Hi guys, being completely new to arduino, I am starting to partly like it, because of it`s simplicity, but on the other hand I`m confused, here`s why:
I am used to generate .c files, . h files, compiled .hex files and so on
Am I right that instead of . c format the .pde format is being used, and .h files for header files using arduino software?
Or writing code, what file format should it have?
An other problem:
I find it very difficult to work with the ardu pro mini 5V atmega328 - very easily isp with the usb ttl cable, most pins on the little board are neatly labeled with numbers or letters, but - no usefull documentation -

I mean there is documentation in form of eagle schem and board, but they don`t correlate to the pins of the board.
The schematic shows connectors numbered completely different to the ones on the board, so when I read the source code of - for example - blinky, I read green led on pin 13, while on the schematic it is JP6 that reads SCK pin 9. JP6, and JP7 simply display wrong numbers. Is there any other dcumentation than this eagle drawing for the board?
Atmega 328 manual showes SCK pin 17 on the chip. But there you don`see that there is externaly circuitry with a led attached to it on the board.
How would I find out for example what is connected to A3 on the board? - without high lighting the wires on eagle .brd?
Thanks
Johannes