[ome-users] Swap dimensions in OMERO (time vs. z)

[Niko Ehrenfeuchter]

Hi Josh,

On 18.02.2015 20:40, Josh Moore wrote:
>> Otherwise I can also dig through the logs here, I guess you're asking for
>> the Blitz-0.log?
>
> Nope, I mean the log file which sits beside the fileset under
> ManagedRepository. For example, for
>
> # jamoore at joshuas-mbp:/opt/ome6$ dist/bin/omero -q fs sets
>   # | Id  | Prefix                          | Images | Files | Transfer
> ---+-----+---------------------------------+--------+-------+----------
>   0 | 301 | root_0/2015-02/18/10-27-33.022/ | 1      | 1     |
>   1 | 251 | root_0/2015-02/18/10-20-40.871/ | 1      | 1     |
>   2 | 202 | root_0/2015-02/18/10-01-20.181/ | 1      | 1     |
>   3 | 201 | root_0/2015-02/18/10-01-02.432/ | 1      | 1     |
> (4 rows, starting at 0 of approx. 4)
> # jamoore at joshuas-mbp:/opt/ome6$ dist/bin/omero hql "select
> f.templatePrefix from Image i join i.fileset as f where i.id = 251" -q
>   # | Col1
> ---+---------------------------------
>   0 | root_0/2015-02/18/10-20-40.871/
> (1 row)
>
> the log file would be found under
>
> /OMERO/ManagedRepository/root_0/2015-02/18/10-20-40.871.log

I just re-imported it, the log file is attached.


>> On top of that we have some more (non-Visitron) Metamorph TIFFs which have
>> their T interpreted as Z and their C as T. I can upload one of these,
>> although the smallest one that I have is ~850 MB. Inspecting the metadata
>> with Fiji shows the expected odd inconsistency on those, stating the images
>> should have 2 timepoints (instead of the real 165), but then giving T x C
>> "timepoints" further down.
>>
>> Don't know if this is a related issue though. Let me know if I should upload
>> it!
>
> I'll defer to Melissa on that.

Alright, I'll happily wait then :-)

Cheers,
~Niko
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