Hi
Hai, I did not install amber I am using comet on SDSC.
Alican, you are correct I am running from bash.
Do I just type perl into the command line inorder to use the process_mdout.perl?
On Sunday, October 16, 2016 11:58 PM, Hai Nguyen <nhai.qn.gmail.com> wrote:
hi,
have you installed amber by yourself?
If you did not see any process_mdout.perl in $AMBERHOME/bin, there was
something wrong with your installation.
Please check installation section in amber15 manual,
http://ambermd.org/doc12/Amber15.pdf, page 23.
Follow Alican's suggestion might help to solve your issue too.
Hai
On Sun, Oct 16, 2016 at 11:49 PM, Stacyann Nelson <mitize2000.yahoo.com>
wrote:
> Hi Hai,
> Thank you for your response.
> I am using amber/15
> I am new to molecular dynamics what do you mean by source amber.sh?
> I have module load amber.
> I search the bin and no perl script.
> Regards Stacy
>
>
>
> Sent from Yahoo Mail on Android
>
> On Sun, Oct 16, 2016 at 11:36 PM, Hai Nguyen<nhai.qn.gmail.com> wrote:
> hi,
>
> which version of amber you are using? have you sourced amber.sh yet?
> That perl script is normally in *$AMBERHOME/bin*
>
> cheers
> Hai
>
> On Sun, Oct 16, 2016 at 11:14 PM, Stacyann Nelson <mitize2000.yahoo.com>
> wrote:
>
> > Dear All,
> >
> > I ran MD simulations to equilibrate a protein strand and now I would like
> > to analyze the results. However using the process_mdout. perl from the
> > tutorial is giving the following error on Comet.
> >
> > -bash: process_mdout.perl: command not found
> >
> > My question is how can I get this into my path on comet to run the
> > analysis?
> >
> > Regards
> >
> > Stacy
> >
> >
> >
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> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
> >
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Received on Sun Oct 16 2016 - 21:30:02 PDT
