Release of Bio-Formats 7.2.0

Today we are releasing Bio-Formats 7.2.0 which includes a number of format improvements for Aperio SVS, Olympus OIR and Zeiss CZI.

The full list of changes included in this release are as follows:

File format fixes and improvements:

• Aperio SVS
  • improved detection of label and macro images
  • thumbnails are now removed by default
  • added a new reader option svs.remove_thumbnail to control the thumbnail behaviour. By default the option is true and thumbnails are removed. Setting the option to false will restore the previous behavior and include thumbnails
• Imaris HDF
  • channel names are now correctly populated
• Olympus OIR
  • fixed an issue with channel ordering
  • prevent certain pixel blocks from being incorrectly skipped
• TIFF
  • dimension order is now marked as certain if metadata is read from ImageJ tag
• Zeiss CZI
  • improved well column indexing by using alternate sources for well identifiers when available
  • improved image naming, particularly for attachments
  • fixed a bug so that opening CZI compressed with ZSTD now allows access to pyramid levels (thanks to Stephan Wagner-Conrad)
  • fixed an integer arithmetic problem when calculating pyramid scales (thanks to Stephan Wagner-Conrad)

Bio-Formats improvements:

• JPEG handling no longer fails for non 4:4:4 JPEG (thanks to Can Gokhan Dogan)
• fixed a bug in the Bio-Formats Plugins configuration window when toggling the Nikon ND2 chunkmap option
• updated testing to add an additional check for image names when resolutions are not flattened

Documentation improvements:

• fixed a number of broken external links