Lost nearly 7min of data, what is causing the jumps?

I have a program which reads both voltage in from my daq and a serial readout of a value. It should be recording this data once a second. But occasionally it seems to skip a data point. Over the course of ~7hrs. I lost about 7min of data as you can see from the attached excel spreadsheet which copies the data column from the tdms file I wrote to. why is this happening?
so i cannto seem to attach an xlsx file to this post. but the data looks like, you can see the second missing at 7:29:40:
7:29:25 AM
0.428607317
7:29:26 AM
0.63280981
7:29:27 AM
0.146459628
7:29:28 AM
0.420607482
7:29:29 AM
0.227862984
7:29:30 AM
0.789994507
7:29:31 AM
0.69160001
7:29:32 AM
0.522392381
7:29:33 AM
0.083571152
7:29:34 AM
0.559048316
7:29:35 AM
0.024002613
7:29:36 AM
0.91958844
7:29:37 AM
0.668933406
7:29:38 AM
0.939340449
7:29:39 AM
0.531813595
7:29:40 AM
0.475326098
7:29:42 AM
0.587602947
7:29:43 AM
0.166563736
7:29:44 AM
0.162345344
7:29:45 AM
0.851444344
7:29:46 AM
0.174798941
7:29:47 AM
0.864939952
7:29:48 AM
0.521645376
7:29:49 AM
0.623509246
7:29:50 AM
0.131633047
Attachments:
DAQ Recorder.vi ‏242 KB

You take 1000 data points, at a 1KHz signal, then you do some math and manipulation, and then you write to disk...why would you think this would take 1second to perform?  Your DAQ alone will take 1 second to get, that is not including the Windows jitter or other operations.  Also how long does it take to perform your serial operations?  You have a timeout of 10seconds so the response of your device could be slowing down your rate as well.
If sample rate isn't that critical, or if number of sample points isn't that critical, then I'd recommend changing these.  If you want continuous data then I'd suggest using the Continuous sampling method instead of N samples.  But since you are just averaging them anyway I'm guess it isn't that important.
I'd also investigate where the timing delay is coming from.  Again it might be serial not DAQ in which case you will have to get createive, like holding a previous value until a new one comes along.
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