This is normal as you have format the system.img, boot.img and etc. You will need to flash these back using sp flash tool. These can be mostly likely found in the update.zip (firmware). You will need to convert the system. new.dat to system.img. For more information about flashing the m3s https://forum.meizufans.eu/topic/6550/guide-recover-a-meizu-m3-from-bootloop-meizu-logo-and-constant-reboot
You may need to find a way to recover the imei as the nvram is formatted.