fpga soartan 6 io pins are no longer working

HELLO there,

i have spartan 6 of the familyxlc9  but i am facing a severe problem 
with it . first i can burn successfully with jtag on it .its power is 
okay but the problem is whatever code i am burning to it

the io ports values doesn't change always all the pins are zeros except 
4 pins that have values between 0.9 and 1.2 and another pin that have 
3.3 .although the code is working on xillinx it is a simple code. trying 
to output ones on all the pins i changed the code to a code that does 
nothing like the fpga sends the same values on the output pins . i 
thought that those pins are no longer working 

changed to another pins but all are zeros . it is like the output ports 
keeps a certain previous state and stand still.

i don't know does my fpga fails and has to be changed ? although jtag is 
burning code successfully

does spi flash memory is not working ? although i tried to upload the 
code on fpga directly and get the same output 

thanks in advance