feat(watchdog): runner-side self-heal for stale or hung bridge - #2

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Commits on Apr 7, 2026

ci: run only Python 3.14 on PRs, full matrix on main

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81faec8
fix: gate startup self-reflection behind startup_reflection config setting

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bb5feba
feat: guard rebase/ci_check against PRs from other koan instances

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37baab8
rebase: apply review feedback on #1121

toddr-bot
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atoomic
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2ca03fe
fix: resolve CI failures on #1121 (attempt 1)

toddr-bot
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atoomic
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fc89410
rebase: apply review feedback on #1121

toddr-bot
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6188866
fix: resolve CI failures on #1121 (attempt 1)

toddr-bot
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atoomic
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5e3e555
fix: resolve CI failures on #1121 (attempt 1)

toddr-bot
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30af609
feat: add pre-push CI check to rebase pipeline

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bdfe863
rebase: apply review feedback on #1137

Koan-Bot
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f229a47
fix: address 5 robustness issues (#1138-#1142)

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3e4407b
rebase: apply review feedback on #1151

Koan-Bot
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60d632a
feat: auto-cleanup remote branches and add config toggle for branch cleanup

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87b75f1
rebase: apply review feedback on #1087

Koan-Bot
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25af892
feat: add ## CI section parsing and helpers to missions.py

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944edea
feat: migrate CI queue from JSON to ## CI section in missions.md

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0ab0969
rebase: apply review feedback on #1149

Koan-Bot
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d66ef88
feat: prevent duplicate issue work in contemplative and autonomous modes

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a1098f9
fix: prevent /resume during startup from being ignored

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31d52b9
feat: friendly timestamp display in /list command

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31a3527
feat: surface stdout diagnostics when CLI fails with no stderr

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709215d
Use configurable max_turns across all runners

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b56a62a

Commits on Apr 8, 2026

fix: reload stale github_skill_helpers when is_own_pr is missing

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3a881d6
fix: harden CI fix pipeline — configurable limits, safe checkout, fork support

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4e4a475
fix: label usage stats as estimates, add cost tracking, remove bogus quota check

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03d0fb5
rebase: apply review feedback on #1153

Koan-Bot
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8d013eb

Commits on Apr 9, 2026

fix: escape @copilot mentions in all GitHub comment posts

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8f7a985
rebase: apply review feedback on #1166

Koan-Bot
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3f2fa0d
fix: resolve pre-existing CI failures on #1166

Koan-Bot
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fc8a7a2
feat: improve GitHub @mention help with grouped commands, emoji, and aliases

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d3afbfc
feat: add Jira @mention integration mirroring GitHub notification pipeline

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fd3ccf8
rebase: apply review feedback on #1169

Koan-Bot
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1d353b5
feat: add timestamps to log output and improve run pipeline visibility

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2842d5a

Commits on Apr 10, 2026

feat: add convention-aware commit messages to rebase workflow
atoomic
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cb2f2b6
rebase: apply review feedback on #1170

Koan-Bot
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d4d7dbd
docs: add Jira integration guide and update GitHub commands reference

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96a59aa
fix: override non-zero CLI exit code when JSON output shows success

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838e79e
fix: add Jira notification startup check and fix 410 API error

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60518ee
feat: support Jira URLs in /fix, /plan, /implement

atoomic
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4836f07
fix: mark GitHub notifications as read after processing

atoomic
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9cc6af7
feat: acknowledge Jira @mentions with reply comment

atoomic
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7e1b9d0
fix: pass auth params to acknowledge_jira_comment instead of reloading config

Koan-Bot
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atoomic
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14935d4
fix: correct test assertion for mark_notification_read call count

Koan-Bot
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3ac421c
feat: add per-Jira-project target branch for PRs

atoomic
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2070c3e
feat: add max_pending_branches per-project limit to cap unreviewed work (#1089)

sukria-koan0
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claude
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f5db79a
fix: patch acknowledge_jira_comment in jira command handler tests

Alexis Sukrieh
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claude
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5210ff6
feat: add /config_check skill to detect config.yaml drift

Alexis Sukrieh
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claude
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ba3571f
docs: document /config_check skill in CLAUDE.md and user manual

Alexis Sukrieh
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d9542ac
Merge branch 'koan/config-check-skill'
Alexis Sukrieh
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beab037
Merge branch 'main' into koan/test-coverage-phase1
Alexis Sukrieh
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b763d13
Merge branch 'koan/test-coverage-phase1'
Alexis Sukrieh
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b1f1a47
feat: show server IP in /status command

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atoomic
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3a87a71
feat: add review_markers module and find_bot_comment helper

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3049127
feat: wire SUMMARY_TAG, in-progress marker, and commit SHAs into review pipeline

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b45e60d

Commits on Apr 11, 2026

feat: add get_project_review_ignore to projects_config

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d70a48d
feat: add filter_diff_by_ignore utility to utils.py

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d91a9d9
feat: wire review_ignore filter into run_review()

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39e59da
docs: document review_ignore config in example yaml, README, and user manual

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8b292b1
refactor: move review_ignore config from projects.yaml to instance/config.yaml

Koan-Bot
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568d511

Commits on Apr 12, 2026

fix: increase /ask and github-reply timeout from 120s to 300s

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1ff1cfb
feat: add coverage tracking and enforce golden rule in CI

sukria-koan0
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0fdc322
feat: add testing anti-patterns reference with conditional injection

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616c591
refactor: make expects_tests public and remove broad exception handler in prompt_builder

Koan-Bot
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f641408

Commits on Apr 13, 2026

fix: speed up 6 slow tests by mocking at correct abstraction level

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e7c60e9
docs: add retry_with_backoff mock-level anti-pattern

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334987f
fix: requeue missions on quota exhaustion instead of failing them

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df54eda
fix: scope branch saturation to autonomous exploration only
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151580a
feat: per-phase Telegram visibility during startup window
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520e764
fix: bypass personality formatter for startup-only status notifications
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99c00c8

Commits on Apr 15, 2026

fix: skip Jira startup notifications when Jira is not configured (#1189)

sukria-koan0
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claude
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df0c3af
feat: learn from unmerged closed PRs (#1190)

sukria-koan0
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claude
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06f7a13
feat: add strict_missions mode to gate autonomous work (#1175) (#1176)
sukria-koan0
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39a71ea
fix: replace atoomic skill prefix with generic team prefix in code and tests (#1143)

Koan-Bot
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claude
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1f111af
fix: stop cold-start Telegram flood on non-productive wake-ups (#1193) (#1194)

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c0449d5
fix: stop passive_wait tight-loop flood in make logs

Alexis Sukrieh
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claude
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71c5f7c
fix: isolate chat CLI in dedicated workspace to avoid session lock

Alexis Sukrieh
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claude
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c11bdfe
Merge remote-tracking branch 'origin/main' into koan/implement-1092
Alexis Sukrieh
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5051899
fix: merge main + restore sys.modules in runpy helper; break silent excepts

Alexis Sukrieh
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claude
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70487f7
chore: refresh coverage/test-count baselines after main merge

Alexis Sukrieh
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claude
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888a94f
fix(chat): restore journal/memory context and allow tool use

Alexis Sukrieh
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40ebfc1
fix(chat): serialize chat CLI calls to avoid session-lock collision

Alexis Sukrieh
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ef07eda
Merge branch 'koan/implement-1092'
Alexis Sukrieh
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f11541b
fix(chat): run chat + reflection from KOAN_ROOT with instance/ layout hints

Alexis Sukrieh
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claude
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f0e8d82
add a release workflow for maintainers
Alexis Sukrieh
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55ef9ee

Commits on Apr 16, 2026

feat: expose custom skills to GitHub/Jira @mentions

atoomic
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147592b
feat: add pause/resume, day-of-week filter, and status display to recurring missions

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06a8b75
fix(run): silence empty-state boot pings on resume

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ca8adcc
fix: raise default skill_timeout to 7200s and log tail on timeout

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41117bf
fix(test): mock _notify in first-iteration tests to prevent Claude CLI calls

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54db2b4
fix: add 20+ missing config keys to validation schema

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262309c

Commits on Apr 17, 2026

fix(run): gate GitHub/Jira boot notifications on their integration flags

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da4f6f6
feat(rebase): structured GitHub comment with summary, changes, stats sections

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db5abf9
docs(rebase): document structured PR comment format in user manual

Koan-Bot
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8e5fe0f
fix: remove dead shell-interpolation code in branches handler

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a87c32d
rebase: apply review feedback on #1107

Koan-Bot
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83b227d
rebase: apply review feedback on #1107

Koan-Bot
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45646e4

Commits on Apr 18, 2026

fix: strip @botname suffix from Telegram group commands

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538c159

Commits on Apr 19, 2026

fix: enforce per-project focus filtering in iteration planning (#1205)
sukria-koan0
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ec5d404
fix: distinguish morning ritual skip vs failure messaging

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b0fd087
feat: add --now flag to /fix, /rebase, /review for priority queuing

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3875785
fix: deduplicate rebase conflict resolution logic between claude_step and rebase_pr

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0e7fcd4

Commits on Apr 23, 2026

fix: reload github_skill_helpers in skill handlers to prevent stale cache errors

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a9433b6
fix: centralize stale module reload in _execute_handler instead of per-handler boilerplate

toddr-bot
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2740c9c
fix: resolve CI failures on #1236 (attempt 1)

toddr-bot
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5eaf561
fix: add logging to stale-module reload and restore inline hasattr guards

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eaac9a1

Commits on Apr 24, 2026

fix: retry fetching CI failure logs when first attempt returns empty

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3d063ec
fix: handle non-UTF-8 bytes in gh CLI output

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7234db9
fix: wrap instance path with Path() in plugin dir generation

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547057e
refactor: deduplicate _apply_review_feedback via run_claude_step (#1208)

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e6f5c2b
refactor: deduplicate builder functions in skill_dispatch.py (#1209)

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36db240

Commits on Apr 28, 2026

fix: make /ai skill respect skill_max_turns/skill_timeout config

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261b531
fix: escape #N refs in checklist with fullwidth ＃ to prevent GitHub auto-linking

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254f5b2
feat: expand mission_type taxonomy and add to cost_tracker JSONL

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2ad017f
feat: add persistent daily metrics snapshot system (#1224)

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bbf691e
fix: apply review feedback — use atomic_write, public load_outcomes, structured logging

Koan-Bot
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295a831
fix: prevent timeout override to success and add liveness watchdog

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4ed3456
feat: skip issues with existing PRs in /fix batch mode

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c6f02e9
fix: apply review feedback — tighten closing-keyword matching and clean up imports

toddr-bot
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1af6b3f
fix: resolve CI failures on #1250 (attempt 1)

toddr-bot
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b76a44a
fix: use configurable max_turns for /claudemd skill

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f80b6a7

Commits on Apr 29, 2026

refactor: centralize atomic-write pattern via utils.atomic_write_json

atoomic
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3bcdb06
feat: add reasoning effort controls to CLIProvider interface (#1243)

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35f8a24
fix: use configurable max_turns for deepplan and brainstorm skills

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01ae24f
feat: add mission-type aggregation and week/month convenience wrappers to cost_tracker

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31ffef7
refactor: move project-and-type aggregation into _aggregate to eliminate duplication

Koan-Bot
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01dbb3e
feat: pre-classify mission complexity to route to cheapest capable model

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f7cc942
fix: increase complexity routing max_turns defaults per review feedback

Koan-Bot
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2106c12
fix(rebase_pr): replace unconditional sleep with retry_with_backoff in fetch_pr_context

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627c575
fix: prevent analysis skills from hitting max turns too easily (#1256)

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54e3fd1
fix: resolve CI failures on #1263 (attempt 1)

Koan-Bot
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aad5fd3
feat: add OPSEC policy and data fencing for prompt injection defense

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b8b0431
fix: use nonce-based fence markers, fence PR diffs, move stdlib imports to module level

Koan-Bot
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7212195
fix: resolve CI failures on #1267 (attempt 1)

Koan-Bot
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5ce5a25
fix(tests): add missing effort kwarg to fake_build in tier tests

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faaa6fe

Commits on May 4, 2026

fix: add Python AST pre-analysis to dead_code skill and raise analysis_max_turns (#1256)

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b3695ac
fix: replace undefined log() with _log_runner() in quota check path

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fbc557b
fix: ensure prompt guard always provides reason when blocking

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f9a0bc1
fix: auto-recover tracked project files after integrity check failure (#1255)

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a453efb
fix: return partial output when skills hit max turns instead of raising

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7e6077a
fix(tests): eliminate RuntimeWarning from runpy in CLI tests (#1196)

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c301243
fix: evict stale modules on reload failure and expand refresh scope (#1235)

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a544cec
fix: resolve CI failures on #1237 (attempt 1)

toddr-bot
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71f120a

Commits on May 9, 2026

fix: replace lstrip('- ') with removeprefix('- ') across codebase

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fdcb526
fix: pass --disallowedTools as comma-separated value like --allowedTools

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d10b701
fix: add stdout heartbeats to skill runners for liveness watchdog

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2987a21
fix: add missing profile_runner and enforce runner registration consistency

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d3857a2
feat(stagnation): abort stuck Claude sessions via rolling stdout hash

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4b25a1d
refactor(stagnation): use threading.Event for cross-thread flag and clarify stderr diagnostics

sukria-koan0
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7771b9c
feat(stagnation): add max_retry_on_stagnation with per-mission requeue counter

sukria-koan0
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df7d2ad
fix: resolve CI failures on #1228 (attempt 1)

sukria-koan0
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5d2c8d9
feat: caveman output optimization (#1279)

atoomic
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21f4b6b
feat(brainstorm): add ideation framing and master synthesis

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36caf9b
fix: include stdout in CLI error diagnostics when stderr is empty

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da8cec7
fix: handle missing get_effort_for_mode gracefully on startup

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99ec9d2
feat(brainstorm): enforce template + log prompt provenance

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8934589

Commits on May 13, 2026

Create SECURITY.md
atoomic
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bd4c0e2
fix(security): quarantine new skill installs behind approval gate
atoomic
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9a32a06

Commits on May 14, 2026

feat(github): skip notifications on closed/merged PRs and issues

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f3d9f6f
fix(github): move json import to module level in command handler

Koan-Bot
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35c8a97
fix(review): remove in-progress marker comment from GitHub PRs

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bd41f14
fix: preserve original positions in brainstorm issue cross-references

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987bbfe
fix: add auth/quota error handling to skill dispatch path

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c8e30ac
fix: remove dead handle_quota_exhaustion call in skill dispatch quota path

Koan-Bot
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0d6fe47
feat(skill): add /check_notifications command with /read alias

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98ca115
fix(check_notifications): only consume signal when a notification provider is enabled

Koan-Bot
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8173257
fix: replace hardcoded module refresh with mtime-based detection

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ad46bdc
fix: exit non-zero after crash loop and guard stagnation from retry

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275f56f

Commits on May 15, 2026

koan: 2026-05-14-21:47

bluetoothbot
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66c3590
koan: 2026-05-14-21:48

bluetoothbot
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6cbb0d4
fix(missions): simplify needle reduction and gate nonproductive throttle behind threshold

bluetoothbot
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d271ed6
fix: resolve cross-owner PR URLs via git remote fallback

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bd642e1
fix: replace debug print with logging and make dedup case-insensitive in resolve_pr_location

Koan-Bot
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efadb1d
refactor: eliminate redundant I/O in post-mission pipeline

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19a73ac
refactor: extract _ensure_tokens helper to DRY token fallback pattern

Koan-Bot
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67aa5ea
refactor: remove dead code from branch_limiter, iteration_manager, config

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c42afd6
style: collapse double blank lines left by dead code removal

Koan-Bot
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aa2b23e
feat: task-aware memory recall to filter learnings by mission relevance

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48d3439
refactor: address PR review on task-aware memory recall

bluetoothbot
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d3dcc3b
feat: forward mission result text to outbox for SKIP/FAIL/ERROR outcomes

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4ce5edf
fix: embed commit SHAs in review comment body upfront

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2f77118
feat(rtk): integrate optional rtk-ai/rtk for compressed tool output (#1295)

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d7d8550
fix(rtk): use projects config for per-project opt-out and remove unrelated .spec/ gitignore

Koan-Bot
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793951b
feat: add structured mission progress checkpoints (#1247)

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7e597f5
fix: address review feedback on checkpoint crash recovery

Koan-Bot
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45544b7
fix: resolve CI failures on #1297 (attempt 1)

Koan-Bot
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72aa183
fix: address review feedback on checkpoint crash recovery

Koan-Bot
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8d1cfe6
refactor: extract token_parser module to centralize Claude JSON parsing

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5fd84ce
fix: add error context to memory_manager silent exception handlers

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54e98f9
fix: eliminate redundant file read in archive_journals

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890f961
feat: add workflow_dispatch release pipeline

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c0736f0
refactor(ci): remove duplicate test job from release workflow

Koan-Bot
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85917c6
refactor(ci): replace stable branch with stable tag in release workflow

Koan-Bot
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22e3d74
test: add comprehensive test suite for outbox_manager module

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482a1da
fix(jira): pick up @mentions ranked deep in result set
atoomic
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5c0891a
fix(github): persist dedup for assignment notifications

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441d775
test(jira): cover spaced nicknames in parse_jira_mention_command
atoomic
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410195e
feat(hooks): discover skill-bound lifecycle modules
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5cfd75c
docs(hooks): clarify skill-bound hook event-name filter

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0c17736
build(makefile): ensure pytest installed before test-skills runs

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1988129

Commits on May 16, 2026

fix(rebase): skip --onto when fork is simply behind upstream

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4ee21ee
fix(rebase): mock _run_git in _is_ancestor tests per review feedback

toddr-bot
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db4b030
fix(review): replace dumb diff truncation with file-aware strategy

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7e150f4
fix(review): reserve footer budget in truncate_diff and fix vacuous test assertion

Koan-Bot
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b88d08d
fix: resolve CI failures on #1335 (attempt 1)

Koan-Bot
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1ed0e96
test(dispatch): add failing tests for dotted project names

bluetoothbot
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c10ed5a
fix(dispatch): allow dots in project tag names

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60c244b
refactor(missions): consolidate project-tag regexes into shared constants

bluetoothbot
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5742248
feat(provider): route Claude system prompt through 0600 temp file

authored and
atoomic
committed
d516085
refactor(provider): apply review feedback — NamedTemporaryFile + dedup kwargs

bluetoothbot
authored and
atoomic
committed
60f88fe
fix(provider): attribute max_turns warning to its real source

authored and
atoomic
committed
c1c4886
perf(github): parallelize per-notification processing during checks

bluetoothbot
authored and
atoomic
committed
ff4f3b9
test: add failing tests for quota false-positive in cli_errors

authored and
atoomic
committed
1320e9c
fix: prevent false quota classification from stdout content

authored and
atoomic
committed
c805fa1
fix: coerce stdout/stderr to str in classify_cli_error

sukria-koan0
authored and
atoomic
committed
3114d0a
fix(rebase): add stdout heartbeats to prevent liveness watchdog kills

authored and
atoomic
committed
3f22445
feat(usage): burn-rate prediction and proactive exhaustion warnings (#1307)

authored and
atoomic
committed
3fa4718
rebase: apply review feedback on #1318

bluetoothbot
authored and
atoomic
committed
e1ccb94
feat: add dependency declarations and auto-install to SKILL.md

authored and
atoomic
committed
b3f8dc1
fix: address review — pip flag injection, PEP 440 parsing, test state cleanup

Koan-Bot
authored and
atoomic
committed
1a11bfd
chore: enable ruff PERF rules and fix violations

authored and
atoomic
committed
6259880
fix(ci): ignore skipped Dependabot auto-merge runs in CI status

authored and
atoomic
committed
2495dff
feat: route security audit findings to PVRS when available

authored and
atoomic
committed
911ac87
fix: redact PVRS fallback issues to prevent leaking vulnerability details publicly

Koan-Bot
authored and
atoomic
committed
04476fc
feat(git): sync all remotes before branch work

authored and
atoomic
committed
7aaec0d
fix: address review — remove double-fetch, fix fragile rebase tests

toddr-bot
authored and
atoomic
committed
3b39ba7
fix: resolve CI failures on #1334 (attempt 1)

toddr-bot
authored and
atoomic
committed
97fcac3
docs: enforce ruff linting in CLAUDE.md and add make lint target

authored and
atoomic
committed
5d1afc6
feat(messaging): add Matrix provider alongside Telegram and Slack

authored and
atoomic
committed
0d2925f
docs(matrix): advertise instance/config.yaml as primary, env vars as legacy

aiolibsbot
authored and
atoomic
committed
2e3fac7

Commits on May 17, 2026

lint: enable ruff SIM105 and convert try/except/pass to contextlib.suppress

authored and
atoomic
committed
f28d0c4
feat(ci): detect workflows blocked on maintainer approval and stop retrying

authored and
atoomic
committed
767c25d
fix(rebase): stream run_claude stdout so liveness watchdog sees output

authored and
atoomic
committed
be2aea3
refactor(cli_exec): extract stream_with_timeout helper and fix watchdog race

bluetoothbot
authored and
atoomic
committed
d5ff6d8
refactor(cli_exec): use contextlib.suppress in stream_with_timeout cleanup

bluetoothbot
authored and
atoomic
committed
b21a5ab
fix: use atomic writes for crash-sensitive file operations

authored and
atoomic
committed
3a4cbff
refactor(ci): introduce CI_STATUS_BLOCKED_APPROVAL constant

authored and
atoomic
committed
1ca92b4
test: isolate tests so they can run in parallel under pytest-xdist

authored and
atoomic
committed
ec2ab67
test(perf): parallelize the test suite with pytest-xdist

bluetoothbot
authored and
atoomic
committed
4d29b39
test: address review feedback on pytest-xdist isolation fixtures

bluetoothbot
authored and
atoomic
committed
a87abf7
test: mock resolve_pr_location in conftest to fix xdist gh flakes

bluetoothbot
authored and
atoomic
committed
dbdca5e
test(memory_manager): verify _get_file_tree skipped below compact threshold

authored and
atoomic
committed
77e6d14
feat(missions): add duplicate detection for GitHub-action missions

authored and
atoomic
committed
270e114
fix(missions): handle duplicate return value in all skill handlers

Koan-Bot
authored and
atoomic
committed
6f6a4d4
refactor(missions): extract queue_github_mission_once helper to reduce duplicate handling boilerplate

Koan-Bot
authored and
atoomic
committed
50e9a89
fix(skills): reload modules updated since process boot
atoomic
committed
305b045
fix(restart): per-process restart markers
atoomic
committed
cb6e927
fix(messaging): load every provider module on first call

atoomic
and
claude
committed
87a3aa6
fix(ci): use less alarming emoji for CI failure notifications

authored and
atoomic
committed
7b05b09
feat(watchdog): runner-side self-heal for stale or hung bridge

authored and
Koan-Bot
committed
fb53400
fix(watchdog): apply review feedback — docs path, zombie comment, failure counter
Koan-Bot
committed
9f68a2b