Since the latest update to GC (Version: 4.2 Build ID: 4.2+(2020-09-26)), I am also getting the "cannot obtain lock" error. I don't believe that it has anything to do with file permissions or storage issues. It is happening with XML files as well as with mysql. It is not consistent and I always exit cleanly. When I ignore the message it saves or updates correctly. I do get a little nervous about this warning.
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