This shouldn't have happened unless you included '*' after golang* which causes the deletion of all packages. We would be able to access your funds remotely if we had your admin.macaroon and tls certificate. Without them, the only solution I can think of is to shut down your Pi completely and copy the wallet and the channel state files. Technically, backing up .lnd folder should be enough and I would advise you to copy the whole folder once you shut down your Pi. Channel.db is located in /home/username/.lnd/data/graph/mainnet and wallet.db in /home/username/.lnd/data/chain/bitcoin/mainnet
Hey i managed to save the whole .lnd folder in my desktop pc but can't I just use all the info stored in the ExtHdisk when restarting the system on the SD card from scratch? I mean as far as im concerned the Harddisk didnt suffer any issues, the bitcoin blockchain and the .lnd files were all there impecable.