The Open Microscopy Environment

Today we are releasing Bio-Formats 6.2.1 which includes the following changes:

File format fixes and improvements:

Applied Precision CellWorX
- corrected plane positions for series index > 0 rather than reusing positions from the first series
DeltaVision
- added objective info for new Applied Precision 100X/1.4 lensID
- updated so that date from dv file will override log file date to avoid locale dependent dates
Leica LAS AF LIF (Leica Image File Format)
- fixed units and indexing for tile-based plane positions
TIFF
- fixed a potential exception in MinimalTiffReader when the TIFF is stored using very large tile/strips dimensions
Zeiss CZI
- fixed a bug to prevent an index out of bounds exception when populating positions

Bug fixes and improvements:

bfconvert has been updated so that when the dimensions of a sub-resolution are smaller than the requested tile size then default to the size of the sub resolution
fixed a bug in the execution of bfsave in the GNU Octave environment

Codec updates:

ome-codecs was upgraded to 0.2.5
JPEG codec updated to reduce decompression time for 8-bit RGB images
Huffman codec updated to allow the decoding tree to go all the way down to the 16-bit depth required by the standard (thanks to Aaron Avery)
Lossless JPEG codec updated to provide better compliance with the LJPEG standard (thanks to Aaron Avery)

Documentation improvements:

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 image.sc forum.

Release of Bio-Formats 6.2.1