[ome-users] Cellomics plate view column index off

William Moore will at lifesci.dundee.ac.uk
Thu May 12 10:57:37 BST 2016

Hi Harri,

I wonder if you could check whether you get the same UI issue in the Insight client?
If so, then this is likely an issue with initial reading of the Plate on import.
The easiest way for us to look at this would be if you could send us an example file.
Do you have an example that is quite small?
If you could upload it at https://www.openmicroscopy.org/qa2/qa/upload/ <https://www.openmicroscopy.org/qa2/qa/upload/>
that would be great - thanks,


> On 11 May 2016, at 11:07, Jäälinoja, Harri Tapio <harri.jaalinoja at helsinki.fi> wrote:
> Hi,
> I uploaded some Thermo CellInsight plate data to OMERO 5.2.3, and noticed that there is a problem with the well column index. The wells are numbered A01 -> H12, but OMERO webclient viewer seems to think the index starts from A00, and shifts the wells to the right. Here are some screenshots to show what I mean:
> https://wiki.helsinki.fi/display/LMU/OMERO+troubleshooting <https://wiki.helsinki.fi/display/LMU/OMERO+troubleshooting>
> In case of a full plate, the right-most column is not shown at all.
> hajaalin at dhcp-asv-66:~/tmp$ ls LMU-CELLINSIGHT_151117170001/|head -2
> LMU-CELLINSIGHT_151117170001_A01f00d0.C01
> LMU-CELLINSIGHT_151117170001_A01f01d0.C01
> hajaalin at dhcp-asv-66:~/tmp$ ls LMU-CELLINSIGHT_151117170001/|tail -7
> LMU-CELLINSIGHT_151117170001_H12f14d0.C01
> LMU-CELLINSIGHT_151117170001_H12f15d0.C01
> As you see in omero_cellomics.png, part of the code has the index right. There "General" tab on the right shows E04 when viewer says E5. Same goes for field index.
> I have also a feature request related to the viewer: would it be difficult to show a montage of the fields of a given well? It wouldn't even have to be a real stiched image. 
> Best regards,
> Harri
> ---
> Harri Jäälinoja
> Light Microscopy Unit
> Institute of Biotechnology
> University of Helsinki
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