Hi Elvis and Fabian
I followed the following tutorial and there is no rst7 file format
mentioned in commands (however both rst7 and rst files are restart files):-
http://ambermd.org/tutorials/advanced/tutorial8/loop8.htm
Now I dont have any netcdf file e.g. .nc file or .rst7 file
what should I do for the current results as I have following files
file.prmtop, file.rst, file.crd and file.out
Please suggest.
thank you
Sadaf
On Wed, Sep 4, 2019 at 5:23 PM Elvis Martis <elvis_bcp.elvismartis.in>
wrote:
> You must select the type of file as netcdf (not amber restrt file) while
> loading your restrt file in VMD.
> I am not sure if VMD on windows has started to support netcdf format but in
> Linux you should have no problem.
>
> On Wednesday, September 4, 2019, Sadaf Rani <sadafrani6.gmail.com> wrote:
>
> > Hi Elvis
> > it is an amber restart file (eq_p.rst as mentioned in below command)
> > I have selected amber restart file from file format options
> > The vmd window gives following message
> > I rst7plugin) Title: CDF
> >
> > I am using following command
> > sander -O -i eq_p.in -p complex.prmtop -c Heat.rst -r eq_p.rst -x
> > eq_p.crd
> > -o eq_p.out
> > I also tried with .crd file but nothing is shown in vmd
> >
> > Looking forward to hear from you
> >
> > thank you
> >
> > Sadaf
> >
> > On Wed, Sep 4, 2019 at 4:21 PM Elvis Martis <elvis_bcp.elvismartis.in>
> > wrote:
> >
> > > Are you trying to load netcdf format restart file in VMD?
> > >
> > > On Wednesday, September 4, 2019, Sadaf Rani <sadafrani6.gmail.com>
> > wrote:
> > >
> > > > Dear Amber users
> > > > I have run constant pressure constant temperature equilibration. I
> want
> > > to
> > > > look for the box size for the but when I load .prmtop file in vmd and
> > > load
> > > > .rst file on it, vmd stops working and vmd window shows that this
> file
> > > > could not be read. Could anyone please suggest me which files to load
> > in
> > > > vmd and analyze box.
> > > >
> > > > Thanks in advance.
> > > >
> > > > Sadaf
> > > > _______________________________________________
> > > > AMBER mailing list
> > > > AMBER.ambermd.org
> > > > http://lists.ambermd.org/mailman/listinfo/amber
> > > >
> > >
> > >
> > > --
> > > Best Regards
> > > Elvis Martis
> > > Mumbai.
> > > _______________________________________________
> > > AMBER mailing list
> > > AMBER.ambermd.org
> > > http://lists.ambermd.org/mailman/listinfo/amber
> > >
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
> >
>
>
> --
> Best Regards
> Elvis Martis
> Mumbai.
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
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Received on Wed Sep 04 2019 - 10:00:02 PDT
