<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
</head>
<body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
Dear All,<br class="">
<br class="">
Today we are releasing OMERO 5.3.0, a full production-ready release of OMERO 5.3.0; featuring a major reworking of OMERO.web and web apps; dropping support for Windows for the server and for deploying OMERO.web using Apache; and introducing new user features
and many fixes and performance improvements:<br class="">
<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• improved support for many file formats via Bio-Formats 5.4.0<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• introduced ROI Folders<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• new UI for displaying Screen Plate Well data in OMERO.web and OMERO.insight<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• support for lookup tables and reverse intensity rendering<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• color mapping for multiple channels without set colors has been improved to use RGBRGB rather than RGBBB (i.e. to loop through red, green, blue rather than setting all later channels to blue)<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• support for histograms in the clients and server<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• ability to filter by ratings in OMERO.web<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• added 'Open With...' functionality to OMERO.web<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• color of shapes is now handled according to the data model, using RGBA rather than ARGB format (an sql script is available to upgrade existing shapes; this will not happen automatically as part
of the OMERO upgrade)<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• improved performance for moving and deleting data<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• Wells can now be annotated and searched by annotations<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• enabled downloading/exporting of plate data<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• improved reading of tables data<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• script improvements including ability to create tiled images from big ROIs, fixes for creating standard images from ROIs, and to stop the Combine_Images script from ignoring pixel sizes set on
the target images<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• names for plates and images set in the metadata read by Bio-Formats are now imported into OMERO and the filename (which was previously used) is only used where an alternative has not been set<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• many bug fixes<br class="">
<br class="">
Sysadmin changes include:<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• added support for Ice 3.6.3<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• official OMERO.web apps are now all installable from PyPI<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• OMERO.web has been decoupled from the server and can now be deployed separately<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• dropped support for Windows for OMERO.server<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• OMERO.web deployment via Apache is no longer supported<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• OMERO.web also now requires Python 2.7<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• CLI improvements including updates to the import output to make it more usable by scripts etc.<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• options added for customizing the tree in OMERO.web<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• introduced hide-password option in CLI<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• new options added to `omero config`<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• removed deprecated client menu properties<br class="">
<br class="">
Also note that the database upgrade script drops keywords and namespaces from ROIs - see <a href="http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2016-January/003556.html" class="">http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2016-January/003556.html</a>
for further details.
<div class=""><br class="">
Developer updates include:<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• performed major code cleanup<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• major Web API rework<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• adjustment to support the upcoming Java 1.9<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• made python testing package public so it can be used by external clients<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• improved build system integration with local Maven<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• made Scripts repository and official OMERO.web apps pep8 and flake8 compatible<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• removed restriction on name length<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• added support for enumeration changes<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• utils script classes deprecated<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• deprecated shares<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• deprecated search bridges<br class="">
<span class="Apple-tab-span" style="white-space: pre;"></span>• disabled jquery cache<br class="">
<br class="">
Work on the Web API is ongoing and will include moving away from the use of JSONP and introducing Django CORS.<br class="">
<br class="">
Further details are available on the What's New pages for users (<a href="http://www.openmicroscopy.org/site/support/omero5.3/users/whatsnew.html" class="">http://www.openmicroscopy.org/site/support/omero5.3/users/whatsnew.html</a>), sysadmins (<a href="http://www.openmicroscopy.org/site/support/omero5.3/sysadmins/whatsnew.html" class="">http://www.openmicroscopy.org/site/support/omero5.3/sysadmins/whatsnew.html</a>)
and developers (<a href="http://www.openmicroscopy.org/site/support/omero5.3/developers/whatsnew.html" class="">http://www.openmicroscopy.org/site/support/omero5.3/developers/whatsnew.html</a>). <br class="">
<br class="">
The software is available at:<br class="">
<a href="http://downloads.openmicroscopy.org/omero/5.3.0" class="">http://downloads.openmicroscopy.org/omero/5.3.0</a><br class="">
<br class="">
Upgrade information is at <a href="http://www.openmicroscopy.org/site/support/omero5.3/sysadmins/server-upgrade.html" class="">http://www.openmicroscopy.org/site/support/omero5.3/sysadmins/server-upgrade.html</a>.<br class="">
<br class="">
</div>
<div class="">Regards,<br class="">
<br class="">
The OME Team<br class="">
<br class="">
</div>
<br class="">
<div class="">
<div class="">
<div class="">Dr Helen Flynn</div>
<div class="">OME Technical Writer</div>
<div class="">Centre for Gene Regulation & Expression</div>
<div class="">Open Microscopy Environment</div>
<div class="">University of Dundee</div>
<div class=""><a href="http://openmicroscopy.org/" class="">http://openmicroscopy.org</a></div>
</div>
</div>
<br class="">
<br>
<span style="font-size:10pt;">The University of Dundee is a registered Scottish Charity, No: SC015096</span>
</body>
</html>