v1.5.0

What's Changed

Subcomponent Updates

• BIOMERO.analyzer & BIOMERO.scripts: v2.5
• OMERO Zarr Pixel Buffer: v0.6
• OMERO.BIOMERO: v1.3

Major Feature

• Zarr v2 (OME-NGFF 0.4) workflow support
  • Workflows can now accept Zarr images and Zarr plates as input
  • Zarr outputs (including label images) are imported back into OMERO via BIOMERO.importer
  • Requires a connected BIOMERO.analyzer + BIOMERO.importer setup

UI Improvements

• Separate Image and Plate tabs with dedicated data selectors
• Admin UI enhancements:
  • Zarr workflow toggles
  • Workflow type indicators (icons)
  • GitHub parsing improvements (auto-name extraction)
  • Version check support
• More informative workflow submission toaster (the green popup)

Configuration Changes

• OMERO session timeout

  • Ensure long-running workflows are not interrupted (data loss & costs)
  • Set:

    CONFIG_omero_sessions_timeout: ${OMERO_SESSIONS_TIMEOUT}
    

  • Recommended: match OMERO_SCRIPTS_TIMEOUT (e.g. 7 days / 604800000)
  • See: https://forum.image.sc/t/omero-script-session-killed-when-browser-session-times-out/120483
  • Also added UI warning: ⚠ Do not log out or close this browser tab.

• SLURM accounting query scope

  • New options:
    • BIOMERO_SACCT_START_DAYS_AGO
    • BIOMERO_SACCT_START_TIME
  • Limits sacct queries to recent jobs (default was 2023-01-01)
  • Can also be configured via slurm-config.ini

Other

• Added official BIOMERO icon for UI/display use:

  <img src="https://raw.githubusercontent.com/NL-BioImaging/OMERO.biomero/refs/tags/v1.2.1/webapp/src/img/biomero-logo.svg" alt="BIOMERO" height="16" align="absmiddle"> BIOMERO 2.0

PRs

• Dev new pixel buffer by @folterj in #18
• Zarr UI by @TorecLuik in #16

Full Changelog: v1.4.0...v1.5.0
BIOMERO.analyzer: NL-BioImaging/biomero@v2.3.0...v2.5.3
BIOMERO.scripts: NL-BioImaging/biomero-scripts@v2.3.0...v2.5.3
OMERO.biomero: NL-BioImaging/OMERO.biomero@v1.2.1...v1.3.2