debug level. This will make the output of e.g. geomeTRIC more readable.

2024.5.31: Added optimization of transition states, and…

• Corrected implementation of composite methods (Gn, CBS-x) to handle optimization.

• Added target of the optimization to allow transition states and saddle points.

• Corrected a bug in handling the maximum number of optimization steps.

• Corrected bug determining if optimization completed properly.

• Corrected bug handling the composite method results.

2024.5.27: Added number of optimization steps to results

• Added the number of steps for the optimizations to the results that can be output to tables, variables, etc.

2024.5.8 General enhancements

• Updated to new calculation handling, with ~/SEAMM/gaussian.ini controlling access to the installed version of Gaussian on the machine.

• Added energy and gradients to results to support general use in e.g. energy scans.

2024.1.19: Switched to new way to run Gaussian, added option to just write input file

• Switched to using the new way to run executables, which supports containers.

• Added an option to just write the input file, without running Gaussian. This is useful for debugging, and for running Gaussian on a remote server.

2023.10.25 Bug fixes: variable for functional, and parsing FChk file

• Fixed a problem with handling the functional if it was a variable rather than a specific functional.

• Fixed a problem parsing the FChk file. For exponents > 99 the FORTRAN format used in Gaussian grops the “E”, resulting in numbers like 0.947-104 that caused a problem when trying to read them.

2023.10.22 Bug fixes: orbital plots and output

• The plots of the HOMO and LUMO were shifted by one orbital due to some code counting from 1 and other, from 0. Sigh.

• The output to Job.out was inadvertently truncated.

2023.10.7 Added structure file for plots of density and orbitals.

• Always write the current structure as ‘structure.sdf’ in the directory where the cube files for orbitals and densities are written. The Dashboard picks up this file to render the structure along with the surfaces.

2023.9.27 Added composite and other methods, DFT functionals

• Now support HF, DFT, MP4, CCD & CCSD, CBS-x, and Gn methods

• Added PBE, PBE-98, PBE0, and HSE06 functionals

• Added analysis of HOMO/LUMO gap energy

• Added plotting of orbitals and densities

• Added otuput of atomic charges and spins, and placing them on the configuration.

• Added ability to control the system/configuration update

2023.2.26.1 Moved Gaussian output to output.txt

• Capturing stdout prevent users from seeing the output during a calculation. This fixes that.

2023.2.26 Initial version with energy and optimization

• Support running the energy or optimization with HF, DFT, MP2 and MP3 though testing has not yet been thorough.

• The DFT functional supported are at the moment limited.

2023.2.24

• Plug-in created using the SEAMM plug-in cookiecutter.