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Task #9652 (new)

Opened 8 years ago

Last modified 5 years ago

Improve performance of HDF-based readers

Reported by: mlinkert Owned by:
Priority: major Milestone: Unscheduled
Component: Bio-Formats Version: OMERO-5.2.0
Keywords: hdf, ImarisReader Cc: jamoore
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.


See for example imaris/jake/*.

This is a very large file containing a pyramid of big images. It takes on the order of 40 hours to import, as 256x256 tiles are read at a rate of 4 per second.

The bottleneck appears to be in netCDF, though it may help some to adjust the optimal tile sizes to match the HDF chunk sizes.

Change History (1)

comment:1 Changed 5 years ago by mlinkert

  • Keywords hdf ImarisReader added
  • Owner mlinkert deleted
  • Version set to OMERO-5.2.0

See comment on #9651; likely not worth working on this until the broader strategy for HDF reading is sorted out.

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