Open Microscopy Environment

Dear all,

Today we are releasing Bio-Formats 5.5.3 which includes the following changes:

File format fixes and improvements:

• Zeiss CZI
  
  • fix to store Bézier ROIs as polygons, using the control points for the set of Bézier curves to form an approximation of the ROI
  • improved parsing of stage positions in metadata
  • improved parsing of detector gain values
  • removed OME-XML validation errors by fixing potential for duplicate detector IDs
  • removed invalid XML failures for Modulo label elements
  • time increment metadata now populated on Pixels element
  • fix to deal with consecutive empty planes in a series (thanks to Nicholas Trahearn)
• DICOM
  
  • no longer allow core metadata to be modified when determining if files belong to a DICOM dataset
• Nikon NIS-Elements ND2
  
  • fixed calculation for scanline padding
• Kodak BIP
  
  • stricter file type checking enforced by no longer relying only on the file suffix
• MINC MRI
  
  • improved parsing of metadata by correcting units for physical sizes, pixel type and capturing XYZ plane positions in OME-XML
• Bio-Rad Gel
  
  • fixed the width of pixel data offset field
• DeltaVision
  
  • improved accuracy of format detection checking for input streams
• Andor SIF
  
  • fixed support for cropped images by parsing bounding box of the stored image

Documentation improvements:

• Olympus cellSens VSI updated to include list of available specifications

Full details can be found at http://www.openmicroscopy.org/site/supp ... s-new.html

The software is available at:
http://downloads.openmicroscopy.org/bio-formats/5.5.3
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:

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

Thank you to all the members of the community who contributed to the success of Bio-Formats with patches and helpful suggestions over the last year.

Regards,

The OME Team