Using ImageJ with Olympus 1000 Fluoview (.oib)

For our users using the Olympus 1000 Fluoview. Please note that ImageJ is the BIPL recommended application to use when viewing images captured with the Fluoview 1000. There have been some issues with images not displaying properly and not being able to analyze images when using the FV-1000 viewer software.

The following was taken from OME at LOCI - Software - Bio-Formats library

Bio-Formats is a standalone Java library for reading and writing microscopy file formats, written by Melissa Linkert, Curtis Rueden, Chris Allan, Eric Kjellman and Brian Loranger. It is capable of parsing both pixels and metadata for a large number of formats, as well as writing to several formats.


Installation: Download loci_tools.jar, and drop it into your ImageJ/plugins folder. Next time you run ImageJ, a new LOCI submenu with several plugins will appear in the Plugins menu, including the Bio-Formats Importer and Bio-Formats Exporter.


ImageJ v1.37 and later automatically (via HandleExtraFileTypes) calls the Bio-Formats logic, if installed, as needed when a file is opened within ImageJ—e.g., when using File/Open instead of explicitly choosing "Bio-Formats Importer" from the Plugins/LOCI menu.


Upgrading: To upgrade, just overwrite the old loci_tools.jar with the new one. You may want to download the latest version of ImageJ first, to take advantage of new features and bugfixes.