Release of Bio-Formats 5.8.2

Today we are releasing Bio-Formats 5.8.2 which includes the following changes:

File format fixes and improvements:

• JPEG
  • large images with no restart markers now revert to using DefaultJPEGReader for improved decoding
• Micro-Manager
  • when available PositionName will be parsed and used as the image name
• Hamamatsu ndpi
  • updated image names to be more meaningful when resolutions are not flattened
• InCell 2000/6000
  • fixed an IllegalArgumentException and improved well and field indexing
• AVI
  • fixed a bug with padding for RGB images
• NIfTI
  • the nDimensions field is now used to read additional dimensions when size is greater than 4
• PerkinElmer Opera Flex
  • fixed a bug which resulted in an incorrect field count
• Zeiss CZI
  • improved handling of files with no extension

Bug fixes and improvements:

• an error message is now logged by ImageReader when finding a reader for an empty file
• added a new protected helper method to Memoizer to check if a directory is writable
• improved the rounding of PlanePosition values for data repo configuration testing
• prevented a null pointer exception when retrieving plane exposure time using Bio-Formats ImageJ macro extensions
• updated MinMaxCalculator to account for unflattened multi resolution images

Documentation improvements:

• decoupled the Bio-Formats documentation to the new ome/bio-formats-documentation GitHub repository
• updated Adding format/reader documentation for the new decoupled workflow
• improved link checking in automated builds

Full details can be found at Bio-Formats version history.

The software is available at archived downloads and will shortly be available from the Java-8 update site for Fiji users.

Any problems or comments, please use the OME Forums or mailing lists.