Prepare validation branch for staging (post validation)

[jsnel]

The staging branch was validated - we need to prep this repo to handel some additional input validation as well as (reference) root as defined by environment variables.

[Copilot]

🔵 Needs a closer look

Mixed approval-readiness assessments warrant final human review.

Pull request overview

Prepares the staging validation branch with configurable result paths, input validation, and updated CI tooling.

Changes:

• Adds configurable reference and current result roots.
• Validates action inputs and pytest paths.
• Updates pre-commit and GitHub Actions dependencies.

File summaries

File	Description
pyglotaran-examples/test_result_consistency.py	Supports configurable result directories.
action.yml	Adds root inputs and validator validation.
.pre-commit-config.yaml	Updates pre-commit tool versions.
.github/workflows/test-pyglotaran-examples.yml	Updates workflow action versions.
.github/workflows/run-tests.yml	Updates checkout and Python setup actions.

Review details

• Files reviewed: 5/5 changed files
• Comments generated: 0
• Review effort level: Lite

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[Copilot]

🟡 Changes recommended

The critical mypy dependency issue and moderate fallback-path regression must be addressed.

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Review details

Suppressed comments (1)

action.yml:45

• These environment variables are now set on every action invocation, including when the new inputs are omitted. That bypasses the existing fallback behavior in get_compare_results_path() (clone under HERE) and get_current_result_path() (use ~/pyglotaran_examples_results), so callers that previously relied on those defaults now fail with ValueError unless workspace-relative comparison-results and comparison-results-current directories already exist. Leave the variables unset when no root was supplied, or otherwise preserve the previous fallback paths.

        PYGLOTARAN_REFERENCE_ROOT: ${{ inputs.reference_root }}
        PYGLOTARAN_CURRENT_ROOT: ${{ inputs.current_root }}

• Files reviewed: 5/5 changed files
• Comments generated: 1
• Review effort level: Lite

[Copilot]

🟢 Approval recommended

The changes are internally consistent, use valid dependency versions, and introduce no identified regressions.

Review details

• Files reviewed: 5/5 changed files
• Comments generated: 0 new
• Review effort level: Balanced

[s-weigand]

Thanks for reworking the validation and adding the ability to compare v0.7 and v0.8 results 🙏

Just one small cleanup request we discussed and making single array value extraction more robust.

[s-weigand]

Let's gooo, ship it 🚀