Re: [micro-manager-general] "Safe" pausing multi-D acquisition / monitoring progress of a current acquisition

[PAVAK S. <pa...@uc...>]

Hi Nico,

Unfortunately this doesn't seem to be the case. Pausing in the middle of a
z stack pauses between frames (instead of waiting for the stack / position
/ timepoint to finish) and the position isn't automatically reset if the
stage is moved while paused.

This itself isn't a bad idea since having a faithful and immediate pause
option is probably useful for some. It's easy enough to explicitly move
back to Pos0 before the next timepoint starts.

Checking the frame count is sufficient for me to tell if a timepoint has
finished, but it would be very helpful to be able to look up how much time
is remaining until the next timepoint starts.

The alerts window seems to know how to do this, and I can see from the API
how to create new alerts, but it's not clear how to access the "time to
next frame" alert that the acq engine seems to be generating.
getNextWakeTime seems to fit the bill, but I can't figure out how to
interpret the output (other than that it's in ms) so I can check how much
time is available for my code to execute safely in the interval.

Thanks!
Pavak


On Wed, Mar 11, 2020, 10:01 AM Nico Stuurman <nic...@uc...> wrote:

> Hi Pavak,
>
> > I've recently started my first major effort to integrate some custom
> > code with MM 2.0g and am having trouble finding a bit of functionality
> > in the API. The goal is for my MATLAB code to "safely" pause an
> > acquisition during the interval between timepoints, do some stuff,
> > then move back to the first stage position before unpausing (in case
> > the "stuff" takes longer to accomplish than the interval).
>
> Try:
>
> mm.acquisitions().setPause(true);
>
> You'll have to test if the acquisition engine behaves correctly (i.e.
> moves back before taking the next image after unpausing). Regretfully,
> the acquisition engine is written in Clojure and difficult to modify.
>
> Best,
>
>
> Nico
>
>
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