I saw that there are 35 updates. Once updated the program and restarted again showed that 35 have the same updates. So it should be?

You are probably running on Linux? Try doing chmod +x jmonkeyengine/jdk/bin/*

Yes, I have linux. I did chmod +x jmonkeyengine/jdk/bin/* , but no results. Then I just did chmod -R +x jmonkeyengine/*, and now all is well. Thank you!