VMD-L Mailing List

From: Shaojie Ma (mashaojie_at_nuaa.edu.cn)
Date: Tue Nov 28 2006 - 00:41:53 CST

Dear Sir:
             Thank you for so quick reponse!
             I have loaded the dcd file into vmd1.8.5 on windows correctly now. I just execute the following command to convert the dcd file:
            unix2dos mydcd.dcd
            and then load the dcd file. I also find that the unix fomat dcd do not need to be converted for previous vmd on windows, however, this is needed for vmd1.8.5 on windows!
                                                                                
           
----- Original Message -----
From: "John Stone" <johns_at_ks.uiuc.edu>
To: "Shaojie Ma" <mashaojie_at_nuaa.edu.cn>
Cc: "vmd" <vmd-l_at_ks.uiuc.edu>
Sent: Tuesday, November 28, 2006 12:21 PM
Subject: Re: vmd-l: Read dcd file error using vmd1.8.5 for windows

>
> Hi,
> How large is the trajectory file you're loading?
> Did you load the file locally, or was this over a Samba mount,
> or something of that sort? If you haven't copied the file locally,
> I'd recommend doing that prior to trying to load it, as there are
> various bugs with old versions of Samba and large files. (>= 2GB)
>
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Tue, Nov 28, 2006 at 11:49:46AM +0800, Shaojie Ma wrote:
>> Dear Sir:
>> I load a dcd file which was created by namd 2.5 for Linux using vmd1.8.5 for windows. It can not load the dcd file correctly, the error is following:
>> dcdplugin) read_dcdheader: premature end of file
>> ERROR) Could not read file ../analys.dcd
>> I try loading the dcd file using vmd1.8.4 or vmd1.8.3 on windows. They can load the dcd file correctly! What should I do?
>> **************************************************
>> Shaojie Ma
>> Institute of Nano Science
>> Nanjing University of Aeronautics and Astronautics
>> mashaojie_at_nuaa.edu.cn
>> Nanjing 210016, China
>> **************************************************
>
> --
> 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