[ome-users] LSM import failed.

[Melissa Linkert]

Hi Jerome,

> That file is from a user's directory that contains more then one LSM in it (raw data and projections) and an .mdb file...
> If I add all the LSM files and ignore the .mdb file to the import queue in OMERO.importer, and try an import that is when it fails.

That's certainly something we can fix, but we'll need to see the .mdb file in
order to do so.  Could you please send the corresponding .mdb file and perhaps
the full text of the error message?  If you need somewhere to upload it, just
let me know and I can send you our SFTP server information off-list.

> So, OMERO.importer is still reading the mdb file even if I don't select it for import. Would it not be better to read the mdb file only if selected?  If I don't select something for import I would excpect that to be the outcome.... But again there might be good reasons for you to do what you do... :)

The .mdb file is always included if it references one of the selected LSM files.
It should not be included if you only select LSM files that are not referenced
by the .mdb file.

Regards,
-Melissa

On Tue, Nov 23, 2010 at 02:49:58PM +0000, Jerome Avondo wrote:
> 
> Hi Jmarie,
>  
> Right I have understood what is going on...
>  
> That file is from a user's directory that contains more then one LSM in it (raw data and projections) and an .mdb file...
> If I add all the LSM files and ignore the .mdb file to the import queue in OMERO.importer, and try an import that is when it fails.
>  
> If I move all the LSM files to a new directory, without the .mdb file, then the import succeeds....
>  
> So, OMERO.importer is still reading the mdb file even if I don't select it for import. Would it not be better to read the mdb file only if selected?  If I don't select something for import I would excpect that to be the outcome.... But again there might be good reasons for you to do what you do... :)
>  
> I think the problem we have with the current approach is that users like to create their data by some imaging runs, so lots of LSMs and the mdb, then also produce projections for this data, so there are further LSMs not associated to the .mdb and all of these are stored in the same experiment folder....
>  
> J.
>  
> 
> 
> Date: Tue, 23 Nov 2010 13:14:39 +0000
> From: j.burel at dundee.ac.uk
> To: jeromeavondo at msn.com
> CC: ome-users at lists.openmicroscopy.org.uk
> Subject: Re: [ome-users] LSM import failed.
> 
> 
> 
> Hi Jerome 
> 
> If you use the released version 4.2.1, it should work. 
> I have just imported the LSM file. 
> 
> http://www.openmicroscopy.org.uk/site/support/omero4/downloads 
> 
> 
> Jmarie 
> 
> 
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