[ome-users] Format for arguments for OMERO model objects

[Paul Kibet Korir]

Thanks very much Will. One step in the right direction.

My particular use-case required that the colours set on ROIs include the 
alpha-channel (which I created) so as not to completely hide the segment 
begin the ROI. You might also want to include that in rgbToRGBInt().

Kind regards,

Paul

On 15/01/2016 11:06, William Moore wrote:
> Hi Paul,
>
>  I have just opened a PR to improve our python ROI examples, adding a 
> Polygon example
> and setting the strokeWidth, strokeColor and fillColor.
>
> See https://github.com/openmicroscopy/openmicroscopy/pull/4412
>
> The updated ROIs.py file can be viewed at
> https://github.com/will-moore/openmicroscopy/blob/polygon_python_training_example/examples/Training/python/ROIs.py
>
> Some changes might be made during the PR review, but hopefully that 
> example is enough
> to help you now?
>
>  Regards,
>
>   Will.
>
>
>
>> On 14 Jan 2016, at 15:37, Paul Kibet Korir <pkorir at ebi.ac.uk 
>> <mailto:pkorir at ebi.ac.uk>> wrote:
>>
>> Thanks. I was actually interested in formating arguments for Python 
>> (not Java).
>>
>> P
>>
>> On 14/01/2016 14:04, Mark Carroll wrote:
>>> On 01/14/2016 01:38 PM, Paul Kibet Korir wrote:
>>>
>>>> I'm having a difficult time making sense of OMERO model objects
>>>> described here
>>>> <https://www.openmicroscopy.org/site/support/omero5.2/developers/Model/EveryObject.html>. 
>>>>
>>>> There seems to be no explicit definition of the argument formats.
>>>>
>>>> I'm presently working with omero.model.PolygonI() objects for which I
>>>> need to set a number of attributes e.g. fillColor, strokeColor etc. 
>>>> The
>>>> documentation specifies base types (e.g. int, string, bool) for the
>>>> arguments but no accompanying structure.
>>>
>>> Indeed: I am afraid that page does not document value formats. It was
>>> generated by introspecting into the Hibernate (ORM) model to 
>>> investigate
>>> which mapped model objects refer to each other via which properties; it
>>> doesn't contain anything that Hibernate doesn't know. That page is most
>>> useful for figuring out how to write the JOINs in HQL to get from what
>>> one has to what one wants.
>>>
>>> (snip)
>>>> Is there any documentation on model arguments that I can refer to? If
>>>> not is there any plan to include this because client programming is 
>>>> nigh
>>>> impossible without it.
>>>
>>> The most useful source is
>>> http://www.openmicroscopy.org/Schemas/Documentation/Generated/OME-2015-01/ome.html 
>>>
>>> -- click on "Polygon", far down on the left. That tells you the format
>>> for the "points" property and links you back to "Shape" for the others,
>>> for instance describing that the stroke color is a signed 32-bit 
>>> RGBA value.
>>>
>>> To generate examples, one can create the data interactively (e.g., draw
>>> ROIs in Insight) then query them via HQL. For instance, doing the
>>> described conversion, a -993737532 integer that I just queried from
>>> OMERO is #C4C4C4C4 as a color and indeed in Insight's code I see,
>>>
>>>     DEFAULT_STROKE_COLOUR = new Color(196, 196, 196, 196);
>>>
>>> If you have trouble with any specific properties we'd be happy to 
>>> take a
>>> look to see if we can make any sense of them, as it may have been some
>>> time since anybody read the OME-XML schema documentation carefully for
>>> the properties you need. The web client code has to deal with some of
>>> these formats "manually" as well.
>>>
>>> Cheers,
>>>
>>> Mark
>>>
>>> The University of Dundee is a registered Scottish Charity, No: SC015096
>>> _______________________________________________
>>> ome-users mailing list
>>> ome-users at lists.openmicroscopy.org.uk
>>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>>
>> -- 
>> With kind regards,
>>
>> *Paul K Korir, PhD*
>> /Scientific Programmer/
>> EMBL-EBI
>> Main Building, A2-35,
>> WTGC, Hinxton, Cambridge CB10 1SD
>> P: +44 1223 49 44 22
>> F: +44 1223 49 44 68
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-- 
With kind regards,

*Paul K Korir, PhD*
/Scientific Programmer/
EMBL-EBI
Main Building, A2-35,
WTGC, Hinxton, Cambridge CB10 1SD
P: +44 1223 49 44 22
F: +44 1223 49 44 68
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