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relation-diff.yml
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name: Relation diff
on:
workflow_dispatch:
jobs:
reason_pr:
runs-on: ubuntu-latest
container: obolibrary/odkfull:${{ vars.ODK_VERSION }}
steps:
- uses: actions/checkout@v3
- name: Run relation-graph
run: cd src/ontology; ROBOT_JAVA_ARGS=-Xmx14G robot merge --catalog catalog-v001.xml -i go-edit.obo -o go-merged.ofn; JAVA_OPTS=-Xmx14G relation-graph --ontology-file go-merged.ofn --mode RDF --output-file go-rels.nt --output-subclasses true --reflexive-subclasses false --equivalence-as-subclass false; sed 's/ /\t/' <go-rels.nt | sed 's/ /\t/' | sed 's/ \.$//' >right.facts
- name: Upload PR facts
uses: actions/upload-artifact@v4
with:
name: right.facts
path: src/ontology/right.facts
retention-days: 1
reason_master:
runs-on: ubuntu-latest
container: obolibrary/odkfull:${{ vars.ODK_VERSION }}
steps:
- uses: actions/checkout@v3
with:
ref: master
- name: Run relation-graph
run: cd src/ontology; ROBOT_JAVA_ARGS=-Xmx14G robot merge --catalog catalog-v001.xml -i go-edit.obo -o go-merged.ofn; JAVA_OPTS=-Xmx14G relation-graph --ontology-file go-merged.ofn --mode RDF --output-file go-rels.nt --output-subclasses true --reflexive-subclasses false --equivalence-as-subclass false; sed 's/ /\t/' <go-rels.nt | sed 's/ /\t/' | sed 's/ \.$//' >left.facts
- name: Upload PR facts
uses: actions/upload-artifact@v4
with:
name: left.facts
path: src/ontology/left.facts
retention-days: 1
merge_ontology:
runs-on: ubuntu-latest
container: obolibrary/odkfull:${{ vars.ODK_VERSION }}
steps:
- uses: actions/checkout@v3
- name: Create merged ontology
run: cd src/ontology; ROBOT_JAVA_ARGS=-Xmx14G robot merge --catalog catalog-v001.xml -i go-edit.obo -o go-merged.ttl; riot --output=ntriples go-merged.ttl | sed 's/ /\t/' | sed 's/ /\t/' | sed 's/ \.$//' >ontrdf.facts
- name: Upload ontrdf facts
uses: actions/upload-artifact@v4
with:
name: ontrdf.facts
path: src/ontology/ontrdf.facts
retention-days: 1
diff:
needs:
- reason_pr
- reason_master
- merge_ontology
runs-on: ubuntu-latest
container: obolibrary/odkfull:${{ vars.ODK_VERSION }}
steps:
- uses: actions/checkout@v3
- name: Download master relations
uses: actions/download-artifact@v4
with:
name: left.facts
path: left.facts
- name: Download PR relations
uses: actions/download-artifact@v4
with:
name: right.facts
path: right.facts
- name: Download merged ontology
uses: actions/download-artifact@v4
with:
name: ontrdf.facts
path: ontrdf.facts
- name: Diff classification
run: souffle src/util/relation-diff.dl
- name: Combine output
run: cat lost.csv gained.csv >diff.tsv
- name: Upload diff
uses: actions/upload-artifact@v4
with:
name: diff.tsv
path: diff.tsv