thanks atledenin but that error only came up after the miner rebooted so the ssh connection was lost. I did rename the cgminer file back but the miner didnt start mining again. I ended up having to reflash back to factory settings and inputting my details in again. oh well at least it's mining again 
but with old cgminer 
but with old cgminer You just missed a step is all. Step 4 below. After you use wget to download cgminer, you have to change the permissions to allow execute. The permission denied error is because there is no permission to execute the command.
1. cd /usr/bin
2. mv cgminer cgminer.bak
3. wget http://ck.kolivas.org/apps/cgminer/antminer/s3/4.6.0-140908/cgminer
4. chmod +x cgminer
5. Reboot