OMERO ISCC Service

An automated background service that generates ISCCs for images imported into OMERO.

Overview

This service monitors OMERO for newly imported images and automatically:

• Generates ISCC-SUM fingerprints from the raw bioimaging data
• Stores ISCCs as MapAnnotations on the images

Quick Start

Running All Services (Default)

The simplest way to run all services:

# Start all services (OMERO + ISCC)
docker compose up -d

# Stop all services
docker compose down

Running Services Separately

You can also run the services independently:

# Start only OMERO services
docker compose -f compose.omero.yaml up -d

# Start only ISCC service (requires OMERO network to exist)
docker compose -f compose.omero.yaml up -d  # First ensure OMERO is running
docker compose -f compose.iscc.yaml up -d   # Then start ISCC

# Stop services individually
docker compose -f compose.omero.yaml down
docker compose -f compose.iscc.yaml down

Service URLs

• OMERO API/Insight: http://localhost:4064
• OMERO Web: http://localhost:4080
• Default credentials: username=root, password=omero

Dependencies and related development resources:

• OMERO Server: OMERO (See: Deepwiki)
• ISCC-SUM - Data-Code and Instance-Code implementation: ISCC-SUM (See: Deepwiki)
• OMERO Python Client: omero-py (See: Deepwiki)
• OMERO Example Scripts: omero-scripts (See: Deepwiki)
• OMERO Docker Example: docker-example-omero (See: Deepwiki)
• ISCC-CORE - ISO 24138:2024 reference implementations: ISCC-CORE (See: Deepwiki)

Funding

This work was supported through the Open Science Clusters’ Action for Research and Society (OSCARS) European project under grant agreement Nº101129751.

See: BIO-CODES project (Enhancing AI-Readiness of Bioimaging Data with Content-Based Identifiers).

License

This project is licensed under the Apache License, Version 2.0 - see the LICENSE file for details.