NFDI4BIOIMAGE #35

	name: Process Approved Issues

	on:
	issues:
	types: [labeled]

	defaults:
	run:
	shell: bash

	jobs:
	process:
	if: contains(join(github.event.issue.labels.*.name, ' '), 'submission-approved')
	runs-on: [self-hosted, juist-hosted]

	steps:
	- name: Check out repo
	uses: actions/checkout@v4

	- name: Setup Python
	uses: actions/setup-python@v5
	with:
	python-version: '3.11'

	- name: Install dependencies
	run: \|
	set -euo pipefail
	echo '==> Installing dependencies'
	python -m pip install --upgrade pip
	pip install pyyaml pandas rdflib argparse
	echo '✅ Dependencies installed'

	- name: Save issue body (API)
	uses: actions/github-script@v7
	with:
	script: \|
	const { owner, repo } = context.repo;
	const issue_number = context.issue.number;
	const { data: issue } = await github.rest.issues.get({ owner, repo, issue_number });
	const fs = require('fs');
	fs.writeFileSync('issue_body.txt', issue.body ?? '', { encoding: 'utf8' });
	core.info(`Wrote ${ (issue.body ?? '').length } bytes to issue_body.txt`);


	- name: Extract YAML
	run: \|
	set -euo pipefail
	echo '==> Extracting YAML'
	python scripts/extract_yaml.py issue_body.txt payload.yaml
	echo 'YAML content:'
	cat payload.yaml
	echo '✅ YAML extracted'

	- name: Run pipeline
	run: \|
	set -euo pipefail
	echo '==> Running pipeline script'
	python scripts/convert_yaml_to_rdf.py --yml_in payload.yaml --rdf_in $(ls -t /home/ubuntu/data/*.ttl \| head -n 1) --out_dir /home/ubuntu/data/
	bash scripts/upload_submission_to_qlever.sh
	echo '✅ Pipeline finished'

	- name: Done
	run: echo '🎉 All steps completed successfully'

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