<div dir="ltr">Hi Josh,<div><br></div><div>Thanks for following up on the OMERO ImageJ tickets. I am CCing ome-devel with a better subject since the topic may be of interest to others.</div><div><br></div><div>> <a href="http://trac.openmicroscopy.org.uk/ome/ticket/4084" target="_blank" style="font-size:13px;font-family:arial,sans-serif">http://trac.openmicroscopy.org.uk/ome/ticket/4084</a><br>
</div><div><span style="font-size:13px;font-family:arial,sans-serif">> Implement OMERO upload and download</span></div><div><span style="font-size:13px;font-family:arial,sans-serif"><br></span></div><div><span style="font-size:13px;font-family:arial,sans-serif">Initial version of that project was completed before the September SAB demo. I have now resolved the ticket as fixed, and linked over to the relevant projects on GitHub.</span></div>
<div><span style="font-size:13px;font-family:arial,sans-serif"><br></span></div><div><span style="font-size:13px;font-family:arial,sans-serif">Similarly, I also resolved as fixed:</span></div><div><font face="arial, sans-serif"><a href="http://trac.openmicroscopy.org.uk/ome/ticket/10645">http://trac.openmicroscopy.org.uk/ome/ticket/10645</a></font><br>
</div><div><font face="arial, sans-serif"><div>OMERO-backed data in ImgLib2</div><div><div style="font-family:arial"><br></div><div style="font-family:arial">> <span style="font-family:arial,sans-serif;font-size:13px">I don't know if Curtis has anything else </span><span style="font-family:arial,sans-serif;font-size:13px">he has open.</span></div>
<div style="font-family:arial"><br></div><div style="font-family:arial">There was one other avenue of interoperability that J-M and I discussed during my February Dundee visit: a suite of miscellaneous ImageJ commands that provide OMERO-related features: e.g., uploading/downloading tabular data. We made a list which I have saved, but those items are lower priority than finishing the ImageJ2 parameterized scripting work [1], which will enable OMERO to run ImageJ scripts server-side the same as single commands. This will let people build up much more complex ImageJ workflows and then run them on the server in a single shot.</div>
</div><div><br></div><div>We should also document the need for translating non-image data structures, particular results tables and ROIs. I filed issues for those:</div><div><div><br></div><div><a href="https://github.com/imagej/imagej-omero/issues/1">https://github.com/imagej/imagej-omero/issues/1</a></div>
<div>Support translation of ResultsTables to/from OMERO</div><div><br></div><div><a href="https://github.com/imagej/imagej-omero/issues/2">https://github.com/imagej/imagej-omero/issues/2</a></div><div>Support translation of ROIs to/from OMERO</div>
</div><div><br></div><div>Anything else to discuss/decide right now regarding these tickets?</div><div><br></div><div>Regards,</div><div>Curtis</div><div><br></div><div>[1] Huge progress on ImageJ scripting (though still not 100%) over this past long weekend:</div>
<div><a href="https://github.com/imagej/imagej/commit/930324f82cc489154aa255ab9df87b403f99a3e1">https://github.com/imagej/imagej/commit/930324f82cc489154aa255ab9df87b403f99a3e1</a><br></div></font></div><div class="gmail_extra">
<br><br><div class="gmail_quote">On Fri, Nov 22, 2013 at 9:35 AM, Josh Moore <span dir="ltr"><<a href="mailto:josh@glencoesoftware.com" target="_blank">josh@glencoesoftware.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
Hi all,<br>
<br>
I had the task of digging through IJ2/OMERO tickets. That's mostly done now, I think. Here's how I see things:<br>
<br>
<br>
<a href="http://trac.openmicroscopy.org.uk/ome/ticket/918" target="_blank">http://trac.openmicroscopy.org.uk/ome/ticket/918</a> - ImageJ in Scripting Engine<br>
<br>
is the main ticket that Curtis was looking at. It's a story that has 3 open issues.<br>
All of those are on the OMERO side of things. I don't know if Curtis has anything else<br>
he has open.<br>
<br>
<br>
<a href="http://trac.openmicroscopy.org.uk/ome/ticket/10608" target="_blank">http://trac.openmicroscopy.org.uk/ome/ticket/10608</a> - ImageJ/OMERO<br>
<br>
is the parent requirement for that story. There are several other stories of interest<br>
in there, but I don't know what their status is. There are also some related loose<br>
tickets that I didn't know what to do with like<br>
<br>
<a href="http://trac.openmicroscopy.org.uk/ome/ticket/4084" target="_blank">http://trac.openmicroscopy.org.uk/ome/ticket/4084</a> - Implement OMERO upload and download<br>
<br>
<br>
Just FYI, 918 is also part of another requirement:<br>
<br>
<a href="http://trac.openmicroscopy.org.uk/ome/ticket/1856" target="_blank">http://trac.openmicroscopy.org.uk/ome/ticket/1856</a> - Scripting Improvements<br>
<br>
which contains most of the biggish script work. The next wave is most likely:<br>
<br>
<a href="http://trac.openmicroscopy.org.uk/ome/ticket/1860" target="_blank">http://trac.openmicroscopy.org.uk/ome/ticket/1860</a> - Scripting Cleanup<br>
<br>
with lots of bits and bobs. Input welcome. With the looming release of beta2,<br>
we haven't had time to get the IJ2 scripting set up for daily testing, so<br>
that's our next TODO.<br>
<span class="HOEnZb"><font color="#888888"><br>
~J.</font></span></blockquote></div><br></div></div>