[ome-users] Leica series import in OMERO

[Paulo Almeida]

Hi,

I've had the same problem and I talked about it with Omero developers (I 
believe Jean-Marie and/or Brian were working on it). Maybe you can give some 
input regarding how these files should be handled. My suggestion was a tree 
structure like the one in Leica software, with each of those 4 images being a 
sub-image of the original .lei file. Does that make sense to you, or would 
you prefer 4 separate images?

Regards,
- Paulo

On Friday 24 October 2008 13:50, Woodbridge, Mark R wrote:
> Hi,
>
> I'm importing an .lei project which consists of two image series. Each
> series consists of 50 z-planes, with 2 channels (one RGB and one
> grayscale) per plane. There are also 2 snapshot images in the project,
> so there are 202 images in total.
>
> The series uploads successfully in the latest version of OMERO, creating
> 2 50-plane images and the 2 snapshots (i.e. 4 images in total). But
> there are a couple of problems with the resulting project:
>
> 1) Each z-plane is converted into a single 6-channel image. The first
> three (RGB) channels are fine, and represent the original RGB image. But
> the grayscale image is represented in three further channels which all
> appear green in insight.
>
> 2) All 4 images are given the same name: the name of the original .lei
> file.
>
> Is there any way to avoid these problems when uploading my project? I
> can send the files if that would help.
>
> Regards,
>
> Mark.
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