[ome-users] Files duplicated in .lif DropBox import

[Harri Jäälinoja]

Hi Josh, Will and others,

I don't seem to be able to reproduce the problem. I created .lifs with 2 
  and 3 images/stacks, and they import without the duplication. Even the 
original problem file worked now. Strange.

I will let you know if the problem resurfaces, but at the moment things 
seems to be ok.

Cheers,
Harri


Josh Moore wrote:
> Harri,
> 
> along with the answers to Will's questions it'd also be helpful if you could send us the log output from either the command-line importer or OMERO.importer. The former is printed to stderr:
> 
>   bin/omero import your.lsm 2>&1 | tee lsm.log
> 
> and the GUI's log can be opened by using the Help menu. DropBox uses bin/omero import itself, so it should be an accurate depiction of what's going on.
> 
> Cheers,
> ~Josh.
> 
> On Jan 14, 2011, at 3:10 PM, Will Moore wrote:
> 
>> Hi Harri,
>>
>> Colin (the drop-box guy) is away this week, but in the meantime...
>>
>> This sounds like it might be related to the way that BioFormats tries to understand multi-image file formats.
>> For example, if you use the importer to choose a single image from a multi-image format (E.g. a single LSM file from a .mdb collection) then BioFormats works out that this image is part of a larger set and attempts to import all the images. If you choose E.g. 2 LSMs that are part of the same collection, then all the images in the collection would get imported twice.
>> We have a ticket to address this issue:
>> http://trac.openmicroscopy.org.uk/omero/ticket/3701
>>
>> However, that shouldn't be a problem with LIF files, since everything is in one file, right?
>> It could be something else that is causing duplicate imports.
>>
>> One thing you could try:
>> If you have a lif file that has more than 2 images, do you get a corresponding multiplication of the imports?
>> E.g. Does a lif file with 3 images result in each image being imported 3 times??
>>
>> This would help us narrow the problem down a bit, at least until Colin is back,
>>
>> Thanks,
>>
>> 	Will.
>>
>>
>> On 14 Jan 2011, at 12:01, Harri Jäälinoja wrote:
>>
>>> Hello all,
>>>
>>> I noticed that when I imported a big .lif file that contained a stack and a single image, both of these were duplicated in the OMERO server. I see both of them twice in the OMERO.insight and in /OMERO/Pixels.
>>>
>>> The duplication did not happen when I imported a .lif that contained only one stack. These two are the only imports I have done so far, so I don't know if the file content is the key.
>>>
>>> Where should I look to figure out why the data was saved twice in the first case?
>>>
>>> Best regards,
>>> Harri
> 
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