[ome-devel] OMERO ROI Questions

[Jean-Marie Burel (Staff)]

Dear Alison

For 1, both points mentioned are limitation of the client, “broken” lines will be saved as polyline.
We are not planning to adjust the behaviours, since from version 5.3.0 (due at the end of the month), omero.insight will be in maintenance mode.

For 2, from a model point of view, Masks, like other elements, can be transformed with an affine transform, hence the placement is not required to be pixel-aligned.
In practise, for masks, this is probably not the case , so we could consider adjusting the model.
This will require further investigation

That will be great if you could give an update at the group meeting. I will contact you off list to schedule a date.

Thanks

Jmarie


From: ome-devel <ome-devel-bounces at lists.openmicroscopy.org.uk<mailto:ome-devel-bounces at lists.openmicroscopy.org.uk>> on behalf of Alison Walter <wackywalter017 at gmail.com<mailto:wackywalter017 at gmail.com>>
Reply-To: OME External Developer List <ome-devel at lists.openmicroscopy.org.uk<mailto:ome-devel at lists.openmicroscopy.org.uk>>
Date: Thursday, 16 March 2017 18:37
To: "ome-devel at lists.openmicroscopy.org.uk<mailto:ome-devel at lists.openmicroscopy.org.uk>" <ome-devel at lists.openmicroscopy.org.uk<mailto:ome-devel at lists.openmicroscopy.org.uk>>
Subject: [ome-devel] OMERO ROI Questions


Hello!


My name is Alison Walter, a graduate student at LOCI, and I have been working on adding ROI support to ImageJ-OMERO – which has entailed adding OMERO equivalent ROIs to ImgLib2. I have a couple of questions regarding OMERO’s handling of ROIs:


  1.  In the Insight client (5.2.x) you can draw curved lines but upon saving the ROI the curvature is lost. Additionally, changing the curvature of the line does not change the line measurements (i.e. line profile, histogram, length, etc.), despite what is implied by the documentation (http://help.openmicroscopy.org/measurement-tool.html). Is this intended behavior?


  2.  Why do OMERO Mask ROIs use double for width and height?
It appears as though OMERO Mask ROIs are bit masks, which would have integer width and height.


Additionally, I was wondering if I could give a status update on this project at one of the weekly meetings, perhaps in April? And then Kevin Eliceiri will give a brief update on the project during his lightning talk at the OME Users Meeting in May.


Thank you very much,

Alison

The University of Dundee is a registered Scottish Charity, No: SC015096
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