Open Microscopy Environment

Dear All,

Today we are releasing Bio-Formats 5.1.8, a point release focusing on bug fixing:

Java bug fixes, including:

• FEI TIFF
  • fixed stage position parsing and whitespace handling (thanks to Antoine Vandecreme)
• Pyramid TIFF
  • fixed tile reading when a cache (.bfmemo) file is present
• MicroManager
  • updated to parse JSON data from tags 50839 and 51123
  • fixed to detect *_metadata.txt files in addition to metadata.txt files
  • fixed to handle datasets with each stack in a single file
• OME-XML
  • updated to make .ome.xml an official extension
• OME-TIFF
  • fixed to ignore invalid BinaryOnly elements
• TIFF
  • fixed caching of BigTIFF files
• Slidebook
  • fixed handling of montages in Slidebook6Reader (thanks to Richard Myers)
• Performance improvement for writing files to disk (thanks to Stephane Dallongeville)
• Build system
  • fixed Maven POMs to reduce calls to artifacts.openmicroscopy.org
  • fixed bioformats_package.jar to include the loci.formats.tools package

Documentation updates, including:

• updated format pages to include links to example data
• clarified description of Qu for MATLAB (thanks to Carnë Draug)
• added installation instructions for Octave (thanks to Carnë Draug)

C++:

• Bugfixes to the OME-TIFF writer to correct use of the metadata store with multiple series
• Ensure file and writer state consistency upon close failure

The software is available at:
http://downloads.openmicroscopy.org/bio-formats/5.1.8

The C++ superbuilds and platform builds will be released shortly.

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

http://www.openmicroscopy.org/site/community

Regards,

The OME Team