[ome-devel] ScanrReader deactivated wells

[Rubén Muñoz]

Hi Melissa, 

One again need some help with ScanrReader. 

You know that the Olympus ScanR software is not longer maintained, but quite popular here. 
And a user found a configuration that prevents your importer to work properly. Not an error but wrong images in the wrong Series. 

What happened is, some wells were software-deactivated and images were missing, but the experiment_descriptor.xml still indicates all labels.

I am uploading and example 12-05-25_009.zip to your dev.loci.wisc.edu. 

Example is the label (A1) exists in the descriptor file and the importer counts with the file to exists, but ends up using the next available image for that well. 

I tried to fix this myself in a previous version by increasing the variable 'next' when a file is not found (in the main loop).
This created several null positions in the array 'tiffs' that can be written black (with an zeroed buffer in the TiffWriter).

However I believe that there's a better way to do this. 

Thanks again for your help, 

Rubén