Nico & Miguel wrote: >> I just tried to read samples/pdb/fullRhinovirus.pdb.gz into Jmol. >> Immediately got an exception : >> java.lang.StringIndexOutOfBoundsException: String index out of range: 16 >> at java.lang.String.charAt(String.java:444) >> at org.jmol.adapter.smarter.PdbReader.atom(PdbReader.java:119) >> at >> org.jmol.adapter.smarter.PdbReader.readAtomSetCollection(PdbReader.java:57) >> at org.jmol.adapter.smarter.Resolver.resolve(Resolver.java:57) > > Not good ... I will take a look. > > (This is *not* the problem that you uncovered, but be advised that the > fullRhinovirus has a large number of atoms (200k?), so you need to give > your java virtual machine more memory on the command line)
I took a look at this. Jmol is able to read fullRhinovirus.pdb.gz on both Linux and OSX. It is slow in loading and slow to display, but it works ... 392520 atoms and 415260 bonds On Win32 it is raising the 'String out of bounds' exception that you pointed out. That is quite unfortunate. I believe that this is the first case of a cross-platform incompatibility that I have found at this level. Will advise. Miguel ----- Open Source Molecular Visualization www.jmol.org [EMAIL PROTECTED] ----- ------------------------------------------------------- SF email is sponsored by - The IT Product Guide Read honest & candid reviews on hundreds of IT Products from real users. Discover which products truly live up to the hype. Start reading now. http://productguide.itmanagersjournal.com/ _______________________________________________ Jmol-developers mailing list [EMAIL PROTECTED] https://lists.sourceforge.net/lists/listinfo/jmol-developers
