OntoDev Demo

A demonstration of the OntoDev Suite of ontology development and data integration tools.

Overview

• src/tables/ contains the project data
  • strain.tsv lists 10,000 (fictional) rodent strains
  • assay.tsv demonstrates basic validation
  • prefix.tsv declares namespaces to use throughout
  • table.tsv, column.tsv, datatype.tsv configure VALVE
  • import_config.tsv, import.tsv configure Gadget
• Makefile configures various build tasks
• Dockerfile configures a portable Docker image

Online Development with DROID

https://droid.ontodev.com/ODD

DROID is our web-based workflow execution tool. You can look around, but to do anything very interesting, you need write permissions on this GitHub repository. Contact james@overton.ca with your GitHub username to request access.

Local Development with Docker

This demonstration requires a range of different software that can be difficult to install. We provide a Docker image to take care of those installation details. You should be able to git clone this repository and then execute development tasks inside a Docker container. The run.sh script tries to make this even easier:

• ./run.sh

The run.sh is Unix-specific, but Docker shoud work the same under Windows.

The Dockerfile is probably specific to x86 CPU architectures. We would like to support arm64 -- help would be appreciated!

Development Tasks

TODO: See the Makefile for now.