molconvert crash

Hi everyone,





I tried to convert a multiconformer mol2 file to SMILES and molconvert keeps crashing Java virtual machine.

Code:

molconvert smiles:u 000A-0066.mol2 -o 000A-0066.smiles -v #54% 216 # An unexpected error has been detected by Java Runtime Environment: # #  SIGSEGV (0xb) at pc=0x00002b36f7827251, pid=23075, tid=1086544208 # # Java VM: Java HotSpot(TM) 64-Bit Server VM (10.0-b23 mixed mode linux-amd64) # Problematic frame: # V  [libjvm.so+0x4ac251] # # An error report file with more information is saved as: # /home/oleg/workspace/mcs/hs_err_pid23075.log # # If you would like to submit a bug report, please visit: #   http://java.sun.com/webapps/bugreport/crash.jsp # The crash happened outside the Java Virtual Machine in native code. # See problematic frame for where to report the bug. # /usr/local/jchem/bin/molconvert: line 107: 23075 Aborted                 java $javaopts chemaxon.formats.MolConverter "$@"

OS openSuSE 10.3, x86_64, with kernel version: 2.6.22.18


and JVM: java version "1.6.0_07", Java HotSpot(TM) 64-Bit Server VM (build 10.0-b23, mixed mode)





Interestingly the same command doesn't crash on windows XP SP2 with the same JVM version.





Oleg

Hi Oleg,





I suggest to use the latest update of Java 5 (http://java.sun.com/javase/downloads/index_jdk5.jsp) instead of Java 6.





Thanks


Peter

thanks for quick reply,





I was suspecting there is something wrong with JVM.