Do you see a ptraj there? I'm guessing you'll have to reinstall
AmberTools. (If the rest of AmberTools is present, you can just do
cd $AMBERHOME/src/etc/ && make install
HTH,
Jason
On Mon, Aug 1, 2011 at 11:58 PM, Chirag Vora <chirag740.gmail.com> wrote:
> I want to generate a PDB file from prmtop file using "ambpdb".
>
> I execute the following command:
> $AMBERHOME/exe/ambpdb -p filename.prmtop < filename.rst > filename.pdb
>
> It gives an output that says:
> bash: /opt/amber10//exe/ambpdb: No such file or directory
>
> When I see $AMBERHOME/exe/ there is no ambpdb within.
>
> SUPPLEMENTARY INFORMATION:
> OS Ubuntu 10.04 LTS. Amber 10 (parallel). Compiler used for installation
> gfortran.
>
> Should I reinstall Amber or is there a way out?
>
> --
> Chirag V. Vora <chiragvora.live.com>
> Department of Pharmacoinformatics<
> http://niper.gov.in/depart.htm#Pharmacoinformatics>
> ,
> National Institute of Pharmaceutical Education and Research<
> http://niper.gov.in>
> *Sector 67, S.A.S. Nagar, *
> *Punjab (INDIA) - 160 062, *
> *Phone: +91-9814187740*
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
--
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Candidate
352-392-4032
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Received on Tue Aug 02 2011 - 05:00:04 PDT
