VMD-L Mailing List

From: Tru Huynh (tru_at_pasteur.fr)
Date: Mon Dec 07 2009 - 09:40:30 CST

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