Oh, the limitation is on the TimeLab side? I was blaming the TIA. :)

Since then, I have found an advanced gate setting that appears to add 500 ms 
after start. The time intervals seem to be without that delay, so it works. The 
resulting ADEV is unchanged (other than obviously truncated at low tau and 
having a longer duration).

Looking at the phase and frequency data, I don't see anything wrong. The ADEV 
plot is linear, and it arrives to the spec at around tau 10s or so... It's just 
way steeper than I expect. An order of magnitude north of spec at tau 1s.

The only thing I can think of is that it's compounding the error because I'm 
comparing two (of the same) oscillators to each other, but my understanding is 
that I can only attempt to compensate for that by scaling by sqrt(2).

Sent from my iPhone

> On Jun 2, 2016, at 11:12 AM, John Miles <[email protected]> wrote:
> 
> One workaround for the 1-million point limitation on imported data is to use 
> "Acquire->Acquire from live ASCII file" instead of "File->Import ASCII 
> phase/frequency data."  Most of the same code is used for both cases, but 
> unlike the static file-import version of the dialog, the live data importer 
> will let you specify the expected duration yourself.  So you can give it a 
> duration value that you know will be long enough to cover the whole data set. 
>  
> 
> I'm not too familiar with the 532x0A counters myself, but 8.9E-11 at t=1s 
> doesn't sound too unrealistic.  When in doubt, look at the 'f'requency and/or 
> 'p'hase trends and residuals to sanity-check your data, rather than trying to 
> puzzle out what's going wrong with the ADEV plot as many users seem to do.  
> First you should satisfy yourself that the data makes sense, is unwrapped and 
> scaled properly, and doesn't contain glitches, large crystal jumps, obvious 
> beatnotes or other interference, or unexpected amounts of drift.  
> 
> -- john, KE5FX
> Miles Design LLC
> 
>> I’ve gotten a little further with this. If I capture 60 seconds worth of time
>> interval measurements (between two FE-5680As that are GPS disciplined, but
>> with a long enough time constant that they’re basically free-running), I get
>> 60,000 of them. So I imported at a sample interval of 1e-3 and got the right
>> duration. There are a couple of problems, however. 1 is that even if I 
>> attempt to
>> log to a USB stick, it appears I can only log 1e6 samples before it stops. 
>> That’s
>> 16:40 or so, which isn’t very long. I haven’t figured out how to change the
>> sample gate for time intervals (I’m assuming that a million samples is a hard
>> limit). Also, importing the interval samples into TimeLab still shows me a 
>> graph
>> that’s still much steeper than I would expect. The graph is linear, with 
>> points at
>> tau 1s = 8.9E-11, 10s = 9.47E-12, 100s = 1.5E-12 (by then, the ADEV graph is
>> starting to flatten out a bit, which probably indicates the noise floor of 
>> the
>> 53220A near 1E-12), but the FEI datasheet shows a spec with points more like
>> tau 1s = 1.5E-11, 10s = 4.5E-12 and 100s = 1.5E-12.
> 
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