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CZI from Elyra PALM

Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats
Please note:
Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats

If you are having trouble with image files, there is information about reporting bugs in the Bio-Formats documentation. Please send us the data and let us know what version of Bio-Formats you are using. For issues with your code, please provide a link to a public repository, ideally GitHub.
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CZI from Elyra PALM

Postby ebbwdan » Wed Jul 16, 2014 12:43 am

Hi

I have been using the 'Convert to Image' functionality of Zen (Black) to save STORM image data (reconstructed images) and I have noticed an issue opening the file saved as CZI using Bioformats (in FIJI and Omero). The two planes that get saved to the image have different XY dimensions:

HR: x: 1280, y: 1280
WF: x: 128, y: 128

And the file opens at the WF dimensions and as a result (I think) the pixel data in the HR plane is lost. I can export the data as tif but it would mean saving two files rather than one. I have uploaded an example.

Cheers,

Dan.
ebbwdan
 
Posts: 61
Joined: Wed Aug 29, 2012 4:46 am
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Re: CZI from Elyra PALM

Postby emil.rozbicki » Wed Jul 16, 2014 1:42 pm

Hi Dan,

thanks for reporting the problem. I have opened a ticket for it https://trac.openmicroscopy.org.uk/ome/ticket/12469

Regards,
Emil Rozbicki
emil.rozbicki
 
Posts: 5
Joined: Wed Jul 16, 2014 8:39 am
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