@ahmed-g-gad/apothem 0.1.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/CHANGELOG.md +60 -0
- package/LICENSE +21 -0
- package/LICENSES/MIT.txt +18 -0
- package/LICENSES/PSF-2.0.txt +47 -0
- package/README.md +549 -0
- package/bin/README.md +37 -0
- package/bin/apothem.mjs +78 -0
- package/package.json +75 -0
- package/pyproject.toml +347 -0
- package/src/apothem/README.md +52 -0
- package/src/apothem/__init__.py +66 -0
- package/src/apothem/__main__.py +28 -0
- package/src/apothem/_vendor/.keep +0 -0
- package/src/apothem/_vendor/__init__.py +25 -0
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- package/src/apothem/_vendor/attr.LICENSE +21 -0
- package/src/apothem/_vendor/attrs/__init__.py +72 -0
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- package/src/apothem/_vendor/attrs/setters.py +3 -0
- package/src/apothem/_vendor/attrs/validators.py +3 -0
- package/src/apothem/_vendor/attrs.LICENSE +21 -0
- package/src/apothem/_vendor/jsonschema/__init__.py +120 -0
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- package/src/apothem/_vendor/jsonschema/benchmarks/json_schema_test_suite.py +12 -0
- package/src/apothem/_vendor/jsonschema/benchmarks/nested_schemas.py +56 -0
- package/src/apothem/_vendor/jsonschema/benchmarks/subcomponents.py +42 -0
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- package/src/apothem/_vendor/jsonschema/exceptions.py +490 -0
- package/src/apothem/_vendor/jsonschema/protocols.py +230 -0
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- package/src/apothem/_vendor/jsonschema.LICENSE +19 -0
- package/src/apothem/_vendor/jsonschema_specifications/__init__.py +12 -0
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- package/src/apothem/_vendor/jsonschema_specifications/schemas/draft201909/vocabularies/applicator +56 -0
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- package/src/apothem/_vendor/jsonschema_specifications/schemas/draft3/metaschema.json +172 -0
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- package/src/apothem/_vendor/jsonschema_specifications/schemas/draft7/metaschema.json +166 -0
- package/src/apothem/_vendor/jsonschema_specifications.LICENSE +19 -0
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- package/src/apothem/_vendor/referencing.LICENSE +19 -0
- package/src/apothem/_vendor/rpds/__init__.py +251 -0
- package/src/apothem/_vendor/typing_extensions.LICENSE +279 -0
- package/src/apothem/_vendor/typing_extensions.py +4317 -0
- package/src/apothem/_vendor/vendor.txt +22 -0
- package/src/apothem/_vendor/yaml/__init__.py +389 -0
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- package/src/apothem/_vendor/yaml/constructor.py +748 -0
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- package/src/apothem/_vendor/yaml/dumper.py +61 -0
- package/src/apothem/_vendor/yaml/emitter.py +1137 -0
- package/src/apothem/_vendor/yaml/error.py +74 -0
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- package/src/apothem/agents/README.md +60 -0
- package/src/apothem/agents/codebase-explorer.md +91 -0
- package/src/apothem/agents/convention-auditor.md +93 -0
- package/src/apothem/agents/dependency-auditor.md +97 -0
- package/src/apothem/agents/fact-checker.md +84 -0
- package/src/apothem/agents/mcp-builder.md +86 -0
- package/src/apothem/agents/memory-auditor.md +93 -0
- package/src/apothem/agents/prompt-evaluator.md +87 -0
- package/src/apothem/agents/quality-gate.md +103 -0
- package/src/apothem/agents/refactor-surgeon.md +74 -0
- package/src/apothem/agents/research-scout.md +73 -0
- package/src/apothem/agents/security-scanner.md +83 -0
- package/src/apothem/agents/test-runner.md +84 -0
- package/src/apothem/audit/README.md +73 -0
- package/src/apothem/audit/_scan_lib.py +182 -0
- package/src/apothem/audit/analyze_graph.py +260 -0
- package/src/apothem/audit/build_capability_graph.py +607 -0
- package/src/apothem/audit/build_inventory.py +657 -0
- package/src/apothem/audit/build_plans_provenance.py +997 -0
- package/src/apothem/audit/check_links.py +389 -0
- package/src/apothem/audit/classify_artifacts.py +381 -0
- package/src/apothem/audit/deprecated-tokens.txt +10 -0
- package/src/apothem/audit/execute_plans_migration.py +491 -0
- package/src/apothem/audit/known-projects.txt +15 -0
- package/src/apothem/audit/render_capability_index.py +467 -0
- package/src/apothem/audit/render_inventory.py +405 -0
- package/src/apothem/audit/scan_ai_surfaces.py +1125 -0
- package/src/apothem/audit/scan_ai_surfaces_coarse.py +261 -0
- package/src/apothem/audit/scan_drift_features.py +143 -0
- package/src/apothem/audit/scan_frontmatter.py +293 -0
- package/src/apothem/audit/scan_header_coverage.py +1134 -0
- package/src/apothem/audit/scan_plan_leakage.py +540 -0
- package/src/apothem/audit/scan_plans_discipline.py +188 -0
- package/src/apothem/audit/scan_secrets_pii.py +245 -0
- package/src/apothem/audit/scan_stale_tokens.py +296 -0
- package/src/apothem/audit/synthesize_drift.py +205 -0
- package/src/apothem/benchmarks/README.md +33 -0
- package/src/apothem/benchmarks/__init__.py +3 -0
- package/src/apothem/benchmarks/bench_agents.py +63 -0
- package/src/apothem/benchmarks/bench_hooks.py +93 -0
- package/src/apothem/benchmarks/bench_install.py +58 -0
- package/src/apothem/benchmarks/bench_tests.py +93 -0
- package/src/apothem/benchmarks/bench_validate_ecosystem.py +84 -0
- package/src/apothem/cli/README.md +33 -0
- package/src/apothem/cli/__init__.py +229 -0
- package/src/apothem/cli/_cmd_completion.py +88 -0
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- package/src/apothem/cli/_common_flags.py +90 -0
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- package/src/apothem/cli/_json_formatter.py +21 -0
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- package/src/apothem/commands/research-sources.md +266 -0
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- package/src/apothem/skills/dependency-upgrade/SKILL.md +105 -0
- package/src/apothem/skills/dev-toolkit/SKILL.md +120 -0
- package/src/apothem/skills/diagram-authoring/SKILL.md +113 -0
- package/src/apothem/skills/document-authoring/SKILL.md +118 -0
- package/src/apothem/skills/ecosystem-audit/SKILL.md +108 -0
- package/src/apothem/skills/ecosystem-audit/references/audit-fortress.md +85 -0
- package/src/apothem/skills/ecosystem-audit/references/procedure.md +162 -0
- package/src/apothem/skills/eval-harness/SKILL.md +88 -0
- package/src/apothem/skills/incident-runbook/SKILL.md +92 -0
- package/src/apothem/skills/multi-source-research/SKILL.md +90 -0
- package/src/apothem/skills/plan-suite/SKILL.md +118 -0
- package/src/apothem/skills/plan-suite/master_template.md +1324 -0
- package/src/apothem/skills/projectify/SKILL.md +117 -0
- package/src/apothem/skills/prompt-engineering/SKILL.md +122 -0
- package/src/apothem/skills/refactor-extract/SKILL.md +85 -0
- package/src/apothem/skills/research-suite/SKILL.md +170 -0
- package/src/apothem/skills/research-suite/references/directory-structure.md +47 -0
- package/src/apothem/skills/research-suite/references/lifecycle.md +67 -0
- package/src/apothem/skills/research-suite/references/principal-investigator-framework.md +37 -0
- package/src/apothem/skills/research-suite/references/rigor-mandates.md +30 -0
- package/src/apothem/skills/research-suite/research_template.md +476 -0
- package/src/apothem/skills/secret-rotation/SKILL.md +87 -0
- package/src/apothem/skills/source-synthesis/SKILL.md +92 -0
- package/src/apothem/skills/surgical-guard/SKILL.md +118 -0
- package/src/apothem/skills/test-authoring/SKILL.md +85 -0
- package/src/apothem/skills/vuln-triage/SKILL.md +91 -0
- package/src/apothem/skills/workflow/SKILL.md +139 -0
- package/src/apothem/statuslines/README.md +26 -0
- package/src/apothem/statuslines/__init__.py +20 -0
- package/src/apothem/statuslines/conformity.json +5 -0
- package/src/apothem/statuslines/render.py +334 -0
- package/src/apothem/statuslines/statusline.md +50 -0
- package/src/apothem/templates/README.md +43 -0
- package/src/apothem/templates/agents-md-template.md +80 -0
- package/src/apothem/templates/consideration-log.md +39 -0
- package/src/apothem/templates/expertise-gap-log.md +56 -0
- package/src/apothem/templates/master-index-template.md +93 -0
- package/src/apothem/templates/potency-map.md +53 -0
- package/src/apothem/templates/preservation-audit.md +60 -0
- package/src/apothem/templates/question-resolution-audit.md +52 -0
- package/src/apothem/templates/trace-matrix-template.md +77 -0
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# SPDX-License-Identifier: MIT
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"""Unified Python entrypoint for supported harness hook events.
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Routes `SessionStart` to `session_start_bootstrap.main()` and all other
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whitelisted events to `emit_hook_context.main()` (hook mode).
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Contract: always exits 0. Any uncaught exception is converted to a valid
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failure envelope on stdout so the hook runtime never sees a raw traceback.
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"""
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from __future__ import annotations
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import argparse
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import sys
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from pathlib import Path
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from typing import Final
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_HOOK_DIR: Final[Path] = Path(__file__).resolve().parent
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_LIB_DIR: Final[Path] = _HOOK_DIR / "lib"
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for _path in (_HOOK_DIR, _LIB_DIR):
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if str(_path) not in sys.path:
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sys.path.insert(0, str(_path))
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# Both event sets come from the single source of truth at
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# ``hooks/lib/events.py``. ``_VALID_EVENTS`` is the dispatcher
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# whitelist; ``_HOOK_SPECIFIC_EVENTS`` is the envelope-schema
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# subset used by the failure-fallback path so it remains usable
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# even when ``emit_hook_context`` itself fails to import.
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from events import (
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HOOK_SPECIFIC_OUTPUT_EVENTS as _HOOK_SPECIFIC_EVENTS,
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)
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from events import (
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SUPPORTED_EVENTS as _VALID_EVENTS,
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)
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def _emit_failure(event_name: str, message: str) -> None:
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"""Emit a failure envelope. Prefers ``emit_hook_context``'s rich writer;
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falls back to a self-contained envelope when that module is unimportable
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(e.g., its module-load itself raises). Always writes valid JSON to stdout
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and never raises."""
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try:
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from emit_hook_context import emit_failure_envelope as _rich
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_rich(event_name, message)
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return
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except Exception: # noqa: BLE001, RUF100 - outermost dispatcher boundary; falls back to JSON envelope below (BLE001 is the validator's required intent-marker; RUF100 self-suppresses because ruff's BLE family is not active)
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pass
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import json as _json
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name = event_name or "UnknownEvent"
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text = f"Hook bootstrap failure: {message}"
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payload: dict[str, object]
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if name in _HOOK_SPECIFIC_EVENTS:
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payload = {
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"hookSpecificOutput": {
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"hookEventName": name,
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"additionalContext": text,
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}
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}
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else:
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payload = {"systemMessage": text}
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sys.stdout.write(_json.dumps(payload, separators=(",", ":")) + "\n")
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_MESSAGES_DIR: Final[Path] = _HOOK_DIR / "messages"
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# The ``AskUserQuestion`` validator is a dispatch-routed ``PreToolUse`` handler
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# that inspects the live tool payload (an option-marker well-formedness check at
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# call time) rather than emitting a static Markdown context. It is selected by
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# its message basename so the same positional invocation shape the other
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# PreToolUse guards use (``PreToolUse pretooluse-askuserquestion-recommended``)
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# routes here. The basename is matched on the ``--context-file`` tail so the
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# routing is independent of where the message file lives on disk.
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_ASKUSERQUESTION_MESSAGE_BASENAME: Final[str] = "pretooluse-askuserquestion-recommended"
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# The proactive-compaction tracker is a dispatch-routed ``PostToolUse`` handler
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# that maintains per-session activity counters and surfaces a proactive-
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# compaction advisory once a CM-19 threshold is crossed. It is selected by its
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# message basename so the same positional invocation shape the other handlers
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# use (``PostToolUse posttooluse-proactive-compaction``) routes here; the
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# basename is matched on the ``--context-file`` tail, independent of where the
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# message file lives on disk.
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_PROACTIVE_COMPACTION_MESSAGE_BASENAME: Final[str] = "posttooluse-proactive-compaction"
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def parse_args(argv: list[str] | None = None) -> argparse.Namespace:
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"""Parse dispatch CLI arguments.
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Two invocation shapes are accepted:
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1. **Short positional form** (preferred — settings.json invocations):
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``apothem-hook <Event> [<message-name>]``. ``<message-name>`` is
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the bare basename of a Markdown fixture under
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``apothem.hooks.messages`` (e.g., ``pretooluse-write``); the ``.md``
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suffix is added automatically.
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2. **Flag form**: an alternate invocation shape accepted alongside
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the positional form:
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``--event-name <Event> --context-file <path>``.
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When the positional form is used, ``<message-name>`` resolves to
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``<apothem-hooks-package-dir>/messages/<name>.md`` so the file is
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located regardless of where the dispatcher lives on disk (a source
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checkout or a materialized ``apothem/hooks/`` tree under a harness
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root).
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"""
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parser = argparse.ArgumentParser(prog="apothem-hook")
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parser.add_argument("event_positional", nargs="?", default=None)
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parser.add_argument("message_name_positional", nargs="?", default=None)
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parser.add_argument("--event-name", "-e", default=None)
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parser.add_argument("--context-file", "-c", default="")
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parser.add_argument("--quiet", "-q", action="store_true")
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args = parser.parse_args(argv)
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if args.event_positional and not args.event_name:
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args.event_name = args.event_positional
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if args.message_name_positional and not args.context_file:
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args.context_file = str(_MESSAGES_DIR / f"{args.message_name_positional}.md")
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if not args.event_name:
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parser.error("event name is required (positional or --event-name)")
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return args
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def _run_session_start(quiet: bool) -> None:
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"""Invoke the session-start bootstrap.
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Fail-disposition: fail-open. Bootstrap is a context-emission helper;
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a failure here degrades the operator's session-start summary but must
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never block the session itself. Errors propagate to ``main`` and are
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converted to a failure envelope on stdout.
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"""
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import session_start_bootstrap as ssb
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forwarded: list[str] = ["--quiet"] if quiet else []
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ssb.main(forwarded)
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def _is_askuserquestion_route(context_file: str) -> bool:
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"""Return True when the message basename selects the AskUserQuestion guard.
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Matched on the ``--context-file`` basename (with or without the ``.md``
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suffix) so the routing holds whether the dispatcher is invoked with the
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positional message name (``pretooluse-askuserquestion-recommended``) or an
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absolute message-file path resolved by :func:`parse_args`.
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"""
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if not context_file:
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return False
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name = Path(context_file).name
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stem = name[:-3] if name.endswith(".md") else name
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return stem == _ASKUSERQUESTION_MESSAGE_BASENAME
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def _run_askuserquestion_guard(quiet: bool) -> None:
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"""Invoke the call-time AskUserQuestion option-marker validator.
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Fail-disposition: fail-open. The validator inspects the live tool payload
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for ``(Recommended)``-marker well-formedness and emits an advisory
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``systemMessage`` (default) or a blocking ``decision`` envelope (strict
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opt-in). Its own ``main`` swallows every exception and emits an allow
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envelope, so a validator bug never blocks the operator's question. ``quiet``
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suppresses no output here: a block decision must always reach the harness.
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"""
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import askuserquestion_validator as aqv
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aqv.main([])
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def _is_proactive_compaction_route(context_file: str) -> bool:
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"""Return True when the message basename selects the proactive-compaction tracker.
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Matched on the ``--context-file`` basename (with or without the ``.md``
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suffix) so the routing holds whether the dispatcher is invoked with the
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positional message name (``posttooluse-proactive-compaction``) or an
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absolute message-file path resolved by :func:`parse_args`.
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"""
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if not context_file:
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return False
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name = Path(context_file).name
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stem = name[:-3] if name.endswith(".md") else name
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return stem == _PROACTIVE_COMPACTION_MESSAGE_BASENAME
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def _run_proactive_compaction_tracker(quiet: bool) -> None:
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"""Invoke the per-session proactive-compaction activity tracker.
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Fail-disposition: fail-open. The tracker maintains per-session activity
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counters and emits an advisory ``systemMessage`` once a CM-19 threshold is
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crossed; it NEVER blocks (a PostToolUse hook cannot block the tool call that
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already ran). Its own ``main`` swallows every exception and emits an empty
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envelope, so a tracker bug never disrupts the session. ``quiet`` is unused:
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the tracker is already low-noise (silent below threshold), and its advisory
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must always reach the harness when a threshold crosses.
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"""
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import proactive_compaction_tracker as pct
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pct.main([])
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def _run_emit(event_name: str, context_file: str, quiet: bool) -> None:
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"""Invoke emit_hook_context in hook mode.
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Fail-disposition: fail-open. Hook-context emission is advisory; a
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failure here degrades the contextual nudge but must never block the
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underlying tool call (PreToolUse) or session shutdown (Stop).
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Errors propagate to ``main`` and are converted to a failure envelope.
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"""
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import emit_hook_context as ehc
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argv = [
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"--hook-event-name",
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event_name,
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"--context-file",
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context_file,
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]
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if quiet:
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argv.append("--quiet")
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ehc.main(argv)
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def dispatch(event_name: str, context_file: str, quiet: bool) -> None:
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"""Route `event_name` to the correct hook script."""
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if event_name not in _VALID_EVENTS:
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raise ValueError(f"Unknown event: {event_name}")
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if event_name == "SessionStart":
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_run_session_start(quiet)
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return
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# PreToolUse with the AskUserQuestion message basename routes to the live
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# payload validator rather than emitting a static Markdown context.
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if event_name == "PreToolUse" and _is_askuserquestion_route(context_file):
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_run_askuserquestion_guard(quiet)
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return
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# PostToolUse with the proactive-compaction message basename routes to the
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# per-session activity tracker rather than emitting a static Markdown
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# context.
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if event_name == "PostToolUse" and _is_proactive_compaction_route(context_file):
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_run_proactive_compaction_tracker(quiet)
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return
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if not context_file:
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raise ValueError(f"--context-file required for event '{event_name}'")
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_run_emit(event_name, context_file, quiet)
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def _best_effort_event_name(argv: list[str] | None) -> str:
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"""Recover the event name from *argv* without enforcing the full grammar.
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A malformed invocation makes the strict :func:`parse_args` raise
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``SystemExit`` before the event name is bound, which would leave the failure
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envelope naming ``UnknownEvent``. This lenient pre-parse extracts the event
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name (the first positional or ``--event-name`` / ``-e`` value) where one is
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present so the envelope names the event. Returns ``""`` when no event name
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is recoverable. Never raises: argparse's own ``SystemExit`` (e.g. a missing
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option-argument) is caught and degrades to ``""``.
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"""
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try:
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lenient = argparse.ArgumentParser(add_help=False)
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lenient.add_argument("event_positional", nargs="?", default=None)
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|
+
lenient.add_argument("--event-name", "-e", default=None)
|
|
263
|
+
namespace, _ = lenient.parse_known_args(argv)
|
|
264
|
+
except SystemExit:
|
|
265
|
+
return ""
|
|
266
|
+
return namespace.event_name or namespace.event_positional or ""
|
|
267
|
+
|
|
268
|
+
|
|
269
|
+
def main(argv: list[str] | None = None) -> None:
|
|
270
|
+
"""Entry point. Emits a failure envelope on any error; never raises non-zero.
|
|
271
|
+
|
|
272
|
+
A malformed invocation makes ``argparse`` raise ``SystemExit`` with a
|
|
273
|
+
non-zero code. The hook contract is that the harness never sees a raw
|
|
274
|
+
non-zero exit or traceback — only a valid JSON envelope — so an argparse
|
|
275
|
+
*error* exit is converted to a failure envelope and the process exits 0. A
|
|
276
|
+
clean ``--help`` / ``--version`` exit (code 0 or ``None``) passes through.
|
|
277
|
+
|
|
278
|
+
The event name is recovered best-effort before the strict parse so a parse
|
|
279
|
+
*error* still names the event in the failure envelope rather than
|
|
280
|
+
``UnknownEvent``.
|
|
281
|
+
"""
|
|
282
|
+
event_name = _best_effort_event_name(argv)
|
|
283
|
+
try:
|
|
284
|
+
args = parse_args(argv)
|
|
285
|
+
event_name = args.event_name
|
|
286
|
+
dispatch(event_name, args.context_file, args.quiet)
|
|
287
|
+
except SystemExit as exc:
|
|
288
|
+
if exc.code in (0, None):
|
|
289
|
+
raise
|
|
290
|
+
_emit_failure(event_name, f"invalid hook invocation (argparse exit {exc.code})")
|
|
291
|
+
except Exception as exc:
|
|
292
|
+
_emit_failure(event_name, str(exc))
|
|
293
|
+
|
|
294
|
+
|
|
295
|
+
if __name__ == "__main__":
|
|
296
|
+
main()
|