[ome-devel] Problem uploading files and adding plate, well, well-sample infomration

[Brian Loranger]

Hi Bernhard,

We haven't fully implemented a save for all the metadata objects to  
the database, and many of them can't yet be displayed in insight.  
However, this is our top priority right now and the server and client  
development team are working to include this metadata in the next  
release. So you should be able to both import and see those objects  
in insight soon.

Hope that helps,

Brian Loranger
Software Developer, Open Microscopy Environment
Division of Gene Regulation and Expression
University of Dundee
(The University of Dundee is a registered Scottish charity, No:  
SC015096)




On 28 Oct 2008, at 09:56, Bernhard Voigt wrote:

> Dear list!
>
> I've started playing around a little bit with the OMERO server api  
> to upload images. I'm using the ome.fromat.importer.ImportLibrary  
> and the OMEROMetadataStore. Uploading files works quite well but  
> when it comes to adding information about plate, well, wellsample,  
> I run into problems.
> First of all, the OMEROMetadataStore.getPlate[Well, WellSample]  
> methods don't have any effect.
> Thus I create the Structures on my own and link the image I get  
> from the metadatastore to the WellSample with ws.setImage(image).  
> When I try to save the WellSample, I get an security excpetion:
>
> raceback (innermost last):
>   File "simple2.py", line 107, in ?
>   File "simple2.py", line 98, in create
>   File "simple2.py", line 44, in createPlate
>         at ome.security.basic.OmeroInterceptor.managedEvent 
> (OmeroInterceptor.java:931)
>         at ome.security.basic.OmeroInterceptor.checkManagedDetails 
> (OmeroInterceptor.java:580)
> ....
> ome.conditions.SecurityViolation: ome.conditions.SecurityViolation:  
> You are not authorized to change the update event for  
> ome.model.core.Pixels:Id_3060 from ome.model.meta.Event:Id_64341 to  
> ome.model.meta.Event:Id_64338
>
> I've attached my jython scritp which translates almost literally  
> into Java code when adding the type declarations.
>
> For your information, I don't get this error, when I create the  
> image on my own (without uploading a file), like this:
> im = Image()
> im.setName('foo')
> im = uploadservice.saveAndReturnObject(im)
> ws = WellSample()
> ws.setImage(im)
> ws = uploadservice.saveAndReturnObject(im)
>
> Does the insight client support the plate, well, sample structure?  
> I could not see anything in that direction for the dummy images  
> that I've created this way.
>
> Thanks! Bernhard
>
> <uploader.py>
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