omero-integration
Inspects and automates microscopy data workflows against OMERO.server with omero-py, BlitzGateway, OMERO CLI, tables, annotations, ROIs, rendering, and documented OMERO.web APIs. Use this skill for scoped OMERO inventory, metadata export, import/export planning, or reviewed write workflows.
- Version
- 1.6
- License
- MIT
- Compatibility
- Requires network access to a user-selected OMERO.server for remote operations. The server-tested snapshot uses OMERO.py 5.22.1 with ZeroC IcePy 3.6.5; OMERO supports Python 3.10-3.12 (3.12 recommended) while 3.13-3.14 remain upcoming in its support matrix. Bundled local planners require Python 3.10+ and read only named OMERO_* variables; they never load .env files.
Pinned to revision 92ace75ac21e, so it is the text this page describes rather than whatever the author pushed since.
Files
- skills/omero-integration/SKILL.md
- skills/omero-integration/references/advanced.md
- skills/omero-integration/references/connection.md
- skills/omero-integration/references/data_access.md
- skills/omero-integration/references/image_processing.md
- skills/omero-integration/references/metadata.md
- skills/omero-integration/references/rois.md
- skills/omero-integration/references/scripts.md
- skills/omero-integration/references/sources.md
- skills/omero-integration/references/tables.md
- skills/omero-integration/scripts/export_image_metadata.py
- skills/omero-integration/scripts/inventory.py
- skills/omero-integration/scripts/omero_common.py
- skills/omero-integration/scripts/plan_transfer.py
- skills/omero-integration/scripts/validate_config.py
Every link opens the file at its source, pinned to the revision this page describes.