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You are here: Home Community Minutes Conference Calls 2015 2015-10-06 Tuesday Team Meeting

2015-10-06 Tuesday Team Meeting

Dundee: Kenny, Mark, Dominik, Gus, June, Jean-Marie, Simon, Simone, Will, Helen, Roger, Ola, Jason Remote: Sebastien B, Ian, David, Melissa, Josh M, Colin, Emil, Eleanor

Agenda - 2:30pm Start

  1. Accepting minutes from last meeting

    • accepted
  2. Project Timelines (2-3 minutes each)

    1. OMERO - 14:33 UK

      1. 5.2.0
        • Ola: opened PR to remove Django from OMERO release and have people install it with pip
          • breaking change requiring extensive web client testing, will discuss with Petr next week
            • Sebastien B: first try to get automated testing passing against it, integration and robot framework; will discuss
          • maybe in future have OMERO run inside virtualenv
        • Jean-Marie: managed to connect to server with Ice 3.6, still mapping issues to be resolved after IDR demo
          • not aiming for official support for 5.2, but still need to get it solid
        • Jean-Marie: jsTree, etc., all going to plan
        • Sebastien B: m1 now tagged, explained in previous e-mail, jsTree work could be demoed
      2. Regions v2 (Josh M)
        • Josh M: probably kicking off again next week
        • Roger: has work currently blocked on Mark’s PR
    2. Bio-Formats - 14:41 UK

      1. Java
        • Melissa: on schedule for 5.1.5 next week
      2. C++
        • Roger: 5.1.4 released today, announced on mailing lists, moderation willing
          • further super-build work coming in 5.1.5
      3. Datasets / New formats
        • Josh M: IDR work was affected by known issues
    3. Glencoe Update - 14:42 UK

      • Jason: imminent webinar
      • Emil: starting to move deployments to 5.1.4
      • Emil: working on digital pathology file formats
      • Jason: “OME-HDF” interest growing, will need thought
        • actually now seeing real-world data that is relevant
        • Jean-Marie: interesting to compare with other containers
    4. Repositories - 14:48 UK

      1. Virtual Microscope/teaching
        • Ola: 5.1.4 upgrade done
        • Sebastien: plans in Edinburgh to use OMERO in teaching
      2. IDR Project
        • Josh M: yesterday’s testing had problems, probably mostly caching issues
          • need to increase our experience of large datasets
        • Josh M: punted on a few datasets, and a few are partially imported, still good to have all the data in one place
        • Jean-Marie: no big crashes
    5. FLIMfit/OPT (Ian) - 14:53 UK

      • local server upgrade
    6. Other consortium timelines (5 minutes) - 14:54 UK

      • none
  3. AOB (5 mins max - technical discussions should be highlighted to relevant people and rescheduled) - 14:54 UK

    • Send out email reminder with meeting URL
    • Jean-Marie: will e-mail nightshade-support with workaround to black thumbnail problem
    • June: Seeing is Believing is this week, Mark is away next week
    • Jason: OSAR meetings are being scheduled
    • Jean-Marie: running workshop / drop-in sessions locally
  4. 5.2.0-m1 Demo and discussion of next steps (Will) - 14:57 UK

    • with new jsTree work, data transferred in JSON then turned to HTML in JavaScript
      • required extensive changes as much code is driven by the tree
    • JSON APIs not really exposed, but web client uses them to query server more efficiently
    • new PR is corresponding work for center panel, populating it from the data in the tree instead of separate queries
      • yet existing functionality retained
      • do need the sizes to specify dimensions of zoomed thumbnail, so that is slightly more loaded into the tree than it needs
      • tree data also now includes thumbnail versions, for detecting when to show new rendering settings
    • still a little more work on queries arising from collaboration with Douglas (HMS)
    • Jean-Marie: also right-hand panel needs redesign for IDR
      • Jean-Marie: some good performance work already done
      • Gus: plan is to change right-hand panel so data is loaded on demand (e.g., expand the collapsed section) instead of eagerly
      • Jean-Marie: many people do not much look at the right panel, they use filtering instead
      • comments welcome
    • Jean-Marie: considering API for listing ROIs in containers, question of how people may want to navigate them; also annotations on ROIs
    • Jason: ROI folders/containers come up a lot
      • Jean-Marie: e.g., ROIs divided into sets according to stage of instructional course

Done 15:19 UK

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