VMD-L Mailing List

From: Ban Arn (ban.arn_at_gmail.com)
Date: Fri Feb 03 2012 - 03:07:34 CST

Dear John

I could able to plot the graphs and run scripts prior to the "work".

Many Thanks
Balaji

On Fri, Feb 3, 2012 at 12:18 AM, John Stone <johns_at_ks.uiuc.edu> wrote:

>
> Balaji,
> I understand you couldn't go further, but did all of the steps prior to
> that work okay? I'm specifically curious about the plotting steps, since
> they are doing essentially the same things.
>
> Cheers,
> John
>
> On Thu, Feb 02, 2012 at 11:29:02PM +0000, Ban Arn wrote:
> > Dear John
> > I'm using VMD version 1.9 and I couldn't able to proceed to further
> steps.
> > Kindly advice.
> > Many Thanks
> > Balaji
> > On Thu, Feb 2, 2012 at 11:10 PM, John Stone <johns_at_ks.uiuc.edu>
> wrote:
> >
> > Hi,
> > Did you have any trouble with the preceding steps where other
> > things were plotted? Which VMD version are you using?
> >
> > Cheers,
> > John Stone
> > vmd_at_ks.uiuc.edu
> > On Thu, Feb 02, 2012 at 04:24:18PM +0000, Ban Arn wrote:
> > > Dear VMD users
> > >
> > > I'm using tcl script from
> > >
> > "
> http://www.ks.uiuc.edu/Training/Tutorials/science/10Ala-tutorial/tutorial-html/node6.html
> "
> > > for sMD analysis.
> > >
> > > The scripts were provided uploaded in the site and I'm using
> the
> > same
> > > example data.
> > >
> > > While running the script "plot-force-extension.tcl" its shows
> error
> > as
> > > "multiplot: Data vector empty, ignoring plot and cant read
> "f(-1)":
> > no
> > > such element in array"
> > >
> > > This is the script i;m using for plotting grapg between force
> Vs
> > distance.
> > >
> > > set lcolor {green orange black pink brown purple yellow cyan
> blue
> > red}
> > > set plot2 [multiplot -plot]
> > > foreach l [array names z] cl $lcolor {
> > > set tmpz {}
> > > set tmpf {}
> > > set cnt [llength $z($l)]
> > > for {set tmpi 0} {$tmpi < $cnt} {incr tmpi 10} {
> > > lappend tmpz [lindex $z($l) $tmpi]
> > > lappend tmpf [lindex $f($l) $tmpi]
> > > }
> > > $plot2 add $tmpz $tmpf -linecolor $cl
> > > }
> > > $plot2 replot
> > >
> > > Kindly advice.
> > >
> > > Many Thanks
> > > Balaji
> >
> > --
> > NIH Resource for Macromolecular Modeling and Bioinformatics
> > Beckman Institute for Advanced Science and Technology
> > University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> > http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> > http://www.ks.uiuc.edu/Research/vmd/ Fax: 217-244-6078
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> http://www.ks.uiuc.edu/Research/vmd/ Fax: 217-244-6078
>