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

[Carlos G M. <tr...@ac...>]

Nico Stuurman @ 16/04/2020 12:41 -0300 dixit:
> Hi Carlos,
> 
>> a friendly reminder that I got stuck on a couple of issues on the last
>> thread.
> 
> No worries, did not realize that it was my turn. Ccing the mailing list.
> 
>>
>>> Couple of things missing to make it a real usefull tool though:
>>>
>>> * marking on the window.
>>> Something that has bothered me, but not much, is a bluish rectangle that
>>> uM puts in the data window. I don't know where it comes from, nor what
>>> it represent. But trying to use the ImageJ processor to mark the ROIs
>>> did not work.
>>>
>>>     processor.setLineWidth(1);
>>>     processor.setColor(Color.red);
>>>
>>>     processor.setRoi(roi_[i]);
>>>     v = processor.getStats().mean;
>>>     data[i].add((double)imagesReceived_, v, false);
>>>     processor.draw(roi_[i]);
>>>
>>> That, or drawRoi(), do not make it.
> 
> This is drawn by mageJ, to indicate that you are (slightly) zoomed in
> and can pan the image around. It is a known bug that is hard to solve,
> see: https://github.com/micro-manager/micro-manager/issues/238.

No, I should not have mixed my comment there...
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.

>>> * ROI set saving.
>>> The ROI set should go into the datastore somehow, so the data can be
>>> reproduced afterwards. I have't looked at that part yet, but I'm trying
>>> to maximize the SNR of this message :)
> 
> You will need to add these to the metadata.  This goes something like:
> 
> Metadata md = image.getMetadata();
> PropertyMap.Builder pMapBuilder = md.getUserData().getCopyBuilder();
> pMapBuilder.putRectangleList("YourKey",
> ListofYourRoisTransformedToRectangles);
> newMd =
> md.copyBuilderPreservingUUID().userData(pMapBuilder.build()).build();
> Image storeThisOne = image.copyWithMetadat(newMd);
> 
> Typing this without IDE, so doubtlessly errors.  This is a bit
> complicated, but the design has the advantage that each object is
> immutable.
> 
> Hope it makes sense!

It will (make sense :)

Will ImageJ be able to understand those tags afterwards ?

Tks,
-- 
Carlos G Mendioroz  <tr...@ac...>