drpowell / galaxy-fuse

This is not maintained. I recommend using the version from https://github.com/claresloggett/gvl_commandline_utilities

Galaxy-FUSE

Make galaxy history files available via a FUSE layer

This will create a read-only directory to view the files in your galaxy histories. At the moment this is implemented using symlinks to the actual data-set files

Requirements

• pip install --user bioblend
• pip install --user fusepy
• mkdir galaxy-files
• edit your galaxy/universe_wsgi.ini file, and add to the following to the app:main section expose_dataset_path = True

Then run:

./galaxy-fuse.py galaxy-files <your_api_key>

Limitations

• Read-only access
• Histories or data-sets with non-unique names will not work
• No caching of history lookup (ie. stat() call), so can be slow-ish. Caching should be easy to add
• History or data-set names containg a slash (/) are escaped to '%-'