JPEG2000 and HDF5 Image Readers in ITK

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Home < JPEG2000 and HDF5 Image Readers in ITK

Key Investigators

  • Harvard Medical School: Kishore Mosaliganti, Sean Megason
  • Kitware: Luis Ibanez

Project

Objective

Add support to ITK for reading very large microscopy datasets that exceed available computer memory. In particular, we are implementing methods to read regions of interest, and multiresolution images of dataset which is assumed to be tiled suitably.

Approach, Plan

We are adding support for JPEG2000 files (via OpenJpeg), and will be looking soon at HDF5 support. Requests and suggestions from the community are being gathered at http://www.itk.org/Wiki/Proposals:JPEG_2000_ImageIO

Progress

An initial version of the JPEG2000 support is avalable at: http://svn.na-mic.org/NAMICSandBox/trunk/JPEG2000ImageIO/

We have joined the development team of Open Jpeg and setup a Dashboard for it at: http://my.cdash.org/index.php?project=OPENJPEG

The current JPEG2000ImageIO class can

  • Read j2k and jp2 images, in 8-bits and 16-bits
  • Write j2k and jp2 images, in 8-bits and 16-bits

Update:

  • Wrote new tests for mosaicing/tiling R/W of the J2K classes
  • Reading tests are passing. Writing needs more work to be done
  • Useful contributions from Mathieu Malaterre and Bradley Lowekamp
  • Working on an Insight Journal submission of the code