Release of Bio-Formats 5.8.1

Today we are releasing Bio-Formats 5.8.1 which includes the following changes:

File format fixes and improvements:

• TIFF
  • updated TiffWriter so that planes will no longer be split when using non-standard SamplesPerPixel e.g. images with 2 or 4 samples per pixel. This will ensure the TiffData elements represent the structure specified by the user. If users wish to split planes the ChannelSeparator and bfconvert provide the means to do this explicitly
  • updated TiffWriter to use the correct logic for index checking when writing tiled images
  • fixed a ClassCastException when the NEW_SUBFILE_TYPE tag has a non-standard type or count such that the value is not inlined
  • updated to also check the last IFD for an ImageJ comment in the scenario that the image has been processed by other software
• NRRD (Nearly Raw Raster Data)
  • added support for space directions and space units fields added in version 4
• Evotec/PerkinElmer Opera Flex
  • updated to read rather than calculate image offsets when a single tile is used

Bug fixes and improvements:

• limited the number of exceptions in the Bio-Formats plugins exporter when an unsupported pixel type is found
• fake test images now allow for per-plane ExposureTime{X,Y,Z} and Position{X,Y,Z} keys in the INI file (for further details see the documentation for Generating test images
• file patterns now have expanded support for multi-channel pyramids, allowing for the matching of at least two channels rather than three, and the stitching of files containing a pyramid has also been fixed

Documentation improvements:

• improved testing of external links

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.