Ok figured out the permissions for root thing I think.
Ok here is the run down.
1. I was trying to install RMS(Ray Media Server) that needs to be installed in the root.
2. Once I got it running or at least I thought it was until I tried. At this time I had permissions 755 for these files
*.sh
ffmpeg.exe
3. Did the required info in to the Flash Apps Panel for Ray widgets (Chat, White Board, IM, and Profile Videos). In other words I need to put my server IP for RMS then put the port number and HTTP port number then save settings. I then get
Can't Connect to RMS.
4. I went in and switched the permissions for *.sh and ffmpeg.exe from 755 to 777 and then re added the info in Flash Apps Panel Clicked save and it connected.
RMS is just an extension file that is needed to run Chat, IM, White Board, and to be able to record profile Videos for a Social Network Software. Also I thought maybe I installed JRE wrong or something also, but that wasn't the case.
Actually when I tried to install JRE 1.6_16 it was already installed. Didn't know that until I tried installing. I ended up finding the path reading some more on the install lit and at the end it stated that when you install jre it will be installed into /usr/java so I looked. It was there. I assumed since I created the directory in my root and put the install file there and ran the install procedure it would install into that root directory I created. I learned something....

So that is as far as I can tell been cleared up.
Now as for my Cron Jobs contabs permission settings.
When I go in to Cron Jobs I see a permissions warning for the file crontabs. It states that permissions are 6755 and should be 4755 and I should change them. I tried
chmod -v 4755 crontabs, but nothing happened, no conformation that permissions have been changed and still have the warning.
Regards