<html>
<head>
<meta content="text/html; charset=utf-8" http-equiv="Content-Type">
</head>
<body bgcolor="#FFFFFF" text="#000000">
Thank you very much.<br>
<br>
Does this resolve the alpha channel bug? See
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/pipermail/ome-users/2016-January/005815.html">http://lists.openmicroscopy.org.uk/pipermail/ome-users/2016-January/005815.html</a>
for details.<br>
<br>
P<br>
<br>
<div class="moz-cite-prefix">On 24/01/2016 17:06, Josh Moore wrote:<br>
</div>
<blockquote
cite="mid:CAD3Ea=V232pYGh-_tJgdWytoxE3VqvBgf9TtVCwdAzrqdkPyxg@mail.gmail.com"
type="cite">
<pre wrap="">Hi Paul,
Alpha option was added to
<a class="moz-txt-link-freetext" href="https://github.com/openmicroscopy/openmicroscopy/pull/4412">https://github.com/openmicroscopy/openmicroscopy/pull/4412</a>
and merged to develop. Thanks for the suggestions!
Cheers,
~Josh.
On Mon, Jan 18, 2016 at 10:36 PM, William Moore
<a class="moz-txt-link-rfc2396E" href="mailto:will@lifesci.dundee.ac.uk"><will@lifesci.dundee.ac.uk></a> wrote:
</pre>
<blockquote type="cite">
<pre wrap="">Hi Paul,
Thanks for the update. I’ve added your comment to the PR at
<a class="moz-txt-link-freetext" href="https://github.com/openmicroscopy/openmicroscopy/pull/4412">https://github.com/openmicroscopy/openmicroscopy/pull/4412</a>
and the alpha option will be added before merging.
Regards,
Will.
On 18 Jan 2016, at 09:25, Paul Kibet Korir <a class="moz-txt-link-rfc2396E" href="mailto:pkorir@ebi.ac.uk"><pkorir@ebi.ac.uk></a> wrote:
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 <a class="moz-txt-link-freetext" href="https://github.com/openmicroscopy/openmicroscopy/pull/4412">https://github.com/openmicroscopy/openmicroscopy/pull/4412</a>
The updated ROIs.py file can be viewed at
<a class="moz-txt-link-freetext" href="https://github.com/will-moore/openmicroscopy/blob/polygon_python_training_example/examples/Training/python/ROIs.py">https://github.com/will-moore/openmicroscopy/blob/polygon_python_training_example/examples/Training/python/ROIs.py</a>
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 <a class="moz-txt-link-rfc2396E" href="mailto:pkorir@ebi.ac.uk"><pkorir@ebi.ac.uk></a> 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
<a class="moz-txt-link-rfc2396E" href="https://www.openmicroscopy.org/site/support/omero5.2/developers/Model/EveryObject.html"><https://www.openmicroscopy.org/site/support/omero5.2/developers/Model/EveryObject.html></a>.
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
<a class="moz-txt-link-freetext" href="http://www.openmicroscopy.org/Schemas/Documentation/Generated/OME-2015-01/ome.html">http://www.openmicroscopy.org/Schemas/Documentation/Generated/OME-2015-01/ome.html</a>
-- 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
<a class="moz-txt-link-abbreviated" href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a>
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a>
--
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
_______________________________________________
ome-users mailing list
<a class="moz-txt-link-abbreviated" href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a>
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a>
_______________________________________________
ome-users mailing list
<a class="moz-txt-link-abbreviated" href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a>
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a>
--
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
_______________________________________________
ome-users mailing list
<a class="moz-txt-link-abbreviated" href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a>
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a>
_______________________________________________
ome-users mailing list
<a class="moz-txt-link-abbreviated" href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a>
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a>
</pre>
</blockquote>
<pre wrap="">_______________________________________________
ome-users mailing list
<a class="moz-txt-link-abbreviated" href="mailto:ome-users@lists.openmicroscopy.org.uk">ome-users@lists.openmicroscopy.org.uk</a>
<a class="moz-txt-link-freetext" href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users</a>
</pre>
</blockquote>
<br>
<div class="moz-signature">-- <br>
With kind regards,<br>
<br>
<strong>Paul K Korir, PhD</strong><br>
<i>Scientific Programmer</i><br>
EMBL-EBI<br>
Main Building, A2-35,<br>
WTGC, Hinxton, Cambridge CB10 1SD<br>
P: +44 1223 49 44 22<br>
F: +44 1223 49 44 68</div>
</body>
</html>