VMD-L Mailing List

From: dieter blaas (dieter.blaas_at_univie.ac.at)
Date: Tue May 11 2004 - 07:10:36 CDT

When trying to make a surface representation of a virus with ~ 250 000
coordinates I only get a piece of surface that does not look like anything
it shoud.
It reads like this:
.......
Info) Determining bond structure from distance search ...
Info) Analyzing structure ...
Info) Atoms: 362827
Info) Residues: 45360
Info) Waters: 0
Info) Segments: 1
Info) Fragments: 180 Protein: 182 Nucleic: 0
Info) Finished with coordinate file F:/all_60_h2.pdb.
Reading 362827 atoms..done
Probe radius = 1.400
Constructing solvent-accessible surface ..
Max edge length = 1.200
Malloc of zero or illegal length!!
length = 0
Malloc of zero or illegal length!!
.....................
and after an awful lot of time I get an error message something like
"program has made a violation....."
and the PC freezes and does not react any more until I push "reset".
What can I do?
Thanx for help, Dieter