OMERO-Bifrost

Bifrost bridge for large-scale transfer of bioimage data using an OMERO server. A simplified Python CLI tool and package to transfer image data/metadata from and to an OMERO server.

Requirements

• Python 3.8
• typer 0.9.0
• rich 13.5.2
• zeroc-ice 3.6.5
• omero-py 5.13.1 (downgraded from 5.15.0 given ezomero 2.1.0 requirements)
• omero-upload 0.4.0
• ezomero 2.1.0

Install with PyPI

pip install omero-bifrost

Usage

Type omero-bifrost --help to see the full range of commands and subcommands.

Development notes

To install packages in requirements.txt in the current conda env.:

pip install -r requirements.txt

To test package, install using pip:

pip install -e .