Sorry, I misread your question as PPS via GPIO instead of GPSDO as you 
specified.\
\
As mentioned in my code example you can set the time_source to gpsdo instead of 
external

I am not sure if you can get access to the actual internal PPS rising edge 
coming from GPSDO, but what you might be able to do is add the timestamp clock 
as an input to your custom block and then using the tickrate estimate the 1 
second intervals starting from the point when after you reset the timekeeper 
ticks.\
This of course would be susceptible to clock drift, so if you need the high 
accuracy of the GPSDO within your metadata counter than this might not be the 
way to go.
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