From: Suranga Edirisinghe (nerangedi_at_gmail.com)
Date: Wed Aug 29 2012 - 09:26:39 CDT
you can use absolute path.
<path to your namd>namd2 <path to configuration file> <configuration file>
On Wed, Aug 29, 2012 at 2:30 AM, Axel Kohlmeyer <akohlmey_at_gmail.com> wrote:
> On Wed, Aug 29, 2012 at 10:58 AM, Monika Madhavi
> <monikamadhavi_at_gmail.com> wrote:
> > Dear all,
> > This is a very basic question but this is my first program in NAMD. I
> > downloaded NAMD_2.9_Linux-x86 binary and extracted it in my home
> > My configuration file is also in the home directory. Then I typed namd2
> > myconfigfile.conf in a terminal window and I got "namd2 command not
> found ".
> this is not a NAMD issue at all, but a generic linux/unix issue.
> unlike on some other operating systems, the current directory '.'
> is not in the search path for executables, hence the error message
> that 'namd2' is not found as a command.
> you either have to add the directory with the NAMD executable
> to your PATH environment variable, or use ./namd2 which will
> use for the exectutable namd2 explicitly in the local directory.
> have a look around the web for some tutorials on linux shell
> basics. there are some really good ones around. that'll should
> be also helpful to understand a lot of other things that you will
> encounter in the future.
> > Then I copied my configuration file inside the extracted folder and typed
> > the same in terminal and got the same massage.
> > Can someone please help me to find where I went wrong? Do I have to keep
> > configuration file in a specific location for namd to run it?
> > Thank you.
> > Monika
> Dr. Axel Kohlmeyer akohlmey_at_gmail.com http://goo.gl/1wk0
> International Centre for Theoretical Physics, Trieste. Italy.
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