VMD-L Mailing List
From: Axel Kohlmeyer (akohlmey_at_cmm.chem.upenn.edu)
Date: Wed Jun 06 2007 - 19:00:56 CDT
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On Wed, 6 Jun 2007, Erkan Tuzel wrote:
ET> Hi,
ET>
ET> I have been using the XYZ file format for quite a while to display
ET> atoms in a 2d plane. However, after I have upgraded the version
ET> 1.8.6, VMD gives the following
ET> error while reading the data file:
ET>
ET> Info) Using plugin xyz for structure file test.xyz
ET> ERROR) BaseMolecule: Cannot add atom; namelist index value too large.
ET> ERROR) Recompile VMD with larger index types.
ET> ERROR) Atom namelist index values at time of overflow:
ET> ERROR) nameindex: 111
ET> ERROR) typeindex: 111
try giving all atoms the same name.
axel.
ET> ERROR) resnameindex: 0
ET> ERROR) segnameindex: 0
ET> ERROR) altlocindex: 0
ET> ERROR) chainindex: 0
ET> ERROR) MolFilePlugin: file load aborted
ET>
ET> Unless I reduce the number of atoms to the number specified, it does
ET> not seem to work. I normally have around 2000-3000 atoms in a file
ET> and the files work well with version 1.8.5. I use Mac OS X version
ET> 10.4 with PowerPC. Does anybody know a solution to this? Is this a
ET> bug? 111 atoms seems to be pretty small.
ET>
ET> Erkan
ET>
ET>
ET>
ET>
-- ======================================================================= Axel Kohlmeyer akohlmey_at_cmm.chem.upenn.edu http://www.cmm.upenn.edu Center for Molecular Modeling -- University of Pennsylvania Department of Chemistry, 231 S.34th Street, Philadelphia, PA 19104-6323 tel: 1-215-898-1582, fax: 1-215-573-6233, office-tel: 1-215-898-5425 ======================================================================= If you make something idiot-proof, the universe creates a better idiot.
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