I'd like to try to give you an answer, but I might first need to ask some questions:
A. Is the "Master" pulse train an external signal or something you are going to generate from the 6602?
B. You talk about phasing, so I assume that the other 4 pulse trains need to have the same frequency as the master -- is this correct?
C. Do you need both rising and falling edges to be phased to the Master, or only one of the edges?
Here's an outline for how to handle an external Master, where the other 4 pulse trains are at the same frequency but only the rising edges have the desired phasing relationship. (You could also do it this way for an internally-generated Master.) They will be directly referenced to the Master, so you can change the phasing on any one of them without affecting the others.
1. Physically wire the Master pulse train to a legal Gate input. (If your Master is internally generated you could use RTSI and save the screwdriver work.)
2. Program the other 4 counters to be in "retriggerable pulse" mode, using max internal timebase as a Source, and the pin from step (1) as a Gate. Program Gate polarity to be sensitive to rising edges. Output polarity can probably left as default (low state during delay or when inactive, high state during pulse). Each one has to be configured separately, using a unique group #
3. Program the pulse parameters to use
for delay, and a minimal pulse duration. The short duration allows the counter to be ready to be re-triggered as soon as possible after the needed delay, allowing you to approach 360 degree lag.
4. It sounds like you already know how to pass in a new delay parameter "Pulse Spec 1" and issue the "Switch Cycle" command when you need to change the phase on the fly.
(If you have an internally generated Master where you can know the exact period, you could also have passed in the new pulse duration parameter "Pulse Spec 2" such that the sum is always == Master pulse train period. This way you can maintain phasing relationships on both rising *and* falling edges.)
However, if you have an external Master and need phasing on both rising and falling edges, I'm afraid I'm stumped.
Regarding "grouping" the counters: I don't think it can be done yet. But you can set up 4 individual counters with each one mapped to use the same physical signal for its programmed Gate (used here for retriggering).
Since all 4 will be programmed similarly, you might clean up your block diagram a bit by carrying the task id's through as an array, over which you auto-index a For loop. Also think about whether to pass the error cluster through as an array (individual error chain for each counter) or a shift register (shared for all slave counters).
Regarding "other counter output." This is more restricted than it might sound. You don't get to choose which "other" counter you want. You get what NI has predetermined as each counter's "other." Specifically, they are paired on the 6602 as follows:
(0,1), (2,3), (4,5), (6,7) so that Counter #3 is the "other" counter for Counter #2, vice versa, and likewise for each other pair.
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