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Task #11695 (closed)

Opened 10 years ago

Closed 9 years ago

Bug: Bio-Formats plugin exporter does not save ROIs from the ROI manager

Reported by: rleigh Owned by: mlinkert
Priority: minor Milestone: 5.1.0-m3
Component: Bio-Formats Version: 4.4.9
Keywords: n.a. Cc: hadrien.mary@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.


The Bio-Formats ImageJ plugin imports ROIs from OME-TIFF into the ROI manager (though not by default--this must be selected in import options). It also appears to export the same ROIs, though this is apparently due to caching of the imported OME-XML.

In the general case, newly-created (not imported) ROIs are not saved when using the Bio-Formats exporter. Ideally, we should be able to save the current state of the ROI manager as part of the generated OME-XML for the export.

Some thoughts:

  • Saving should probably be optional; we might not want the ROI manager ROIs to be saved
  • This could be included as a checkbox on the split file dialogue; maybe this could be changed into a more general "Export options" similar to import.
  • It might also need to include the "current" ROI which may or may not be in the manager
  • Perhaps optionally only export the selected ROIs in the manager; we might not want to export everything.
  • Maybe the ROI import should default to being enabled? Or does this cause problems if opening multiple images?

Change History (2)

comment:1 Changed 10 years ago by mlinkert

  • Milestone changed from Unscheduled to 5.0.4

comment:2 Changed 9 years ago by mlinkert

  • Resolution set to fixed
  • Status changed from new to closed
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