VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Feb 03 2011 - 09:25:00 CST

Peter,
  Wow, it is unfortunate that Paraview keeps having this problem.
I have no trouble loading the VMD-generated .obj files into other tools
like Maya and 3DS Max, so I expect that this is again an issue with Paraview
itself. What rendering are you trying to do within Paraview?
Given the stability issues you have encountered, you might
make more forward progress using a different tool rather than paraview.
If all you need to do is display geometry imported from VMD along with
some other geometric information, you could probably do that in a number
of alternative ways. If you tell me more about what you're trying to
achieve, I might be able to give further suggestions.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Feb 03, 2011 at 02:42:17AM -0600, Peter C. Lai wrote:
> Paraview 3.8.1 now segfaults on trying to load the OBJ file from VMD 1.9a28
> (both windows and build-from-source versions of VMD and Paraview, the
> windows version being 32 bit and the freebsd versions being 64 bit).
>
> The vtk wiki also suggsts that it doesn't read the mtl file so obj as this
> point is still useless for me...
>
> I will talk to the paraview people about the crashy vrml2 stuff.
>
> On 2011-01-27 08:09:15PM -0600, John Stone wrote:
> > Hi,
> > Most likely the VRML2 parser in VTK contains some flaws
> > if it segfaults while reading, I've had no trouble loading
> > VRML2 exports generated by VMD into other programs.
> >
> > If you aren't able to load the VRML2 files into VTK, then
> > I'd suggest trying one of the latest test versions of VMD
> > with the Wavefront .OBJ format. There should be a VTK importer
> > for OBJ files, and they are much more compact (and simpler in general)
> > than VRML2 files, so I would expect it would have a higher probability
> > of success. You can get the test versions of VMD by following
> > instructions here:
> > http://www.ks.uiuc.edu/Research/vmd/alpha/
> >
> > The latest test version includes a much more sophisticated
> > Wavefront .OBJ export feature than the older versions did
> > (prior versions didn't output color/material data, but the
> > latest test revs of VMD include all of that and more).
> >
> > Let me know if you have further questions.
> >
> > Cheers,
> > John Stone
> > vmd_at_ks.uiuc.edu
> >
> > On Thu, Jan 27, 2011 at 07:14:25PM -0600, Peter C. Lai wrote:
> > > Hello
> > >
> > > Using the VRML2 render option creates a VRML2 file that causes Paraview/VTK
> > > to segfault when loading the vrml file...We're using paraview to do some
> > > specialized visualization stuff that requires it (and we'd like to get
> > > colors imported...)
> > >
> > > UCSF Chimera outputs a working vrml2 file but Chimera has issues with other
> > > things and I'd really like to avoid using it and stick with VMD if possible...
> > >
> > > Any suggestions?
> > > --
> > > ===============================================================
> > > Peter C. Lai | University of Alabama-Birmingham
> > > Programmer/Analyst | BEC 257
> > > Genetics, Div. of Research | 1150 10th Avenue South
> > > pcl_at_uab.edu | Birmingham AL 35294-4461
> > > (205) 690-0808 |
> > > ===============================================================
> >
> > --
> > 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
>
> --
> ===============================================================
> Peter C. Lai | University of Alabama-Birmingham
> Programmer/Analyst | BEC 257
> Genetics, Div. of Research | 1150 10th Avenue South
> pcl_at_uab.edu | Birmingham AL 35294-4461
> (205) 690-0808 |
> =============================================================== 

-- 
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