[OpenSPIM] ome-tiff output

[Christoph Sommer]

Dear OpenSpim folks,

thanks for creating such a great resource!

We are currently using an OpenSpim setup and the created output is a 
multi-file ome-tiff. For many applications (e.g. the MVR from Stephan 
Preibisch et al.) we need to convert the ome-tiff to normal tiff.

Unfortunately, for long time-lapse the conversion takes forever, since 
for each conversion step all meta-data is parsed from each single time 
point. My script uses the Bioformats ImporterOptions class, but I can't 
see how I can bypass the meta-data parsing. I also tried the 'bvconvert' 
command line script but also got issues there. Also reading from Python 
(e.g. with the module 'tifffile' only return always the first angle 
image-stack...)

Would you have any idea?

Cheers,

Chris