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Command name namd2 is not being accepted

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?

namd2 molecular dynamics namd
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updated by kloetzl kloetzl • written by Jack Benny • Jack Benny

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.

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written by GenoMax GenoMax

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

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written by Jack Benny • Jack Benny

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

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written by GenoMax GenoMax

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.

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written by Jack Benny • Jack Benny

1 answer

./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?

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written by kloetzl kloetzl

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

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written by Jack Benny • Jack Benny

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