VMD-L Mailing List

From: Ignacio Fernández Galván (jellby_at_yahoo.com)
Date: Mon Sep 11 2006 - 02:28:23 CDT

Sure, I'm attaching both .pdb and .vmd files.

Anyway, I found the problem, "Save State" produces labels like this:

  label add Bonds 0/0 0/5

Which means the molecule id 0 is hardcoded. But when the state is
loaded, the molecule will have a different id if it's not the first
molecule in the session. I fixed it by editing the .vmd file to read
something like:

  set moltop [molinfo top]
  [...]
  label add Bonds $moltop/0 $moltop/5

so that the labels are added to the "top" molecule, which should be the
one just loaded.

Thanks
Ignacio Fdez. Galván

--- John Stone <johns_at_ks.uiuc.edu> wrote:

> Hi,
> Thanks for reporting this, can you email me your saved state so
> I can have a look at it? It sounds easy to reproduce, but I want to
> have a look at yours just to make sure. Most likely this is a flaw
> in the state saving script pertaining to the new label text offset
> feature, most likely it's not abstracting its molecule IDs or
> something
> like that.
>
> Thanks,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Fri, Sep 08, 2006 at 01:59:07PM +0100, Ignacio Fernndez Galvn
> wrote:
> > Hello,
> >
> > I have a molecule to which I add labels (to bonds) and then use
> "Save
> > State". If I load this state file with "vmd -e file.vmd" or
> starting a
> > blank vmd and then using "Load State" all is fine. But if I have
> > another molecule, delete it and then use "Load State" then the
> labels
> > do not appear and I get these messages in the console:
> >
> > Unable to add label.
> > label textoffset: Invalid geometry specified
> >
> > I'm using version 1.8.5 under linux.
> >
> > Thanks

        
        
                
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