(better to do it by sudo or under root )
chown -Rv your_username:your_group ~/xmind3
Perharps someting wrong happen with the extraction
is your java the same as this one
java -fullversion
java full version "1.6.0_0-b14"
The beginning of the error message
!STACK 0
java.io.FileNotFoundException: /home/Commons/data/configuration-cathy/
org.eclipse.osgi/.manager/.fileTableLock (file or folder not found)
tend to proove xmind not finding it's correct way. like if it was lauch
from a bad directory.
Are you trying the lastest 3.0.2 version ?
Last point (after having chown or check right on directory )
could you try to launch it directly from it's repository
aka
cd ~/xmind3/XMind
./xmind
(perharps there a bug at the first launch which create data repo)