Re: [micro-manager-general] Spam (8.588):Re: Spam (12.588):Re: Steps to get a functional plugin, lesson n+1

[Nico S. <nic...@uc...>]

Hi Carlos,

Finally got around playing with your plugin.  The idea is really nice, 
but I quickly run into problems, and was never able to get a plot of a 
time-lapse.  Specifically:

2020-04-21T15:56:41.089398 tid12468 [IFO,App] java.lang.NullPointerException
2020-04-21T15:56:41.089398 tid12468 [IFO,App]   at 
org.micromanager.plugins.rtintensities.RTIntensitiesFrame$4$1.run(RTIntensitiesFrame.java:177)
2020-04-21T15:56:41.089398 tid12468 [IFO,App]   at 
java.lang.Thread.run(Thread.java:748)

Also, it would be nice if ROI intensity plotting was available for a 
live window.

Does the plugin work with images with multiple channels?

Is there a way of getting the intensity data out (copying to the 
clipboard or saving)?
> My issue is that I want to show the ROIs in the display, and that the
> code that I thought would do it, does not.

That may be harder than it should be.  MM handles the display an 
overlays, so most likely, the ImageJ way to draw ROIs no longer works in 
the MM display.  Looks for Overlay plugins in the MM source code.

> Will ImageJ be able to understand those tags afterwards ?

No, ImageJ may (or may not?) have its own way of saving ROIs in images.  
The Micro-Manager API has no access to those.  However, your plugin 
could look for those tags in open Micro-Manager datasets, and 
reconstruct the ROIs.


Best,


Nico