BVV annotation views support in timelapse data

[ekatrukha]

Hello @tischi,

I am now trying to adapt BVV to display timeseries,
using this intro and example data there.
I think the data loading is ok.
Now I am trying to fix annotations.
So now the main problem is that for the estimation of LUT size
I use int nAnnotationsNumber, estimated here.
But I think it gives me the total annotation number per all timepoints, while (I think) I need one per current timepoint.
What would be a proper/workable way to get it?

[ekatrukha]

I've added a "hacked" solution, but it works

static int numberOfAnnotationsPerTimepoint(final AnnotationAdapter< Annotation > annotationAdapter, final int timePoint, String imageName)
{
	int n = 1;
	while(annotationAdapter.getAnnotation( imageName, timePoint, n ) != null)
	{
		n++;
	}
	return n-1;
}

Maybe next week you will have time to take a look and make it better,
because now it (logically) throws out an error about the annotation label number being absent.

BTW, there is a nice trick to see labels/annotations/volumes the same way as in BDV:
in the BVV settings, put Clip distance near parameter to 0.
Then in BVV when you press D for view sync, the first "cut" plane should look the same in both viewers.

Enjoy your weekend!

[ekatrukha]

That arabidopsis timelapse dataset is very pretty browsing in 3D and time!
I cannot wait to add an animation panel,
so one can generate nice movies.

[tischi]

Hi @ekatrukha,

For releasing BVV with MoBIE; should we first fix this or could we release "as is".

[tischi]

...and could you let me know how to open the "arabidopsis timelapse"?

[ekatrukha]

I just put in OpenPlatybrowser.java example
this URL https://github.com/mobie/arabidopsis-root-lm-project
instead of https://github.com/mobie/platybrowser-project

[tischi]

Hi,

I had a brief look and I cannot come up with something better right now.

We had very few time-lapse use-cases so far, thus the current support might be buggy and the APIs not very convenient.

Let's leave this open and I can maybe work on it more later...