oxiqle (OXIgraph-based pangenomic sparQL Endpoint) is a fork of oxigraph that includes rs-handlegraph. The purpose is to make pangenomic GFA-files accessible with SPARQL queries.

Oxigraph is a graph database implementing the SPARQL standard.

When cloning this codebase, don't forget to clone the submodules using git clone --recursive https://github.com/oxigraph/oxigraph.git to clone the repository including submodules or git submodule update --init to add the submodules to the already cloned repository.

Build oxi-handlegraph with:

cargo build --release

Run server:

./target/release/oxigraph_server serve -l <path_to_gfa>

Run query from CLI:

./target/release/oxigraph_server query -l <path_to_gfa> --results-file out.txt --query-file <path_to_sparql_query>

Feel free to ask heringerp for help. Bug reports are also very welcome.

This project is licensed under either of

• Apache License, Version 2.0, (LICENSE-APACHE or http://www.apache.org/licenses/LICENSE-2.0)
• MIT license (LICENSE-MIT or http://opensource.org/licenses/MIT)

at your option.

Unless you explicitly state otherwise, any contribution intentionally submitted for inclusion in Oxigraph by you, as defined in the Apache-2.0 license, shall be dual licensed as above, without any additional terms or conditions.