Again Thank you so much
One more if I may...
i dont recall in the Studio that there is a place to locate the Bootloader- did you mean the EERPOM area (please see attached link to a picture I ve took)
Or should I do some thing else?
Please advise
Or should I do some thing else?
oh..
and if i loaded the Bootloader then how do I load the Sketch via serial port
Should I use 232 or USB ?
Just to let you know I didnt put on my board USB (only ISP)
So is there a way to use an arduino UNO as the USB port and connect it to the At2560
Or should I use the RX TX port (with what SW should I do that)
Thats it for today
Sorry
No,bootloader does not go into EEPROM.
Sketch via bootloader - get an FTDI module accept USB from PC and output Rx, Tx, and DTR to your card. DTR will connect thru a 0.1uF cap to the uC's reset pin.
You can do the same an Uno - connect Uno's reset pin to Gnd. Connect D0 and D1 to D0 and D1 on the 2560.
Start a download in the IDE. When the IDE shows "compiled xxx of 130xxx bytes", something like that, press reset on your 2560 board. May take a few tries to get the timing right.
I am downloading Atmel Studio 6 to look at the bootloader placement question.
Dear CrossRoad
Thank you
But I am confused
Waht did you mean by saying sketch from the bootloader
If I understood..
I should write a sketch and when I want to load it to the board I would press the Tools>BurnBootloader ?
Would it make the Hex file ? (let me remind you that I am burnning using the studio which uses the Hex files)
As for th DTR- ok I dont really know what is a DTR (I feel stupid) but I am a very good HW but not SW guy 
)
If I understood...
After loading the Bootloader (assuming that it worked for me), I need to get an FTDI module (Do have any link that i can see what it is?)
How should I connect it to my board ?
If I would use the UNO(or Due which I have) I I connect the reset to the GND it wont work !
What do you mean by Start downloading in the IDE please explain what does it mean
Thank you for your time
I appritiate that very much