Command name namd2 is not being accepted

Question

[Jack Benny]

I am using a Windows 10 platform to perform simulation of ubiquitin. In the MS-DOS command window, I type ./namd2 ubq_wb_eq.conf > ubq_wb_eq.log & but I keep getting the error message invalid command name "./namd2". The weird thing is that just a week ago, this command was working. Does anyone have any suggestions?

[GenoMax]

Obvious thing to check is are you in the directory where the namd2 executable is present? If not you would need to provide the full path like c:\program files\some_dir\namd2 ubq_wb_eq.conf > ubq_wb_eq.log & in your command.

[Jack Benny]

Genomax2, thank you -- I did not know about putting the whole path directory. Jack

[GenoMax]

Are you using cygwin (unix like environment for windows) or are you using a virtual machine?

[Jack Benny]

Hello, Genomax2. No, I'm not using any Linux like environment for Windows. I'm using command line on actual Windows, which accounts for the fact that some of the Linux commands are giving errors.

Answer 1

[kloetzl]

./namd2 is the unix way of saying “look for namd2 in the current directory”. Windows does that anyway so just namd2 ubq_… should be sufficient. (In technical terms: . is part of the PATH on windows by default.)

Also, an windows it should be .\namd2, amyrite?

[Jack Benny]

Kloetzl, thanks. I don't know whether it's forward slash or backward slash (one website says forward slash), so I will try both. Thanks again. Jack