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You are here: Home Community Minutes Conference Calls 2017 2017-01-17 Tuesday Team Meeting

2017-01-17 Tuesday Team Meeting

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

Agenda - 2:00pm Start

  1. Accepting minutes from last meeting

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

    1. Spaces - 14:00 UK

      1. Files/Formats/OME Files (Sebastien)
        1. OME Files 0.3.3
          • first part of the proposed model extension integrated
          • next step will be API addition for creating model objects and registering custom types (e.g. Annotation of type csv, modulo….)
          • Also initiated work on Python bindings for OME Files C++ in the perspective of CMSO meeting at the end of the month
        2. OME Files 0.2.3
          • generally positive reviews on the submitted paper
          • Major requirement are data supporting our “performance” statement.
          • initiated work on measuring performance of OME-TIFF reading/writing using C++/Java
            • Roger: now mostly done, should have comparison before going on leave
          • Jason: modern acquisition systems so complex and varied that map annotations may be the way forward in modeling them
        3. Bio-Formats 5.3.x
          • ongoing improvements/bug fixes for the TIFF writing functionalities including review/expansion of the test coverage
          • proprietary file formats improvements coming from Glencoe and external (Michael Golzer from Leica)
          • preparation of the testing of ome-model 5.4.0: import/export of transforms in Bio-Formats & OMERO
      2. Metadata (Josh)
        1. 0.3.2 going out tomorrow (barring disaster) incl. idr0032
        2. 0.3.3 will likely focus on populate metadata extraction
          • pip installable, targeted annotation deletion (namespace)
          • Eleanor: hoping to get a couple more datasets in
        3. cleanup needed
        4. will in due course need more Bio-Formats help
      3. OMERO 5.3.0 (J-M)
        1. 5.3.0-m7 tagged yesterday
        2. Possible DB change
          • soon finalizing 5.3 DB
          • may be of particular interest to Glencoe
        3. Web API
          • Will: adding URLs for browsing JSON data (navigation, etc.)
        4. New Role
          • Mark: current plan is,
            1. this week: split WriteFile privilege out separately for WriteOfficialScript, also Write privileges out from Delete privileges
              • map OriginalFile.repo into OMERO object model but prohibit changing it
            2. next week: focus on on user management privileges: create group, add to group, etc.
            3. after that work, main remaining themes for 5.3.0 are:
              • block privilege elevation routes, e.g., add friend to system group
              • provide IObject.can* methods so clients know user's powers
            4. probably push into 5.3.x:
              • import into other groups
                • some of the new roles integration tests rely on this and would thus be broken in the interim
              • client UI work
            5. probably push beyond 5.3.x:
              • restrictions such that user's powers are even less than that of the user to whom they sudo'd
                • e.g., sudo to a normal user to import for them but then cannot delete their data
              • retention of privileges even after sudo'ing to less powerful user
                • possibly a bad idea anyway
          • Mark: given availability from others, could at short notice hand off writing of integration tests
          • Jason: is reasonable to expect some intelligence and responsibility from users
      4. Outreach
        • Jean-Marie: people off to Texas
        • Jean-Marie: need to fix a date for summer training in Cambridge
    2. Other releases/upgrades - 14:22 UK

      1. Figure
        1. "compiled" code no longer on gh
      2. iviewer
        1. "compiled" code no longer on gh
      3. Learning
      4. Sysadmin
        1. Josh: Ansible/Galaxy strategy (social media coming)
          • following restructuring PR only playbooks in repository, your roles should be off in other repositories
        2. Kenny: demo server isn't allowing saving tags
        3. to discuss plans for nightshade
      5. Website redevelopment/redesign (Liza)
        • no update until mid-February
      6. Smuggler (Montpellier)
    3. Glencoe Update (Chris) - 14:28 UK

      • working with opensource web team to get PRs merged
      • mostly fixed issues with TIFF writing, outstanding issues with many-channel BigTIFF
      • work on read-only server infrastructure
  3. AOB (5 mins max - technical discussions should be highlighted to relevant people and rescheduled) - 14:30 UK

    • OMERO code issues reported by AppChecker
      • Jean-Marie: list a couple in each standup
  4. Jason year overview (20-25 minutes plus 15 mins questions) - 14:32 UK

    • comments welcome

Done 15:42 UK

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