Release of Bio-Formats 6.3.0

Dear all,

Today we are releasing Bio-Formats 6.3.0 which includes the following changes:

File format fixes and improvements:

  • Big Data Viewer
    • added support for parsing of physical sizes
  • DeltaVision
    • added a new RCPNL reader which is a variant and split out of the DeltaVision format
  • Hamamatsu NDPI
    • fixed population of the nominal magnification from the SourceLens TIFF tag
  • ICS (Image Cytometry Standard)
    • fixed a bug when using tiles to read files from SVI-Huygens
  • Imspector OBF
    • fixed an IndexOutOfBoundsException exception when using DummyMetadata (thanks to Nils Gladitz)
  • JPEG 2000
    • added support for sub-resolutions
  • Leica LIF
    • updated to parse attachments to determine if XY positions should be flipped or swapped
  • MetaMorph
    • improved file name construction and plate detection logic
  • Nikon ND2
    • updated to use floating point for 32 bit values
  • OME-TIFF
    • reduced memory usage when reading files and memo file size for cached files
  • PerkinElmer Operetta
    • improved handling of empty fields to prevent series from having X or Y set to 0

API updates:

  • added overwriteIFDValue signature that takes an IFD offset to TiffSaver
  • added a new getRequiredDirectories method to FormatTools
  • new FakeReader keys added for sleepOpenBytes and sleepInitFile

Build updates:

  • updated deployment mechanism for SNAPSHOT and Release to use Travis CI
  • increased the strictness of AcquisitionDate checks in FormatReaderTest
  • improved test coverage of companion file datasets

Component updates:

  • ome-common was upgraded to 6.0.4
  • updated DateTools to attempt to parse invalid dates with Locale.US
  • DateTools documentation updated to clarify expected units for timestamp passed to convertDate

Documentation improvements:

  • added documentation for sleep options when generating test images
  • fixed broken external links in documentation
  • corrected suffixes used for JPEG 2000

Full details can be found at https://docs.openmicroscopy.org/bio-formats/6.3.0/about/whats-new.html.

The software is available from https://www.openmicroscopy.org/ and is available from the Java-8 update site for Fiji users.

Any problems or comments, please use this forum with the bio-formats tag.

Best regards,
The OME Team

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