Release of Bio-Formats 5.5.1

Tags: #<Tag:0x00007fb882c15b00>


Dear All,

Bio-Formats 5.5.1 is now available for Fiji from the Java 8 update site. If you have previously been using the Bio-Formats 5 update site, you will need to disable that as well as enabling the Java 8 site.

This release includes several file format fixes:


  • fix for HDF5SymbolTableException when recycling an IFormatReader to reopen another CellH5 file
  • bug fix related to opening of subsets of CellH5 files, namely openBytes(r, no, x, y, w, h) for y>0

Zeiss CZI

  • fix pyramid resolution indexing for pyramids of different depths
  • fix for incorrect channel names and colors

Zeiss AxioVision ZVI

  • correct parsing of epoch for Zeiss TIFF and Zeiss ZVI

And also command line and format tool fixes - see for full details.

The software is also available to download from

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


The OME Team