[ome-users] NIA Image Tables and Images.

[Ilya Goldberg]

Hi Kasthuri
Harry Hochheiser and I are largely responsible for this example.
The "How To" is a little bit out of date with regard to what was  
actually shipped in OME 2.6.1
A bunch of the nomenclature (and filenames - sorry!) changed since  
the How To was written.  The good news is that the capabilities and  
flexibility in 2.6.1 is quite a bit more than what was described in  
the How To.

I would recommend reading this file:
OME/custom/DGAS-Annotations/README
There are a handful of simple steps to take to import and annotate a  
set of images that come with the software distribution.
The images are primarily annotated by manipulated gene (up or down- 
regulated), stain, antibody+gene, or in-situ-probe+gene.  The gene  
annotations link out to entries in the NIA Mouse Gene Index.  The  
images are screen-shots of text listing the annotations (just  
placeholders for real images).

The viewer (which I think is the coolest part of all this) lets you  
compare groups of images based on the various annotation hierarchies  
in this example.
The entire example/demo is self-contained so it is relatively  
straight-forward to extend it to more closely meet your needs.
It should be very easy to set up, and I will be happy to help you if  
you run into trouble.

Sorry, not sure what you mean by IDL - Corba's IDL?
OME's design is somewhat informed by Corba, but is a vast  
simplification of all that it entails.
-Ilya


On Jan 24, 2008, at 4:28 PM, Kasthuri Srinivasan Kannan wrote:

> Hi:
>
> I thank the developers of OME. Its a nice tool. We are trying to  
> use OME for the microscopy data obtained in our institute. I went  
> through the "The Use, Configuration and Implementation of the OME  
> Image Table Tools" documentation in the "How To & User Guides" in  
> the OME page which I found pertinant to the kind of application  
> that we are working on. In the documentation, I found NIA mouse  
> development images and data model were taken as an example to  
> illiustrate the configuration and implementation of OME image table  
> tools. However, I was not able to see the NIA images or the tables  
> when I logged into the OME using the username and the password  
> assigned to me by my admin. Are those images availabe only using  
> the guest access mode? If not, what changes do the admin has to  
> make to view those NIA tables other than re-installing OME and  
> validating the guest user account? And where can I find the  
> "MouseAnnotations.ome" file? Also, it will be of help to know how
>  one can make changes (like defining a new semantic type) to the  
> already existing NIA templates and view the corresponding images in  
> the web based interface.
>
> Thanks.
> Kasthuri Kannan.
>
> P.S: On a different note though, has anybody tried working with the  
> IDL and the OME?
>
>
>
>
>        
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