http://astroimagej.170.s1.nabble.com/Multi-aperture-sequence-stops-when-star-not-found-tp55p56.html
Hi David,
The way to handle this properly is to align the images first
using a few bright stars using Process->'Align stack using
apertures' in the menus above the image stack (this feature works
similar to Multi-aperture). After you finish alignment, run
Multi-aperture using the full set of stars you are interested in.
When you place the apertures on the first image, make sure the the
centroid feature is turned on as usual, BUT before you left-click
to advance to the second image, turn the centroid function off
(there is an icon above the image to do this - it looks like an
offset circle

- make
sure it looks "un-depressed"). Then, left click to process the
rest of the images.
Since centroid will not run on the remaining images, you should
not have the problem you reported, and the aperture will be in the
correct location since you used centroid on the first image and
all images are now aligned.
This way, you know the aperture stays in the location you want it
to be, even if a star fades to much into the sky background to
find a centroid.
If I change AIJ to allow the processing to continue, the aperture
may have wandered off to a nearby star without you realizing it.
The above procedure should solve your problem and prevent
erroneous data.
Let me know if you still have problems.
Karen
On 7/11/2013 4:26 PM, David Emory [via AstroImageJ] wrote: