apply-patches.sh: change archive management

The way archives were managed was incorrect because the uncompressed archives
were sent directly to the patch command. It means that alphabetical patch
order was not respected.

Signed-off-by: Ludovic Desroches <ludovic.desroches@atmel.com>
Tested-by: Ludovic Desroches <ludovic.desroches@atmel.com>
with an armadeus_apf9328_defconfig build
Acked-by: Thomas Petazzoni <thomas.petazzoni@free-electrons.com>
Tested-by: Thomas Petazzoni <thomas.petazzoni@free-electrons.com>
Signed-off-by: Peter Korsgaard <jacmet@sunsite.dk>