VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Dec 07 2009 - 14:43:51 CST

Hi,
  Do you have the plugins correctly installed with the binary that
you compiled? Those errors make it look like they are not correctly
located in the installation directory.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Dec 07, 2009 at 04:40:30PM +0100, Tru Huynh wrote:
> Hello,
>
> I am trying to build vmd 1.8.7 from sources on CentOS-5 x86_64.
>
> 1) CentOS provided:
> tcl-8.4.13-4.el5.x86_64
> tk-8.4.13-5.el5_1.1.x86_64
>
> 2) additionnal self compiled:
> python 2.5.4 (NOT replacing the system python 2.4)
> fftw 3.1.3
> tachyon 0.98.7
> fltk 1.1.10rc3
> netcdf 3.6.3
>
> 3) configure.options:
> LINUXAMD64 OPENGL FLTK TK IMD XINPUT LIBTACHYON NETCDF TCL PYTHON PTHREADS NUMPY SILENT
>
> links for includes and lib_LINUXAMD64 added in lib for these additional packages.
>
> 4) building plugins and vmd seems to be ok while running I get (from an ssh -X session)
> [tru_at_liberte vmd-1.8.7]$ vmd
> Info) VMD for LINUXAMD64, version 1.8.7 (December 2, 2009)
> Info) http://www.ks.uiuc.edu/Research/vmd/
> Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
> Info) Please include this reference in published work using VMD:
> Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
> Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
> Info) -------------------------------------------------------------
> Info) Multithreading available, 8 CPUs detected.
> Info) Free system memory: 23226MB (96%)
> XRequest.145: BadRequest (invalid request code or no such operation) 0x2600046
> XRequest.145: BadRequest (invalid request code or no such operation) 0x2600046
> XRequest.145: BadRequest (invalid request code or no such operation) 0x2600046
> Info) OpenGL renderer: GeForce FX 5200/AGP/SSE2
> Info) Features: STENCIL MDE MTX PP PS
> Info) GLSL rendering mode is NOT available.
> Info) Textures: 2-D (4096x4096), 3-D (512x512x512), Multitexture (4)
> The irspecgui package could not be loaded:
>
> The multiseq package could not be loaded:
>
> The pmepot_gui package could not be loaded:
>
> The solvate package could not be loaded:
>
> The autopsf package could not be loaded:
>
> The cggui package could not be loaded:
>
> The dowser_gui package could not be loaded:
>
> The membrane package could not be loaded:
>
> The mutator package could not be loaded:
>
> The autoimd package could not be loaded:
>
> vmd > Info) VMD for LINUXAMD64, version 1.8.7 (December 2, 2009)
> Info) Exiting normally.
>
>
> [tru_at_liberte vmd-1.8.7]$ find plugins/ -name multiseq\*
> plugins/noarch/tcl/multiseq2.1
> plugins/noarch/tcl/multiseq2.1/multiseq.tcl
> plugins/noarch/tcl/multiseqdialog1.1
> plugins/noarch/tcl/multiseqdialog1.1/multiseqdialog.tcl
>
> [tru_at_liberte vmd-1.8.7]$ find . -name membrane\*
> ./plugins/noarch/tcl/membrane1.0
> ./plugins/noarch/tcl/membrane1.0/membrane.tcl
>
> Any hint on what i missed?
>
> 5) the embedded python seems to work fine:
> [tru_at_liberte vmd-1.8.7]$ echo "import numpy; import Tkinter"| vmd -dispdev text -python -eofexit
> Info) VMD for LINUXAMD64, version 1.8.7 (December 2, 2009)
> Info) http://www.ks.uiuc.edu/Research/vmd/
> Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
> Info) Please include this reference in published work using VMD:
> Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
> Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
> Info) -------------------------------------------------------------
> Info) Multithreading available, 8 CPUs detected.
> Info) Free system memory: 23227MB (96%)
> Info) Starting Python...
> Info) Text interpreter now Python
> >>> >>>
> Info) Text interpreter now Tcl
> Info) VMD for LINUXAMD64, version 1.8.7 (December 2, 2009)
> Info) Exiting normally.
> Info) Done with Python.
>
> Cheers,
>
> Tru
> --
> Dr Tru Huynh | http://www.pasteur.fr/recherche/unites/Binfs/
> mailto:tru_at_pasteur.fr | tel/fax +33 1 45 68 87 37/19
> Institut Pasteur, 25-28 rue du Docteur Roux, 75724 Paris CEDEX 15 France 

-- 
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