Folder structure in Omero

[Sylvie Le Guyader]

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Dear list

Is there anyone using Omero on the list? I posted the following message to image.sc but I got no response so I turn to you all.

We have recently set up an Omero server and everything works nicely.
However I am very disappointed in one aspect: It seems that we can only have 2 layers of folders inside the Omero dabase: Projects and Datasets.
How can we have more folders inside folders? or is it possible to automatically tag the images with the name of the folder they came from?

Since this is the structure we currently have, and files inside the folders have the same name exactly, there is no way we can use Omero if we cannot have more than 2 folder layers and if we cannot point to a higher level folder to upload. Have I missed anything?

Med vänlig hälsning / Best regards

Sylvie

@@@@@@@@@@@@@@@@@@@@@@@@
Sylvie Le Guyader, PhD
Live Cell Imaging Facility Manager
Karolinska Institutet- Bionut Dpt
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[Josh Moore]

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> Dear list

Hi Slyvie,


> Is there anyone using Omero on the list? I posted the following message to image.sc but I got no response so I turn to you all.

Sorry that your post didn't get responded to [1]. The OME community
definitely monitors image.sc but every once in a while (e.g. with
weekend posts) something slips by us. Don't hesitate to tell us as
much on the post itself.


> We have recently set up an Omero server and everything works nicely.
> However I am very disappointed in one aspect: It seems that we can only have 2 layers of folders inside the Omero dabase: Projects and Datasets.
> How can we have more folders inside folders? or is it possible to automatically tag the images with the name of the folder they came from?
>
> Since this is the structure we currently have, and files inside the folders have the same name exactly, there is no way we can use Omero if we cannot have more than 2 folder layers and if we cannot point to a higher level folder to upload. Have I missed anything?

These are definitely all good questions that various members of the
community have been thinking about for a while. I'd suggest we
continue the discussion on image.sc, but I'll be happy to summarize
any comments that get sent via the list.


> Med vänlig hälsning / Best regards
>
> Sylvie

All the best,
~Josh

[1] https://forum.image.sc/t/folder-structure-in-omero/30535/2

[Julio MATEOS_LANGERAK]

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Dear Sylvie,

There is indeed an auto tagging app that will tag your images according to file name and original import directory. Very neat.

Best, Julio

Sent from my iPhone

> On 28 Oct 2019, at 16:41, Josh Moore <[hidden email]> wrote:
>
> *****
> To join, leave or search the confocal microscopy listserv, go to:
> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
> Post images on http://www.imgur.com and include the link in your posting.
> *****
>
>> Dear list
>
> Hi Slyvie,
>
>
>> Is there anyone using Omero on the list? I posted the following message to image.sc but I got no response so I turn to you all.
>
> Sorry that your post didn't get responded to [1]. The OME community
> definitely monitors image.sc but every once in a while (e.g. with
> weekend posts) something slips by us. Don't hesitate to tell us as
> much on the post itself.
>
>
>> We have recently set up an Omero server and everything works nicely.
>> However I am very disappointed in one aspect: It seems that we can only have 2 layers of folders inside the Omero dabase: Projects and Datasets.
>> How can we have more folders inside folders? or is it possible to automatically tag the images with the name of the folder they came from?
>>
>> Since this is the structure we currently have, and files inside the folders have the same name exactly, there is no way we can use Omero if we cannot have more than 2 folder layers and if we cannot point to a higher level folder to upload. Have I missed anything?
>
> These are definitely all good questions that various members of the
> community have been thinking about for a while. I'd suggest we
> continue the discussion on image.sc, but I'll be happy to summarize
> any comments that get sent via the list.
>
>
>> Med vänlig hälsning / Best regards
>>
>> Sylvie
>
> All the best,
> ~Josh
>
> [1] https://forum.image.sc/t/folder-structure-in-omero/30535/2