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You are here: Home Community Minutes Conference Calls 2017 2017-08-08-tuesday-team-meeting


Dundee: Petr, Kenny, Roger, J-m, Helen, Jason, Dom, June, Simon, Simone, Balaji, Riad Remote: Josh, Wilma, Melissa, Eleanor, Chris, Liza, David

Remember: Agenda must be complete (with estimated times) on the day before the meeting. Any additions after that must go at the bottom (AOCB)

  1. Accepting minutes from last meeting

  2. Project Timelines (2-3 minutes each)

    1. Spaces

      1. Files/Formats/OME Files
        • Bio-Formats 5.6.0:
          • milestone m2: code changes integrated, artifacts built
          • pushed out of m2 imagej slice label extension still requires decisions
          • still targeting next week for the release of 5.6.0
        • OME Files
          • OME Files Python bindings now using pybind11 to wrap C++ code
          • benchmark: investigation of performance issues when writing tiles on Java
      2. Metadata (Eleanor)
        • prod42 went out today (after all the heroics over the last weeks)
        • Updating to OMERO 5.3 and adding all cell lines
        • prod43 in planning. Largely bug fixes.
        • as well as splitting idr0016
        • Larger ROI/folders target.
        • J-m: design info probably still in gdocs.
        • Balaji: currently using idr-next but will need to update to
        • Using new repository for library methods
        • J-m made it pip installable
        • Need to also make code portable to Py3
        • IDR paper is now openly available/indexed (took some work)
      3. OMERO 5.4.0
        • J-m: bug fixing & Petr testing for Mark’s return
        • Targeting m3 tomorrow (some small changes in release)
        • Another milestone the following week.
        • Freeze? 1 DB change coming, but for other fixes? Depends on size of fix.
        • J-m: need to consider the ReverseIntensity renaming.
        • Keep an eye out for any travis repos that are having trouble.
        • JRS: still deciding on what’s going in?
          • Concurrency need Mark’s review
          • Otherwise, light admin seems stable
            • web UI PRs done
            • one small insight issue that Dom should be able to fix.
      4. Outreach
        • Stephanie/Düsseldorf off at the moment; Petr to visit 30th Aug.
        • Cambridge workshop (Dec.) discussed; start targeting after 5.4
        • JRS invited to talk at ASCB & Neubias (Feb/2018)
        • Simon going to BigData @ EBI
        • Seeing is Believing @ EMBL
    2. Other releases/upgrades:

      1. Plugins (J-m)

        • fpbioimage 0.2.0 released
        • Ongoing work on iviewer
      2. new website (Liza)

        • Weekly meeting on Monday to review/triage issues. Working on cleanup post deployment (redirects, docs, styles)
        • Issues with legacy documentation URLs (breadcrumbs, www-legacy URL). Proposal to redirect all site/support URLs to the corresponding this week when possible (incl. OMERO 5.1+ and Bio-Formats 5.3+)
        • Chris: discussed impact of www-legacy on Google search results, etc. Plan now on trello card. Deprecate and remove (with redirects) www-legacy ASAP.
        • JRS: several compliments
      3. Sysadmin (current board and recent PRs)

        • QA upload issue with proxying fixed last week
        • Looking to use Roger’s CI’s work on bare metal
    3. Glencoe Update (Chris)

      • Making progress (UI/infrastructure) on analysis front
      • Using microservices in anger on demo systems
        • requesting thumbnails & tiles
        • working on omero-ms-pixelbuffer directly from the filesystem (mini-OMERO servers)
        • perhaps time to push some of the APIs down
        • J-m: cF. various needs of the 3D viewer
  3. AOB (5 mins max - technical discussions should be highlighted to relevant people and rescheduled)

    • Bye, Simone!
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