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Hi,
we are trying to convert 100+ large (35Gb), 5D files from .lsm to .czi, as
we cannot open these large files with Imaris (data points are scrambled
after ~ 90 timepoints).
This is possible with Zen and Zen lite but is time consuming at 20 min + to
open the file then again to save the file in the different format and there
seems to be no way to batch perform this task.
We've attempted written scripts for FIJI to allow export (i.e., batch
conversion) of these files as ome-tifs using Bio-Formats, but the
Bio-Formats exporter in FIJI doesn't currently support BigTiff, so the file
saving fails because the dataset is too large. We've also tried the
Bio-formats command-line converter, which does support BigTiff, but in it's
current incarnation it's very slow and inevitably crashes at some point
during the conversion of these large files.

Has anyone had this issue before?
Have you found a better way to do the conversion, or direct opening with
Imaris that does not scramble the file?
Cheers,
Stephen

-- 
Stephen Firth
Manager of Advanced Optical Microscopy
Monash Micro Imaging
Monash University