Search found 3 matches

by Melly Nd
Mon Sep 23, 2024 8:42 am
Forum: OpenMM
Topic: GROMACS file with OpenMM: Particle coordinate is NaN
Replies: 3
Views: 502

Re: GROMACS file with OpenMM: Particle coordinate is NaN

The files were not supported to attach. Therefore, here is the link to the files:
https://drive.google.com/drive/folders/ ... sp=sharing
by Melly Nd
Mon Sep 23, 2024 8:34 am
Forum: OpenMM
Topic: GROMACS file with OpenMM: Particle coordinate is NaN
Replies: 3
Views: 502

Re: GROMACS file with OpenMM: Particle coordinate is NaN

Thank you Peter for your fast reply. Means a lot!
by Melly Nd
Mon Sep 23, 2024 8:15 am
Forum: OpenMM
Topic: GROMACS file with OpenMM: Particle coordinate is NaN
Replies: 3
Views: 502

GROMACS file with OpenMM: Particle coordinate is NaN

Dear all, I have already used OpenMM for MD simulation using .psf files generated by VMD. However, this time I was going to use GROMACS output files (i.e., solvate-ionised-minimised-protein.gro and topology.top) files as the input of OpenMM. As soon as my simulation goes to the equiliberation phase,...