VMD-L Mailing List

From: Debostuti Ghoshdastidar (debostutighosh_at_gmail.com)
Date: Mon May 02 2022 - 13:26:46 CDT

Hi John

I'm sorry my earlier mail was confusing. I mentioned *.pdb to indicate that
there re several pdb files with different names. Actually each file name is
spelt out in the .vmd file as in 3g9i.pdb, 1glu.pdb, etc, 60 of them in all.

Debostuti

On Mon, 2 May 2022, 23:21 John Stone, <johns_at_ks.uiuc.edu> wrote:

> Hi,
> It looks like something unusual happened such that "*.pdb" was
> recorded in the saved state file load commands, but that shouldn't
> have happened. Normally it would list the files one-at-a-time.
>
> How did you originally load the 60 superimposed PDBs? Did you run
> a different script to do this?
> Did you edit the saved state file?
>
> I don't think the problem has anything to do with the fact
> that you had moved the files, but rather than "*" operator which
> will not be processed correctly except in combination with the
> Tcl "glob" command.
>
> Best,
> John Stone
>
> On Mon, May 02, 2022 at 05:47:12PM +0530, Debostuti Ghoshdastidar wrote:
> > Hi
> > I had created a project with ~60 superimposed crystal structures and
> was
> > able to load the visualization state until I moved the PDBs to another
> > directory by mistake. However, even though I restored the files back
> to
> > the correct path the visualization state is not loading and shows the
> > following errors sequentially for each of the PDB files:
> > >Could not read file *.pdb
> > >Unable to load file '*.pdb' using file type 'pdb'.
> > >No molecules loaded.mol operates on one molecule only
> > ....
> > Of course the PDB files were not edited, they were moved to another
> > directory and then moved back. Could someone please suggest a way for
> me
> > to recover the project?
> > Debostuti
> > --
> > Debostuti Ghosh Dastidar
> > Research Associate
> > PDB-India
>
> --
> NIH Center 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/
>