[ome-users] Can't read Andor Dragonfly/Fusion *.ims with Bioformats

[WAINWRIGHT James]

Dear Kai, OME Users,

I am a Dragonfly specialist from Andor and work with Fusion, Imaris and FIJI extensively (although I am not a coder / developer).

Yes, this is a known issue with the NetCDF library distributed with FIJI and Imaris files.

As I understand it, the Bioformats / FIJI teams are unable to include the latest NetCDF with FIJI as it causes problems with some other plugins (although I have not noticed which ones).

They are aware of this issue and will fix it when they can. I have reported the issue and supplied some IMS files to their bug tracking system.

You will need to "patch" FIJI and ensure that the NetCDF file is deleted and replaced with the latest from here:

https://www.unidata.ucar.edu/downloads/netcdf/netcdf-java-4/index.jsp

Delete the NetCDF file in the jars directory of your FIJI install and copy this one instead. (It does not matter about the names being different).

You should then be able to open 99% of IMS files (there are still some issues relating to resolution and also very long e.g. ~7000 frame time series).

Hope this helps!

Best wishes,

James

James Wainwright
Global Applications Specialist - Microscopy Systems

Tel:        +44 (0) 2890 237 126 ext. 2130
Skype:  andor.j.wainwright
Mob:     +44 (0) 7834 710 834
Web:     https://www.andor.com/microscopy-systems

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