Prepare 0.2.0 Beta 7

[PSchmiedmayer]

♻️ Current Situation and Problem

The merged runtime changes require a beta.7 version update.
Main-branch GPU publication also needs the runner cleanup already used by pull-request builds.

⚙️ Release Notes

• Synchronize all release-owned versions for 0.2.0-beta.7.
• Reuse one runner-space cleanup for pull-request and main GPU builds.
• Consolidate the pending Python, web, GPU runtime, and GitHub Actions dependency updates.

📚 Documentation

Native Linux, container, Terra, Carina, offline, and release instructions now reference the beta.7 artifacts and images.

✅ Testing

• Python and web quality, test, build, audit, and browser suites
• Strict documentation and release-candidate verification
• Reproducible GPU lock, ShellCheck, and compliance tests

Code of Conduct and Contributing Guidelines

• I agree to follow the Code of Conduct and Contributing Guidelines.

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Review details

⚙️ Run configuration

Configuration used: Organization UI

Review profile: CHILL

Plan: Pro Plus

Run ID: 1a8c6024-ce9f-4981-9142-33783014d6e6

📥 Commits

Reviewing files that changed from the base of the PR and between 31594a5 and f247243.

⛔ Files ignored due to path filters (2)

• packages/webui/package-lock.json is excluded by !**/package-lock.json
• uv.lock is excluded by !**/*.lock

📒 Files selected for processing (14)

• .github/workflows/documentation.yml
• .github/workflows/gpu-container-image.yml
• .github/workflows/publish-documentation.yml
• .github/workflows/python.yml
• .github/workflows/validate.yml
• .github/workflows/web-ui.yml
• AGENTS.md
• images/gpu/vllm-overrides.txt
• images/gpu/vllm-requirements.txt
• packages/compliance/tests/test_container_assets.py
• packages/gateway/pyproject.toml
• packages/notebook/pyproject.toml
• packages/webui/package.json
• pyproject.toml

📝 Walkthrough

Walkthrough

The project version is updated from 0.2.0-beta.6 to 0.2.0-beta.7 across package metadata, exported constants, container build configuration, documentation, skill metadata, fixtures, and tests. GPU container workflows now use a shared runner-space reclamation script in both pull-request and main builds. The script reports disk usage and removes selected preinstalled toolchain and SDK directories.

Possibly related PRs

• SchmiedmayerLab/heartwood#33 — Modifies GPU workflow cleanup and verification steps.
• SchmiedmayerLab/heartwood#57 — Updates adapter conformance version handling and tests.
• SchmiedmayerLab/heartwood#71 — Changes the adapter conformance default version and related expectations.

🚥 Pre-merge checks | ✅ 4 | ❌ 1

❌ Failed checks (1 warning)

Check name	Status	Explanation	Resolution
Docstring Coverage	⚠️ Warning	Docstring coverage is 33.33% which is insufficient. The required threshold is 80.00%.	Write docstrings for the functions missing them to satisfy the coverage threshold.

✅ Passed checks (4 passed)

Check name	Status	Explanation
Linked Issues check	✅ Passed	Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check	✅ Passed	Check skipped because no linked issues were found for this pull request.
Title check	✅ Passed	The title concisely matches the main change: preparing the 0.2.0-beta.7 release.
Description check	✅ Passed	The description is clearly about the beta.7 release prep and GPU cleanup changes.

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Actionable comments posted: 1

🤖 Prompt for all review comments with AI agents

Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

Inline comments:
In `@deploy/reclaim-github-runner-space.sh`:
- Line 4: Update the SPDX copyright attribution in the file header to identify
“Schmiedmayer Lab at Stanford University” instead of the generic “Stanford
University,” while preserving the existing year, project-authors reference, and
avoiding any legacy organizational attribution.

🪄 Autofix (Beta)

Fix all unresolved CodeRabbit comments on this PR:

• Push a commit to this branch (recommended)
• Create a new PR with the fixes

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ℹ️ Review info

⚙️ Run configuration

Configuration used: Organization UI

Review profile: CHILL

Plan: Pro Plus

Run ID: d9fa59ca-6b10-4f52-86b3-d296af331c9a

📥 Commits

Reviewing files that changed from the base of the PR and between e7240e2 and 31594a5.

⛔ Files ignored due to path filters (2)

• packages/webui/package-lock.json is excluded by !**/package-lock.json
• uv.lock is excluded by !**/*.lock

📒 Files selected for processing (49)

• .github/workflows/gpu-container-image.yml
• README.md
• VERSION.toml
• deploy/reclaim-github-runner-space.sh
• docker-bake.hcl
• documentation/contribute/releases.md
• documentation/models/offline.md
• documentation/platforms/carina.md
• documentation/platforms/containers.md
• documentation/platforms/native-linux.md
• documentation/platforms/terra.md
• fixtures/synthetic/skills/omop-cohort-summary/SKILL.md
• fixtures/synthetic/skills/omop-cohort-summary/metadata.json
• packages/adapters/pyproject.toml
• packages/adapters/src/heartwood/adapters/__init__.py
• packages/adapters/src/heartwood/adapters/conformance.py
• packages/adapters/tests/test_conformance.py
• packages/audit/pyproject.toml
• packages/audit/src/heartwood/audit/__init__.py
• packages/cli/pyproject.toml
• packages/cli/src/heartwood/cli/__init__.py
• packages/compliance/pyproject.toml
• packages/compliance/src/heartwood/compliance/__init__.py
• packages/compliance/tests/test_container_assets.py
• packages/compliance/tests/test_release_governance.py
• packages/core-adapter/pyproject.toml
• packages/core-adapter/src/heartwood/core_adapter/__init__.py
• packages/detector/pyproject.toml
• packages/detector/src/heartwood/detector/__init__.py
• packages/fixtures/pyproject.toml
• packages/fixtures/src/heartwood/fixtures/__init__.py
• packages/gateway/pyproject.toml
• packages/model-policy/pyproject.toml
• packages/model-policy/src/heartwood/model_policy/__init__.py
• packages/notebook/pyproject.toml
• packages/notebook/src/heartwood/notebook/__init__.py
• packages/schemas/pyproject.toml
• packages/schemas/src/heartwood/schemas/__init__.py
• packages/schemas/tests/test_schema_records.py
• packages/session/pyproject.toml
• packages/session/src/heartwood/session/__init__.py
• packages/skills/pyproject.toml
• packages/webui/package.json
• skills/verified/aggregate-export/SKILL.md
• skills/verified/aggregate-export/metadata.json
• skills/verified/baseline-model/SKILL.md
• skills/verified/baseline-model/metadata.json
• skills/verified/omop-cohort-summary/SKILL.md
• skills/verified/omop-cohort-summary/metadata.json

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