• python == 3.8.5
• torch == 1.8.1
• numpy == 1.19.2
• pandas == 1.0.1
• tqdm == 4.61.0
• groovy == 4.0.0
• JVM == 1.8.0_333

Download and unzip YAGO4.zip from here, and replace

./data/YAGO4/input/

Download the following files: T, A_ee, A_ec1, and A_ec2

Unzip the files to:

./data/YAGO4/raw/

Run all cells in:

./code/ppc_YAGO4/raw2mid.ipynb
./code/ppc_YAGO4/ppc.ipynb

Download and unzip DBpedia.zip from here, and replace

./data/DBpedia/input/

Download the following files: T, A_ee, and A_ec

Unzip the files to:

./data/DBpedia/raw/

Run all cells in:

./code/ppc_DBpedia/raw2mid.ipynb
./code/ppc_DBpedia/ppc.ipynb

Download and unzip GO.zip from here, and replace

./data/GO/input/

Download the raw data here and unzip it to:

./data/GO/raw/

Generate axioms using:

groovy ./code/ppc_GO/GetOntology.groovy ./data/GO/raw/data-train/yeast-classes.owl > ./data/GO/raw/ontology.txt

Generate intermediate data using:

cd ./code/ppc_GO/ && python raw2mid.py

Run all cells in:

./code/ppc_GO/ppc.ipynb

To reproduce the main results, simply run the following commands:

python TAR.py --dataset YAGO4
python TAR.py --dataset DBpedia
python TAR.py --dataset GO