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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 .