2020 11 10 | Open Microscopy Environment (OME)

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margin-left: 10px;">Explore</a></li> <li class="show-for-small-only"><a href="/explore/">Explore</a></li> </ul> </div> </div>  <a name="top-of-page"></a>  <div class="callout large primary" id="bg-image-announcements"> <div class="row column text-center"> <h1>2020 11 10</h1> <p></p> </div> </div> <hr class="invisible"> <div class="text-center"> <a id="back-to-top" href="/announcements/"><i class="fa fa-arrow-left"></i> back to Announcements</a> </div> <hr class="invisible"> <div class="row"> <div class="columns"> <h1 id="2020-11-10">2020-11-10</h1> <h2 id="attending">Attending:</h2> <p>Will, Petr, Sebastien, Frances, Jean-Marie, Dominik, Josh, Jason, Simon, June, Wilma, Andreas, Erin, Kevin, Melissa, Chris, Emil,</p> <p>Start: 2:00 pm UK</p> <h2 id="accepting-minutes-from-last-meeting">Accepting minutes from <a href="https://github.com/ome/meeting-minutes"><u>last meeting</u></a></h2> <h2 id="project-status">Project Status</h2> <p>(2-3 minutes each)</p> <ul> <li>IDR <ul> <li>Next release: <ul> <li>idr0088 - compound screen - some issues</li> <li>idr0095 - rendering ongoing</li> </ul> </li> <li>Josh: aiming for 2 releases before end of year (this one plus one more)</li> <li>Seb: new screen reader fix coming soon</li> </ul> </li> <li>NGFF <ul> <li>HCS Status <ul> <li>Updated HCS metadata good to go - merge PRs etc.</li> <li>Acquisition re-think (container vs metadata) <ul> <li>Hierarchy in ome-zarr (currently) vv not hierarchy in OMERO.</li> <li>What do we want to show in clients? Hierarchy?</li> <li>Propose staying close to OMERO model initially</li> </ul> </li> </ul> </li> <li>I2K Status - chat last night <ul> <li>Tabular additions if possible for labels</li> <li>Shortcuts if necessary - e.g. Mobi talking to n5</li> <li>NB: EOSC & openscreen interest. Looking at our links</li> </ul> </li> <li>Metadata and Beyond <ul> <li><em>After</em> plate and tabular data</li> <li>BioHackathon Europe 2020 (cf. https://dev.idpcentral.org/registry)</li> <li>BioSchemas & Google Search-indexing <ul> <li>production: Organism, Gene, Compound</li> <li>draft: <a href="https://bioschemas.org/profiles">Phenotypes</a></li> <li>Not yet: Cell Line</li> </ul> </li> </ul> </li> <li>J-m: re: derived labels. Try to engage with RIKEN regarding BDML format within OME-Zarr. JRS: in the process of setting up a call to discuss with them.</li> </ul> </li> <li>Releases <ul> <li>N/A</li> </ul> </li> <li>SA <ul> <li>Issues with a PNG on Nightshade - Seb: BF fix</li> <li>Need to schedule downtime to upgrade.</li> <li>Seb: need someone to lead the upgrade</li> </ul> </li> <li>Glencoe <ul> <li>More masks and conversions progress</li> <li>Dealing with large numbers of masks</li> <li>Looking at HCS support in bioformats2raw</li> <li>Adding keys to labels for improved visualising, e.g. min/max values</li> <li>Seb: seen https://github.com/ome/ome-zarr-py/issues/60? Not yet.</li> </ul> </li> <li>Community <ul> <li>Workshops listed in ‘ome’ calendar</li> <li>June: looks good</li> <li>4DN calls scheduled (see e-mails)</li> <li>Jason: OME joining 4DN project and Sanger project <ul> <li>setting up slacks, wikis etc. Will invite OME team.</li> </ul> </li> <li>June: virtual frontiers meeting RMS clashes with team meeting 1pm on 17th.</li> <li>Jason: Move to 2pm or 3pm on Thurs? TBD</li> </ul> </li> </ul> <h2 id="aob">AOB</h2> <p>(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled)</p> <h2 id="main-topic">Main Topic</h2> <p>(20-25 minutes plus 15 minutes questions max)</p> </div> </div> <div class="row"> <div class="column"> <p class="text-right"> — <i></i> </p> </div> </div>   <div class="text-center"> <a id="back-to-top" href="#top-of-page"><i class="fa fa-arrow-up"></i> back to top</a> </div>  <hr class="whitespace"> <div id="footer" class="callout large secondary"> <div class="row"> <div class="small-12 medium-4 columns"> <div class="medium-4"><a href="/index.html"><img class="footer-logo" src="/img/logos/ome-main-nav.svg" alt="OME logo" /></a></div> <p>© 2005-2024 University of Dundee & Open Microscopy Environment. <a href="https://creativecommons.org/licenses/by/4.0/" target="_blank">Creative Commons Attribution 4.0 International License</a></p> <p>OME source code is available under the <a href="https://www.gnu.org/copyleft/gpl.html">GNU General public license</a> or more permissive open source licenses, or through commercial license from <a href="https://www.glencoesoftware.com" target="_blank">Glencoe Software Inc.</a><br/>OME, Bio-Formats, OMERO, IDR and their associated logos are trademarks of <a href="https://www.glencoesoftware.com" target="_blank">Glencoe Software Inc.</a>, which holds these marks to protect them on behalf of the OME community.</p> <p class="tiny-print" style="float:left;">[ <a href="/site-map/">Site Map</a> ]</p> <p class="tiny-print" style="float:right;">Version: 2024.11.21</p> </div> <div class="medium-2 columns"> <h6>Learn About Us</h6> <ul class="menu vertical"> <li><a href="/about/">Who We Are</a></li> <li><a href="/teams/">Our Team</a></li> <li><a href="/explore/">What We Can Do</a></li> <li><a href="/news/">What We’re Up To</a></li> <li><a href="/events/ome-community-meeting-2024/">OME 2024</a></li> <li class="hide-for-large-only"> </li> </ul> </div> <div class="medium-2 columns"> <h6>Try Our Products</h6> <ul class="menu vertical"> <li><a href="/omero/downloads/">OMERO <span class="badge">Download</span></a></li> <li><a href="/bio-formats/downloads">Bio-Formats <span class="badge">Download</span></a></li> <li><a href="/ome-files/downloads">OME Files <span class="badge">Download</span></a></li> <li class="hide-for-large-only"> </li> </ul> </div> <div class="medium-2 columns"> <h6>Knowledge Base</h6> <ul class="menu vertical"> <li><a href="/support/">Support</a></li> <li><a href="/docs/">Documentation</a></li> <li><a href="https://omero-guides.readthedocs.io/">User Guides</a></li> <li><a href="https://www.openmicroscopy.org/forums">Forum</a></li> <li><a href="https://www.openmicroscopy.org/security/advisories/">Security Advisories</a></li> <li class="hide-for-large-only"> </li> </ul> </div> <div class="medium-2 columns end"> <h6>OME Public</h6> <ul class="menu vertical"> <li><a href="https://twitter.com/openmicroscopy" target="_blank"><i class="fa fa-fw fa-twitter"></i> Twitter</a></li> <li><a href="https://www.linkedin.com/company/ome---open-microscopy-environment" target="_blank"><i class="fa fa-fw fa-linkedin"></i> LinkedIn</a></li> <li><a href="https://www.facebook.com/openmicroscopy" target="_blank"><i class="fa fa-fw fa-facebook"></i> Facebook</a></li>  <li><a href="/on-the-web/" target="_blank"><i class="fa fa-globe"></i> On the Web</a></li> <li class="hide-for-large-only"> </li> </ul> </div> </div> </div> <script src="https://code.jquery.com/jquery-2.1.4.min.js"></script> <script src="/js/vendor/jquery.js"></script> <script src="/js/vendor/what-input.js"></script> <script src="/js/vendor/foundation.js"></script> <script src="/js/app.js"></script> <script src="/js/responsive-tables.js"></script> <script> $(document).foundation(); try { // helper function to filter out empty paths (trailing slash) var omitEmpty = function(el) { return el.trim() !== ''}; // extract last path bit from url var paths = document.location.pathname.split('/').filter(omitEmpty); var path = paths[paths.length-1]; // helper function to find and set active option var setActiveNavOption = function(el) { var subPaths = el.href.split('/').filter(omitEmpty); var subPath = subPaths[subPaths.length-1]; if (subPath === path) { $(el).addClass('is-active'); return true } return false; } // check if we have a .header-subnav match? var hasSubMenu = false; $(".header-subnav li a").each(function(i, el) { var isMatch = setActiveNavOption(el); if (isMatch) { hasSubMenu = true; return false; } }); // find corresponding path bit for .menu-subnav option if (hasSubMenu && paths.length > 1) { var parentPath = paths[paths.length-2]; if (parentPath !== 'omero') path = parentPath; } // set .menu-subnav option $(".menu-subnav li a").each(function(i, el) { if (setActiveNavOption(el)) return false; }); } catch(ignored) {} </script> </body> </html>

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2020 11 10 | Open Microscopy Environment (OME)