[codex] Polish admin menu and project docs

[pitangainnovare]

Summary

• Hides generic Wagtail admin menu entries and registers a Metadata menu for Collection, Source, and Document snippets.
• Aligns Makefile shortcuts with this project: pytest, scielo_usage Docker names, safer cleanup, and compose-based dump/restore.
• Updates README documentation for current commands, collector endpoint env vars, and OpenSearch index naming.
• Aligns pre-commit/tooling versions with local requirements and Python 3.11.
• Fixes production compose syntax by moving volumes out of links and removing the obsolete version field.

Validation

• python -m compileall collection/wagtail_hooks.py document/wagtail_hooks.py source/wagtail_hooks.py core/wagtail_hooks.py
• .pre-commit-config.yaml loaded with yaml.safe_load
• docker compose -f local.yml config --quiet
• docker compose -f production.yml config --quiet
• make -n django_test django_fast dump_data restore_data clean_container clean_project_images clean_migrations

Notes

Local uncommitted changes in VERSION, local.yml, and metrics/migrations/0002_ensure_dailymetricjob_table.py were intentionally left out of this PR.