[ome-users] MetaMorph nd files with repeated wavelengths

[Melissa Linkert]

Hi Ben,

> I have a problem opening MetaMorph .nd files if two channels used the same wavelength. In my case, two FITC channels with different exposure settings were collected at each Z-T. Bioformats creates the right number of image planes for the correct number of channels, but only one of the FITC channels has image data. The images in the other channel just have all zero pixels. I assume the repeated channel names are confusing to the software.

Thank you for reporting this problem as well.

I have filed a ticket on our issue tracking system:

http://trac.openmicroscopy.org.uk/ome/ticket/9680

...and as with the other Metamorph problem, you have been CC'd and will
receive an email each time we update the status of the ticket.

Regards,
-Melissa

On Wed, Sep 26, 2012 at 12:52:12PM -0400, Ben Timney wrote:
> Hi,
> 
> I have a problem opening MetaMorph .nd files if two channels used the same wavelength. In my case, two FITC channels with different exposure settings were collected at each Z-T. Bioformats creates the right number of image planes for the correct number of channels, but only one of the FITC channels has image data. The images in the other channel just have all zero pixels. I assume the repeated channel names are confusing to the software.
> 
> Problem seen when opening such files in MatLab using BioFormats 4.4.4, (also reproduced in ImageJ).
> 
> DropBox link to example data
> 
> Ben Timney
> 
> ________________
> Ben Timney, PhD
> Research Associate
> Rout Laboratory,
> 1230 York Ave, #213
> New York, NY 10065
> 

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