Checked the voltages on the RTC ic but they seem fine as does the backup battery voltage and on the ic pin but cannot program it so perhaps the DS1307 is dead?
Possibly. You could download a test program to check the functionality of the DS1307. What voltages are you reading ?
Program a mission for 50, 1 sec readings with pause as timing and both PE5 & 6 produce a result which looks like the right time on the graphs but PE6 doesnt flash the LED green as its taking the reading, PE5 does, PE6 only goes red at the end.
So, apart from the DS1307 problem, is the only "it doesn't work" issue with PE6 that the green LED is not flashing for each reading ?
If your DO-LOOP test code for toggling B.3 and its LED does not work that suggests there is some hardware issue with the board, that the LED on B.3 cannot be controlled. I am not sure why that would be if B.3 can control the LED when done as part of a mission programmed via PE5.
I am not familiar with the Datalogger, still haven't yet looked at its datasheet, but the PE6 mission wizard describes it as a bi-colour LED on B.2 and B.3 so it may require both pins to be outputs. I would try -
Code:
Do
Low B.2 : Low B.3 : Pause 1000
Low B.2 : High B.3 : Pause 1000
High B.2 : Low B.3 : Pause 1000
High B.2 : High B.3 : Pause 1000
Loop
That should light both red and green LED's.
It could simply be that the PE6 mission isn't setting both pins to light the LED. It may have inadvertently been coded to use two separate LEDs and only alter one pin without having set the other. We will have to check that.