README.md

OmeroExtractor

Tool to extract Meta Data from OMERO.Server by merging OMERO.Web JSON Api output with original meta data available and setting context.

how to use

create a .env file with

APP_PORT=<80>
ADMIN_MAIL=<email_of_admin>
OMERO_WEB_PUBLIC_USER=<publicuser>
OMERO_WEB_PUBLIC_PASSWORD=<matolab>

docker

Just pull the docker container from the github container registry

docker pull ghcr.io/mat-o-lab/omeroextractor:latest

docker-compose

Clone the repo with

git clone https://github.com/Mat-O-Lab/OmeroExtrator

cd into the cloned folder

cd OmeroExtrator

Build and start the container.

docker-compose up

A simple UI can be found at at the index page '/' The API documentation at 'api/docs'

generates ome ontology

Uses xsd2owl to generate ome.xml (Owl)

generate

removed many axioms generated