VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Jan 07 2020 - 14:53:13 CST

Hi,
  In order to read NetCDF files in VMD, the VMD NetCDF plugin has to be
compiled on the target platform and added to the plugin directory, not just
the NetCDF library itself. I would also note that .lib files are not usable
for this purpose, you would have to use a .DLL on Windows. At present the
NetCDF plugin isn't compiled on Windows because the NetCDF version we have
been compiling against wasn't compatible with dynamic linkage on Windows.
This is something I hope to address going forward as we adopt the use of
newer revs of the NetCDF library.

Best regards,
  John Stone
  vmd_at_ks.uiuc.edu

On Fri, Dec 13, 2019 at 10:17:30PM +0000, Li, Zhen wrote:
> To whom it may concern,
> I am using VMD on a PC to visualize my AMBER simulation results. Every
> time I have to manually change ".nc" files to ".mdcrd" files which is
> pretty unsatisfying.
> In the past week I tried to download NetCDF4.7.3-NC3 32-bit from this
> website [1]https://www.unidata.ucar.edu/software/netcdf/docs/winbin.html,
> installed, added to PATH and copied every ".lib" files into "System32" and
> "VMD\plugins\WIN32\molfile" folder. But when I re-installed VMD 1.9.3
> OpenGL CUDA version it still does not support NetCDF... Here comes my two
> questions:
> 1. Which version of NetCDF should be compatible with which version of VMD?
> I think some interfaces between VMD software and NetCDF library went wrong
> but how?
> 2. I noticed in the "VMD\plugins\WIN32\molfile" folder there are many
> shared objects (".so" files). Is it possible I can manually make some
> ".so" files specially for NetCDF?
> Thank you for checking the email. Seems it has been an issue for more than
> 3 year since this
> email [2]https://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/27978.html.
> Any help would be appreciated.
> Best regards,
> Zhen.
>
> Zhen Li,
>
> Rm. 287, Department of Chemistry,
>
> 578 S Shaw Ln., Michigan State University,
>
> 48824, MI.
>
> References
>
> Visible links
> 1. https://www.unidata.ucar.edu/software/netcdf/docs/winbin.html
> 2. https://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/27978.html 

-- 
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/