When working on the povray output, I loaded all samples to see if there was special cases.
Working on XP.
I encountered an error and some messages in the Console (probably not a problem) :
 
samples/aces2/ch3oh_ace.out : NoSuchElementException
 
samples/cif/1ARJ.cif : "maximum auto bond count reached" in console.
I let it run for several minutes and it kept adding this message to the console.
 
samples/pdb/PeriodicTable.pdb : "maximum auto bond count reached"
many bonds are added. I thought the idea of this file was to show only the atoms, and not having bonds.
 
samples/animations/met-enkaphalin_movie.xyz : "LP' is not a recognize symbol"
 
samples/animations/Met_aq.movie.xyz : "need to back up the camera" when moving
 
samples/cif/1B07.cif
samples/pdb/1B07.pdb
samples/pdb/1GFL.pdb
samples/pdb/5CRO.pdb : "I see someone who does not have a carbonyl oxygen"
 
samples/modifiedGroups/1EHZ.cif : "M' is not a recognized symbol"
 
samples/mol/PAUL_SEARCH4.mol
samples/mol/Rgroup_Example.mol : "R#' is not a recognized symbol"
 
samples/* : Many problems
 

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