VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Mar 13 2017 - 10:29:36 CDT

Vlad,
  Try compiling against Tcl/Tk 8.5.x and see if the problem goes away,
it wouldn't surprise me if that was related to the issue. The other version
numbers you listed (e.g., for CUDA, compilers, video drivers) shouldn't
have any impact on the behavior of the Tk-based plugin GUIs, so I would
focus on the Tcl/Tk version you're using and its interaction with the
X server and libraries that are packaged with OpenSUSE.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Mar 13, 2017 at 04:17:11PM +0100, Vlad Cojocaru wrote:
> Dear John,
>
> I sent another email to the list that apparently was not delivered
> (I re-write it here).
>
> The problem only appears with the versions of VMD compiled from
> source .. I've just installed the binary version of 1.9.3, and
> there is no issue with the extensions (so far at least).
>
> The compilations of 1.9.2 and 1.9.3 were done with different
> compiler (gcc 4.7, 4.8), different CUDA versions (7.5 and 8.0),
> different NVIDIA graphics driver versions (360.XX, 375.XX) on
> openSUSE 42.1. and 42.2 ... The problem appears to be independent of
> these different versions.
>
> Tcl/Tk version is 8.6.1 ....
>
> Best wishes
> Vlad
>
>
>
> On 03/13/2017 03:56 PM, John Stone wrote:
> >Hi,
> > What version of Tcl/Tk did you compile your source builds with?
> >It is possible you've found an issue with a particular rev of Tk (e.g. 8.6.x?)
> >that affects those two plugins. I know there are a couple of other plugins
> >that still need some minor revision in order to work under Tk 8.6.x.
> >It is possible that the same is true for these two. That being said,
> >the X protocol errors are pretty unusual, and that strikes me as being
> >something related to low level interactions between Tk and the windowing
> >system on your OS. What Linux distribution are you running?
> >
> >Cheers,
> > John Stone
> > vmd_at_ks.uiuc.edu
> >
> >On Mon, Mar 13, 2017 at 03:17:52PM +0100, Vlad Cojocaru wrote:
> >> HI Caio,
> >>
> >> Yes, that is the case ... Do you get a functional Timeline extension ?
> >>
> >> Best
> >> Vlad
> >>
> >> On 03/13/2017 03:16 PM, Caio S. Souza wrote:
> >>
> >> Hi, Vlad
> >> I always get this error when I run a VMD compiled by myself. Maybe is
> >> that the case for you?
> >> Regards
> >> Em 13 de mar de 2017 10:32, "Vlad Cojocaru"
> >> <[1]vlad.cojocaru_at_mpi-muenster.mpg.de> escreveu:
> >>
> >> Dear VMD users,
> >>
> >> I have a student trying to use some of the VMD extensions. She noticed
> >> that for example when opening the Timeline extension, the menus of the
> >> window are not visible. The error below is given by VMD.
> >>
> >> This problem happens both in VMD 1.9.3 and VMD 1.9.2 (compiled from
> >> source). As I have never used these extensions, I did not realize it
> >> before.
> >>
> >> Has anyone seen this behavior ? If yes, could anyone suggest a
> >> solution ?
> >>
> >> Thanks
> >>
> >> Best
> >> Vlad
> >>
> >> vmd > X_QueryColors: BadValue (integer parameter out of range for
> >> operation) 0xff31363b
> >> XRequest.139: BadMatch (invalid parameter attributes) 0x1e4
> >> XRequest.139: RenderBadPicture (invalid Picture parameter) 0x8400119
> >> XRequest.139: BadMatch (invalid parameter attributes) 0x1e4
> >> XRequest.139: RenderBadPicture (invalid Picture parameter) 0x8400119
> >> XRequest.139: BadMatch (invalid parameter attributes) 0x1e4
> >> XRequest.139: RenderBadPicture (invalid Picture parameter) 0x8400119
> >> XRequest.139: BadMatch (invalid parameter attributes) 0x1e4
> >> XRequest.139: RenderBadPicture (invalid Picture parameter) 0x8400119
> >> XRequest.139: BadMatch (invalid parameter attributes) 0x1e4
> >> XRequest.139: RenderBadPicture (invalid Picture parameter) 0x8400119
> >>
> >> --
> >> Vlad Cojocaru, Ph.D., Project Group Leader
> >> Department of Cell and Developmental Biology
> >> Max Planck Institute for Molecular Biomedicine
> >> Röntgenstrasse 20, 48149 Münster, Germany
> >> Tel: [2]+49-251-70365-324; Fax: [3]+49-251-70365-399
> >> Email: vlad.cojocaru[at][4]mpi-muenster.mpg.de
> >> [5]http://www.mpi-muenster.mpg.de/43241/cojocaru
> >>
> >> --
> >> Vlad Cojocaru, Ph.D., Project Group Leader
> >> Department of Cell and Developmental Biology
> >> Max Planck Institute for Molecular Biomedicine
> >> Röntgenstrasse 20, 48149 Münster, Germany
> >> Tel: +49-251-70365-324; Fax: +49-251-70365-399
> >> Email: vlad.cojocaru[at]mpi-muenster.mpg.de
> >> [6]http://www.mpi-muenster.mpg.de/43241/cojocaru
> >>
> >>References
> >>
> >> Visible links
> >> 1. mailto:vlad.cojocaru_at_mpi-muenster.mpg.de
> >> 2. file:///tmp/tel:%2B49-251-70365-324
> >> 3. file:///tmp/tel:%2B49-251-70365-399
> >> 4. https://urldefense.proofpoint.com/v2/url?u=http-3A__mpi-2Dmuenster.mpg.de&d=DwMDaQ&c=8hUWFZcy2Z-Za5rBPlktOQ&r=f0N5v4NY00lzag1jzuVkui7_420G9K7DR41QSpC55bU&m=Iov9BUg49lYdJAiQqPMDP8NfhzSiW_VtV66Fh9B8g78&s=6eNPQy82eRAB9-9XNzF8R0r9yR92aNxmuSy5EHL_BAA&e=
> >> 5. https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mpi-2Dmuenster.mpg.de_43241_cojocaru&d=DwMDaQ&c=8hUWFZcy2Z-Za5rBPlktOQ&r=f0N5v4NY00lzag1jzuVkui7_420G9K7DR41QSpC55bU&m=Iov9BUg49lYdJAiQqPMDP8NfhzSiW_VtV66Fh9B8g78&s=yjnQZURZ9U0xkjy0BYS-j867Ijx52lSu4k8MwmKQXsw&e=
> >> 6. https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mpi-2Dmuenster.mpg.de_43241_cojocaru&d=DwMDaQ&c=8hUWFZcy2Z-Za5rBPlktOQ&r=f0N5v4NY00lzag1jzuVkui7_420G9K7DR41QSpC55bU&m=Iov9BUg49lYdJAiQqPMDP8NfhzSiW_VtV66Fh9B8g78&s=yjnQZURZ9U0xkjy0BYS-j867Ijx52lSu4k8MwmKQXsw&e=
>
> --
> Vlad Cojocaru, Ph.D., Project Group Leader
> Department of Cell and Developmental Biology
> Max Planck Institute for Molecular Biomedicine
> Röntgenstrasse 20, 48149 Münster, Germany
> Tel: +49-251-70365-324; Fax: +49-251-70365-399
> Email: vlad.cojocaru[at]mpi-muenster.mpg.de
> http://www.mpi-muenster.mpg.de/43241/cojocaru 

-- 
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/