run_fixing

#!/bin/sh

PREFIX=http://w3id.org/dice-research/enexa/module/kg-fixing/

# If this is a test run
if [ "${TEST_RUN:-false}" = true ]
then  
  # things which ENEXA is supposed to do
  mkdir -p $ENEXA_WRITEABLE_DIRECTORY
  echo "INSERT DATA { GRAPH <$ENEXA_META_DATA_GRAPH> { <$ENEXA_MODULE_INSTANCE_IRI> <${PREFIX}parameter/t-boxFile> <http://ncsr.gr/t-box-filename> . <http://ncsr.gr/t-box-filename> <http://w3id.org/dice-research/enexa/ontology#location> 'enexa-dir://1-ontology_version_1.ttl' }}" \
    |sparql-update "$ENEXA_META_DATA_ENDPOINT"
  echo "INSERT DATA { GRAPH <$ENEXA_META_DATA_GRAPH> { <$ENEXA_MODULE_INSTANCE_IRI> <${PREFIX}parameter/a-boxFile> <http://ncsr.gr/a-box-filename> . <http://ncsr.gr/a-box-filename> <http://w3id.org/dice-research/enexa/ontology#location> 'enexa-dir://example-graph.ttl' }}" \
    |sparql-update "$ENEXA_META_DATA_ENDPOINT"
fi

mkdir -p /tmp/output

java -Xmx220g -XX:-UseGCOverheadLimit -jar NCSR-Module.jar \
    -t "$(enexa-parameter "${PREFIX}parameter/t-boxFile")" \
    -a "$(enexa-parameter "${PREFIX}parameter/a-boxFile")" \
    -o /tmp/output/fixed.ttl \
    -c 

enexa-add-file /tmp/output/fixed.ttl "${PREFIX}result/fixedKG"