[ome-devel] ome.tif creation and omero-insight

[Pearu Peterson]

Hi,

I am creating ome.tif files of our custom built confocal microscope
images and I have encountered few problems with importing such ome.tif
files to omero. All generated ome.tif files pass ome-tif validation
successfully and are imported to omero.

1) What sections in ome-tif xml structure correspond to a
omero-insight table entitled "Original Metadata" under Acquisition
tab? How to include the Original Metadata information within a ome.tif
file?

2) Where one can specify the pixel time within OME-xml structure? The
Exposure Time seems to refer to the total time of image acquisition
and in confocals one should probably subtract flyback time from that.
When using pixel time (25 microsec) in the ExposureTime of Plane
xml-structure then in omero-insight it is shown as "0s".

3) According to
  http://trac.openmicroscopy.org.uk/omero/ticket/2799
omero should be able to import annotations from ome-xml files. My
experience with omero 4.2.1 insight is that only comment annotations
are shown in a text column that has width only 11 chars. Furthermore,
other types of annotations like boolean, long, double, etc are not
shown in omero-insight. Is this a bug?

An example of our ome.tif file can be found in
  http://cens.ioc.ee/~pearu/omero/

Thanks,
Pearu Peterson
Laboratory of Systems Biology