VMD-L Mailing List

From: Leyla Celik (lc_at_chem.au.dk)
Date: Thu Apr 28 2005 - 12:12:36 CDT

Thanks. I tried using a backup copy of the last dcd-file and it works now. I
dont know if I copied the file during a simulation but something obviously
corrupted it.

/Leyla

Citat John Stone <johns_at_ks.uiuc.edu>:

>
> Hi,
> That's a message from the DCD reader plugin indicating that your
> trajectory file is either truncated or corrupt in some way. Did you
> run this on a file that had been copied while a simulation job was
> still in the process of running?
>
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Thu, Apr 28, 2005 at 04:53:18PM +0200, Leyla Celik wrote:
> > Hello,
> >
> > I have been writing a couple of tcl-scripts to do my analyzing calling
> Justin
> > Gullingsrud's bigdcd script from the vmd script library.
> >
> > I have 19 dcd files with a total of 38000 frames. The script proceeds fine
> until
> > frame nr. 37315 after which it gives a failure:
> >
> > read_dcdstep returned -4
> >
> > I cannot find this message anywhere in the bigdcd script (and I have not
> written
> > something like that in my own script). Anyone have a suggestion of what to
> do?
> >
> > Thanks
> > Leyla
> >
> > --
> > Leyla Celik
> > Ph.d. student
> > Department of Chemistry
> > University of Aarhus
> > Langelandsgade 140
> > DK-8000 Aarhus C
> > Denmark
> > Tel: +45 8942 3869
> > e-mail: lc_at_chem.au.dk
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
> 

-- 
Leyla Celik
Ph.d. student
Department of Chemistry
University of Aarhus
Langelandsgade 140
DK-8000 Aarhus C
Denmark
Tel: +45 8942 3869
e-mail: lc_at_chem.au.dk