VMD tutorial

[@kevinluna5786]

So cool!!! I don’t know anything about MD, can you recommend me how and where can I start? THX very much!

[@elsayamelieaguayomartinez9533]

Hi Scott, I'm trying to make some MD, the water particles of my simulation seem to be out of the box's limits, any idea of how to solve it?

[@joelmartindalmas328]

I just have the same problem than you. The box has one of it's axes in the center of my simulation

[@jfb626]

Hi, I am taking a module on Molecular Simulation which requires me to use MobaXTerm on Linux to log into arc3 to then use VMD. I was wondering if you knew what the best alternative for macOS as I would like to be able to use it on my laptop. Thanks!

[@scottmilner5649]

In the video, VMD is running on the remote machine (a Linux cluster), not the local machine (for me, a MacBook Pro). To run VMD on a remote machine from a terminal emulator, as for any "graphical" program (one that "draws something" or "opens a window"), you often need another app (called an X11 server) on the local machine to display the windows. On the Mac, the terminal emulator is iTerm, and XQuartz displays the windows. MobaXTerm is a terminal emulator that runs on Windows, so you can connect to a remote Linux machine. From the MobaXTerm website, it appears MobaXterm includes an X11 server to display windows. Ask your instructor for help, perhaps?

[@jfb626]

Scott Milner thank you!