[ome-users] Leica series import in OMERO

[Woodbridge, Mark R]

I think that for this particular project I would ideally like each
series to become one image consisting of 50 planes and 2 channels (red
and grey). This is how the Leica software displays them.

Hope that makes sense!

> -----Original Message-----
> From: ome-users-bounces at lists.openmicroscopy.org.uk 
> [mailto:ome-users-bounces at lists.openmicroscopy.org.uk] On 
> Behalf Of Paulo Almeida
> Sent: 24 October 2008 15:07
> To: ome-users at lists.openmicroscopy.org.uk
> Subject: Re: [ome-users] Leica series import in OMERO
> 
> 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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