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Secret-UzbekSecret-Uzbek
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Rewrite broken Zenodo workflow as minimal valid manual sync
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‎.github/workflows/zenodo-release.yml‎

Lines changed: 93 additions & 143 deletions
Original file line numberDiff line numberDiff line change
@@ -1,172 +1,122 @@
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name: Zenodo DOI Registration
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name: zenodo-release
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on:
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release:
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types: [published]
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workflow_dispatch:
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inputs:
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zenodo_doi:
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description: "Zenodo DOI to write into CITATION.cff"
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required: false
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type: string
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release_version:
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description: "Optional version string to write into CITATION.cff"
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required: false
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type: string
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permissions:
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contents: write
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concurrency:
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group: zenodo-${{ github.repository }}-${{ github.event.release.tag_name || github.run_id }}
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group: zenodo-${{ github.repository }}
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cancel-in-progress: false
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jobs:
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register-doi:
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update-citation:
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runs-on: ubuntu-latest
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permissions:
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contents: write
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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with:
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fetch-depth: 0
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- name: Wait for Zenodo webhook
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if: ${{ github.event_name == 'release' }}
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run: sleep 90
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- name: Poll Zenodo for DOI
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id: zenodo
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- name: Resolve metadata
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id: meta
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shell: bash
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env:
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DOI_INPUT: ${{ inputs.zenodo_doi }}
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VERSION_INPUT: ${{ inputs.release_version }}
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run: |
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set -euo pipefail
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REPO_URL="https://github.com/${{ github.repository }}"
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REPO_NAME="${{ github.repository }}"
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echo "Searching Zenodo for repository base: $REPO_URL"
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DOI=$(python3 - <<'PY' "$REPO_NAME"
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import sys
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repo = sys.argv[1]
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preferred = {
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"AIUZ-Terra-Codex-EcoSystem/AIUZ-Terra-Ecosystem": "10.5281/zenodo.18860027",
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"AIUZ-Terra-Codex-EcoSystem/Nullo-PLT-FMP-Theory": "10.5281/zenodo.19189085",
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"AIUZ-Terra-Codex-EcoSystem/github": "10.5281/zenodo.18860023",
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"AIUZ-Terra-Codex-EcoSystem/terra-legal": "10.5281/zenodo.18860025",
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"Secret-Uzbek/AIUZ": "10.5281/zenodo.18860029",
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"Secret-Uzbek/AIUZ-Terra-codex": "10.5281/zenodo.18860223",
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"Secret-Uzbek/AIUZ-terra-codex-FMP": "10.5281/zenodo.18860225",
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"Secret-Uzbek/FMP-CENTRAL-REPO": "10.5281/zenodo.17731795",
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"Secret-Uzbek/FMP-Full-Publication-Package": "10.5281/zenodo.19189042",
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"Secret-Uzbek/FMP-monograph": "10.5281/zenodo.17598953",
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"Secret-Uzbek/Theory-of-fractal-metascience-paradigm": "10.5281/zenodo.18860033",
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"Secret-Uzbek/Uzbek-mining": "10.5281/zenodo.18860031",
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"Secret-Uzbek/babur-terra-codex": "10.5281/zenodo.18780897",
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"Secret-Uzbek/navoiy-terra-corpus": "10.5281/zenodo.18676066",
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"Secret-Uzbek/terra-fmp-research-pipeline": "10.5281/zenodo.18061978",
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"Secret-Uzbek/terra-translation-api": "10.5281/zenodo.18860037",
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"Secret-Uzbek/terra-ust-autobuild": "10.5281/zenodo.18860035",
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"Secret-Uzbek/ust-mvp": "10.5281/zenodo.18860041",
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"Secret-Uzbek/women-made-central-asia": "10.5281/zenodo.19188951",
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"Secret-Uzbek/women-made-central-asia-corpus": "10.5281/zenodo.19188970",
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"Secret-Uzbek/ziyarat-terra-corpus": "10.5281/zenodo.19187958",
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}
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print(preferred.get(repo, ""))
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PY
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)
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if [ -n "$DOI" ]; then
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echo "doi=$DOI" >> "$GITHUB_OUTPUT"
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echo "Using preferred DOI from ORCID/DataCite mapping: $DOI"
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exit 0
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current_doi="$(sed -n 's/^doi:[[:space:]]*//p' CITATION.cff | head -n 1 | tr -d '\"')"
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current_version="$(sed -n 's/^version:[[:space:]]*//p' CITATION.cff | head -n 1 | tr -d '\"')"
42+
today="$(date +%Y-%m-%d)"
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doi="${DOI_INPUT:-$current_doi}"
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version="${VERSION_INPUT:-$current_version}"
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if [ -z "$doi" ]; then
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echo "No DOI available. Supply workflow input zenodo_doi or add doi to CITATION.cff." >&2
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exit 1
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fi
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if [ -z "$version" ]; then
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version="${GITHUB_REF_NAME:-manual}"
7254
fi
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for attempt in 1 2 3 4 5; do
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echo "Attempt $attempt..."
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RESPONSE=$(curl -fsSL "https://zenodo.org/api/records?q=$REPO_URL&sort=mostrecent&size=25" || echo "")
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DOI=$(printf "%s" "$RESPONSE" | python3 - <<'PY' "$REPO_URL"
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import json
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import sys
80-
81-
repo_url = sys.argv[1]
82-
payload = sys.stdin.read().strip()
83-
if not payload:
84-
raise SystemExit(0)
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try:
87-
data = json.loads(payload)
88-
except Exception:
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raise SystemExit(0)
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hits = data.get("hits", {}).get("hits", [])
92-
for hit in hits:
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related = hit.get("metadata", {}).get("related_identifiers", []) or []
94-
for item in related:
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identifier = item.get("identifier", "") or ""
96-
if identifier.startswith(repo_url):
97-
doi = hit.get("doi") or hit.get("metadata", {}).get("doi", "")
98-
if doi:
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print(doi)
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raise SystemExit(0)
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PY
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)
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if [ -n "$DOI" ]; then
105-
echo "doi=$DOI" >> "$GITHUB_OUTPUT"
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echo "Found DOI: $DOI"
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exit 0
108-
fi
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echo "DOI not found yet, waiting 60s..."
111-
sleep 60
112-
done
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114-
echo "Zenodo DOI not found after polling window." >> "$GITHUB_STEP_SUMMARY"
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- name: Update CITATION.cff
117-
if: steps.zenodo.outputs.doi != ''
56+
{
57+
echo "doi=$doi"
58+
echo "version=$version"
59+
echo "today=$today"
60+
} >> "$GITHUB_OUTPUT"
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- name: Normalize CITATION.cff
11863
shell: bash
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env:
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DOI: ${{ steps.meta.outputs.doi }}
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VERSION: ${{ steps.meta.outputs.version }}
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TODAY: ${{ steps.meta.outputs.today }}
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REPOSITORY_CODE: https://github.com/${{ github.repository }}
11969
run: |
12070
set -euo pipefail
121-
DOI="${{ steps.zenodo.outputs.doi }}"
122-
VERSION="${{ github.event.release.tag_name || github.ref_name }}"
123-
DATE=$(date +%Y-%m-%d)
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125-
python3 - <<'PY' "$DOI" "$VERSION" "$DATE" "${{ github.repository }}"
126-
import pathlib
127-
import re
128-
import sys
129-
130-
doi, version, date, repo = sys.argv[1:]
131-
path = pathlib.Path("CITATION.cff")
132-
133-
if path.exists():
134-
content = path.read_text(encoding="utf-8")
135-
else:
136-
content = f'''cff-version: 1.2.0
137-
message: "If you use this software, please cite it as below."
138-
type: software
139-
title: "{repo.split('/')[-1]}"
140-
repository-code: "https://github.com/{repo}"
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url: "https://github.com/{repo}"
142-
'''
143-
144-
updates = {
145-
"doi": doi,
146-
"version": version,
147-
"date-released": date,
148-
"url": f"https://doi.org/{doi}",
149-
}
150-
151-
for key, value in updates.items():
152-
pattern = rf"^(#\s*)?{re.escape(key)}:.*$"
153-
if re.search(pattern, content, flags=re.MULTILINE):
154-
content = re.sub(pattern, f"{key}: {value}", content, flags=re.MULTILINE)
155-
else:
156-
if not content.endswith("\\n"):
157-
content += "\\n"
158-
content += f"{key}: {value}\\n"
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path.write_text(content, encoding="utf-8")
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PY
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- name: Commit CITATION.cff
164-
if: steps.zenodo.outputs.doi != ''
71+
python3 <<'PY'
72+
import os
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import pathlib
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import re
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76+
path = pathlib.Path("CITATION.cff")
77+
content = path.read_text(encoding="utf-8")
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updates = {
80+
"doi": f"\"{os.environ['DOI']}\"",
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"url": f"\"https://doi.org/{os.environ['DOI']}\"",
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"version": f"\"{os.environ['VERSION']}\"",
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"date-released": f"\"{os.environ['TODAY']}\"",
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"repository-code": f"\"{os.environ['REPOSITORY_CODE']}\"",
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}
86+
87+
for key, value in updates.items():
88+
pattern = rf"^{re.escape(key)}:.*$"
89+
if re.search(pattern, content, flags=re.MULTILINE):
90+
content = re.sub(pattern, f"{key}: {value}", content, flags=re.MULTILINE)
91+
else:
92+
if not content.endswith("\n"):
93+
content += "\n"
94+
content += f"{key}: {value}\n"
95+
96+
path.write_text(content, encoding="utf-8")
97+
PY
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- name: Commit CITATION.cff if changed
165100
shell: bash
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env:
102+
DOI: ${{ steps.meta.outputs.doi }}
166103
run: |
167104
set -euo pipefail
168105
git config user.name "github-actions[bot]"
169106
git config user.email "github-actions[bot]@users.noreply.github.com"
170107
git add CITATION.cff
171-
git diff --staged --quiet || git commit -m "chore: update CITATION.cff with DOI ${{ steps.zenodo.outputs.doi }}"
172-
git push
108+
if ! git diff --staged --quiet; then
109+
git commit -m "chore: sync CITATION.cff with Zenodo DOI ${DOI}"
110+
git push
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fi
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- name: Summary
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shell: bash
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run: |
116+
{
117+
echo "## Zenodo release sync"
118+
echo "- Repository: \`${{ github.repository }}\`"
119+
echo "- DOI: \`${{ steps.meta.outputs.doi }}\`"
120+
echo "- Version: \`${{ steps.meta.outputs.version }}\`"
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echo "- Date released: \`${{ steps.meta.outputs.today }}\`"
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} >> "$GITHUB_STEP_SUMMARY"

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