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Task #4107 (new)

Opened 10 years ago

Last modified 4 years ago

More robust support for 1, 2 and 4 bit images

Reported by: mlinkert Owned by:
Priority: major Milestone: Unscheduled
Component: Bio-Formats Version: OMERO-5.2.0
Keywords: model, TiffReader, export Cc: FCORNELI@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description (last modified by mlinkert)

1, 2 and 4 bit images are currently supported, but not in the most flexible way. Instead of storing these images in their original bit depth, we automatically convert them to 8 bit data and throw away the original bit depth. We should do the following:

  • use the type BufferedImage?.TYPE_BYTE_BINARY when constructing BufferedImages?
  • add a new flag to the API to toggle how openBytes handles < 8 bit data - developers can choose whether to get original data (e.g. 1 byte represents 8 pixels), or expanded data (i.e. 1 byte represents 1 pixel)
  • potentially add new pixel types to the OME data model (uint1, uint2, uint4, etc.)
  • update the TIFF writer to export 1, 2 and 4 bit data

Change History (2)

comment:1 Changed 9 years ago by jmoore

imported from bio-formats:#344

comment:2 Changed 4 years ago by mlinkert

  • Description modified (diff)
  • Keywords model TiffReader export added
  • Owner mlinkert deleted
  • Version set to OMERO-5.2.0

Note that current versions of the OME-XML schema allow for a BIT type (i.e. uint1), so point 2 is partially resolved and point 4 can be done as part of #12599. Whether uint2/uint4 are still relevant for inclusion is probably up for debate.

The second point above is related to the discussion in #12599; if it's useful to have a way to get the packed representation, that might be best done through a ReaderWrapper? implementation.

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