2017-10-17

Dundee: Will, Petr, Kenny, Simon, Helen, Balaji, Mark, Dominik, Jason, June, Roger, Riad,

Remote: Sebastien, Liza, Eleanor, Wilma, Emil, Andreas

Start: 2:00 pm

1. Accepting minutes from last meeting

2. Project Timelines

(2-3 minutes each)

A. Spaces

• Files/Formats

  • Priority is now training material preparation

  • No releases planned

  • FLIM-FRET data received by IDR - old ome.tifs (2008 schema)

• Metadata

  • FLIM-FRET dataset had problems - v. old ome.tifs open in ImageJ.

    • Imported OK but time dimension lost.

    • From LAvision software

  • Other submissions ongoing

    • Light-sheet data imported and annotated.

    • Nearly ready to create DOI

  • Met with Cambridge data manager - proposed to submit Zebrafish &

    in-situ data.

  • Balaji: Simon’s PR checks status of all notebooks.

    • Few found to be broken. Will be moved out of IDR-notebooks

      or fixed

    • Feature calculation prototype. Now using restricted feature

      space calculation.

    • Linking to GO ontology.

  • Jason: external interest in setting up own ‘IDR’ instances.

    • Need to work on versioning - ensure this is working for

      external users

• OMERO 5.4.1

  • Quieter now. Backlog of a few PRs

    • Fixing tests

  • Big Chown data on nightshade: Can be halted by Script Jobs.

• Outreach

  • Remember to register for the GRE Symposium this week if you want

    to go.

  • Jason & Simon going. Simon doing talk on IDR. Also IDR poster.

B. Other releases/upgrades:

• Figure - Big Images PR in progress.

• iViewer

• New website

  • Small fixes only.

  • Training prep - looking at future hosting of training materials

• Sysadmin

  • Nightshade upgraded to 5.4.0.

  • Certificate upgrade in few days time - not disruptive.

    • Not scheduled. May use Ansible to automate

• Jason: GIS Dolphin tracking - south atlantic research institute.

  • Falklands image PixelData OOM: server problem?

  • Kenny: not specifically - possibly file or pyramid generation

    issue.l

C. Glencoe Update (Chris)

• More microservices work.

• OMERO 5.3.x image-region microservice.

• PR - new service for Lookup-Tables. Better performance, caching etc.

• In prep - PR for thread usage in servers using many cores to improve

  handling of images with many channels. Implement core thread pool for rendering engine.

  • Jason: would be relevant for the imaging mass spec images in IDR

1. AOB

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

1. Main Topic

(20-25 minutes plus 15 minutes questions max)