2018-06-05

Dundee: Kenny, Will, Dominik, Roger, Mark, Riad, June,

Remote: Josh, Sebastien, Emil, Melissa, David, Andreas, Chris

Start: 2:00 pm

1. Accepting minutes from last meeting

2. Project Status

(2-3 minutes each)

• West

  • Figure design issue:

    https://github.com/openmicroscopy/design/issues/96

    • Ongoing discussion…
  • IDR discussion: investigating Janelia Dataset using KLB reader

• East

  • General cleaning/finishing post users meeting

    • Josh: need to solidify and figure out what to release & when

      (before July leave)

  • HPA (Dom): More antibodies uploaded.

    • Many iterations coming: 200TB. (20 batches of 8 TB)

    • Need to split between all team members - training set.

• Glencoe

  • OME meeting follow-ups…

  • Glencoe meet-up next week to discuss future work.

• Community

  • J-M, Petr at Elmi

  • EMBRC/IDR meeting funded by CORBEL (Seb)

    • Marine biology community, discussing repo with metadata etc.

    • Want something similar to IDR but not all features.

  • HCA/SpaceTX (Josh)

    • Will cc IDR project in discussions of SpaceTX (json + TIFFs)

1. AOB

(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled)

1. Main Topic: Users’ Meeting and Beyond

(20-25 minutes plus 15 minutes questions max)

• Jason: Thanks to all. Lots of work. And Congratulations.

• Lots of new faces at the meeting.

• Roger: discussions with Damir (formats) and Curtis (ImageJ).

• Mark: added comments to Trello. Everyone seemed well-versed in OMERO

  (not newbies).

• Will: figure discussions (see above)

• June: lecture-theatre issues.

  • Last-minute requests for airport transfers

• Single-track Metadata workshop work OK?

  • Josh: experienced devs knew about import already.

  • Riad: some newbies needed intro to OMERO

  • Jason: parade was new to all

• Seb: newbies asking for workshops.

  • New users might start working with us

• Josh: Good meeting overall.

  • Better support for devs: Docs, JSON API, ‘what OMERO does’ page

    etc.

  • Need to get ready for multiple-storage: SSBD, figure,

    elasticsearch etc.

• Emil: we have “what is OMERO” videos from webinars.

• Melissa: very positive feedback. People wanting more engagement.

• David: lots of positive feedback. Impressed by breadth of what we’re

  working on

• Chris: as above, need to improve awareness of everything we’re doing

  (marketing).

  • Need domain-specific use-cases etc. Not just feature lists.

  • What do we do if we get another 20 users at the meeting?

  • Requests for more complex workflows and assistance, e.g. WSI

    workshop.

• Jason: long metadata workshop was my idea - too warm (poor air-con

  etc)

  • Do we do this again? Lots to sit through.

  • Lots of notes to follow-up. How much do we put in?

  • E.g. Riken users would like us to visit Japan (e.g. 4 of the

    team)

  • Hajo/Erasmus as source of digital pathology data/workflows

  • Need to define the “definitive way to connect IJ with OMERO”

  • Lots of opportunities for follow-ups & connections between

    us/users or between users.

  • Josh: how to get users to push code etc?

  • Jason: the bar is quite high.

• Kenny: positive feedback on our Install Docs.

  • Lots of dev-ops questions instead of “how to install”.

  • Backups, etc.

  • No immediate negatives

  • Users happy to see Ansible work at workshop

  • Migrate internal training (SC) to the org.

• Mark: Day 1 talks good.

  • Jason: Short talks worked out well

  • Improve gender balance

  • Send more reminders.

• Riad - do we have repo of everyone using OMERO?

• Seb: most of the talks presentations have been sent & put on

  website.

• Jason: we’ll promote everything there when complete

• Mark/Josh: 3rd day - some confusion about schedule: which rooms /

  workshops.

  • Defining the single organizational structure up front

  • Didn’t assign tasks very well across the team.

  • Nor single touching of base (“standup”)

  • Roger: Schedule sheet (paper) was OK but not easy to find. Use

    poster board.

  • Jason: locked doors inconvenient

  • June: hard to schedule when many are leaving at different times

    for flights.

  • Jason: if we want better-organised day-3, needs more preparation

    work.

  • Seb: difficult to plan since we don’t know what Users want ahead

    of time. Balance is important.

  • Mark: OME team member to chair discussion so all are heard.

  • Roger: WSI meeting was very broad. Jason: “community-driven”.

  • Roger: sign-up for topics could include “who I’d like to talk

    to”

  • Jason: could do full “un-meeting” but needs prep etc.

    • Bandwidth limited for planning day-3.

  • Team members more visually distinct

  • Lanyards / Shirts etc.

  • Introduce the team at start.

  • June: add into printed Programme: Ask X about X,Y, Z.

  • Josh: whiteboard sessions for people looking to integrate

  • Chris: by end of meeing, Users know who’s who, but not at start.

• Jason:

  • Over summer - fix docs and showcase our stuff better

  • Lots of places running OMERO but not many users.

  • Need to convince users to get started.

  • Tools for monitoring systems. E.g. numbers of logins.

  • Import: performance improvements.

  • Export: liked Alex’s ‘in-place export’ idea. Something to look

    at.

  • “Added value”: cf Suzanne’s metadata work

  • Docs: what is the right way to work with IJ, CellProfiler, Knime

    etc?

  • See Allen Cell explorer for ideas on docs / website.

    • https://www.allencell.org/programmatic-data-access.html

  • Parade: Welcome “added value” app.

  • Despite deficiencies, we have a stack that works.

  • Need discipline to focus on added value.

  • Will: drive more workshops at places where users are ready to

    get started.

  • Jason: over summer - need to keep IDR imports going.

  • Discussion on import - user’s impression of import of some files

    taking too long.

  • Feedback on binary vessels.

  • “I didn’t know you supported Dicom” - marketing issue.

    • Chris: breakdown file formats by domain: WSI, HCS, others

      etc.

    • Jason: sections for the website. “Solutions for digital

      pathology, high-content…”

    • Chris: not obvious to new users that Bio-Formats is used in

      OMERO.

    • Kenny: short tweetable videos?

    • Jason: videos are good but take time etc.

    • Will: see David Mason’s tweets on Day-2. Short gifs can show

      a lot.