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feat(isolation): add configurable worktree creation timeout#1029

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norbinsh:archon/task-feat-configurable-worktree-timeout
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feat(isolation): add configurable worktree creation timeout#1029
norbinsh wants to merge 2 commits into
coleam00:devfrom
norbinsh:archon/task-feat-configurable-worktree-timeout

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@norbinsh

@norbinsh norbinsh commented Apr 10, 2026

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Summary

  • Problem: Worktree creation uses a hardcoded 30s timeout, causing failures for repos with heavy post-checkout hooks.
  • Why it matters: Users with complex post-checkout hooks (linting, dependency install, etc.) can't use worktree isolation without the creation timing out.
  • What changed: Added worktree.timeout config option (ms) that flows through the isolation layer to all worktree creation execFileAsync calls, with 30000ms default for backward compatibility.
  • What did not change (scope boundary): Removal, listing, and branch cleanup operations keep their hardcoded timeouts. No changes to @archon/git package, MergedConfig, or GlobalConfig.

UX Journey

Before

  User                     .archon/config.yaml         WorktreeProvider
  ────                     ───────────────────         ────────────────
  triggers workflow ─────▶ worktree.baseBranch
                           worktree.copyFiles
                           (no timeout option)  ─────▶ hardcoded 30000ms
                                                       ↳ TIMEOUT if hooks > 30s ❌

After

  User                     .archon/config.yaml         WorktreeProvider
  ────                     ───────────────────         ────────────────
  triggers workflow ─────▶ worktree.baseBranch
                           worktree.copyFiles
                          *worktree.timeout: 60000* ─▶ uses config timeout (or 30000ms default)
                                                       ↳ succeeds with heavy hooks ✅

Architecture Diagram

Before

RepoConfig.worktree ──▶ WorktreeCreateConfig ──▶ WorktreeProvider
  baseBranch                baseBranch              hardcoded 30000ms
  copyFiles                 copyFiles

After

RepoConfig.worktree ──▶ WorktreeCreateConfig ──▶ WorktreeProvider
  baseBranch                baseBranch              config.timeout ?? 30000
  copyFiles                 copyFiles
  [~] timeout               [~] timeout

Connection inventory:

From To Status Notes
RepoConfig.worktree WorktreeCreateConfig modified Added timeout?: number
WorktreeCreateConfig WorktreeProvider.create modified Timeout threaded to creation methods
WorktreeProviderexecFileAsync (creation) N/A modified 11 instances use config timeout
WorktreeProviderexecFileAsync (removal/list) N/A unchanged Keep hardcoded timeouts

Label Snapshot

  • Risk: risk: low
  • Size: size: S
  • Scope: isolation, config
  • Module: isolation:worktree-provider, core:config-types

Change Metadata

  • Change type: feature
  • Primary scope: isolation

Linked Issue

N/A — Feature request from workflow usage observation.

Validation Evidence (required)

bun run validate  # ✅ All pass
  • Type check: ✅ (9 packages)
  • Lint: ✅ (0 errors, 0 warnings)
  • Format: ✅
  • Tests: ✅ (all packages, 2901+ tests)
  • Build: ⚠️ Pre-existing @archon/web failure (missing mdast-util-gfm dep, identical on dev)

Security Impact (required)

  • New permissions/capabilities? No
  • New external network calls? No
  • Secrets/tokens handling changed? No
  • File system access scope changed? No

Compatibility / Migration

  • Backward compatible? Yes — default remains 30000ms when not configured
  • Config/env changes? Yes — new optional worktree.timeout in .archon/config.yaml
  • Database migration needed? No

Human Verification (required)

  • Verified scenarios: bun run validate passes, diff reviewed for all 15 timeout instances (11 updated, 4 kept)
  • Edge cases checked: Omitting config (default 30000ms), config injection path already passes full worktree object
  • What was not verified: Manual test with an actual heavy post-checkout hook repo

Side Effects / Blast Radius (required)

  • Affected subsystems/workflows: Only worktree creation in @archon/isolation
  • Potential unintended effects: None — pure config plumbing with default fallback
  • Guardrails/monitoring for early detection: Existing isolation tests cover all creation paths

Rollback Plan (required)

  • Fast rollback command/path: Revert the single commit
  • Feature flags or config toggles: N/A (opt-in via config, default unchanged)
  • Observable failure symptoms: Worktree creation timeouts (same as before this PR)

Risks and Mitigations

  • Risk: User sets unreasonably large timeout, causing long hangs on broken repos
    • Mitigation: This is user-controlled config; no worse than current hardcoded behavior. User can always Ctrl+C.

Summary by CodeRabbit

  • New Features
    • Added a configurable timeout for worktree creation operations. Users can set the timeout (milliseconds) for git steps during worktree setup; default is 30,000 ms.
    • Timeout is applied to PR and non-PR worktree creation and validates as a positive number.
    • Branch-deletion retry behavior continues to use the fixed 30,000 ms timeout.

Add `worktree.timeout` option (ms) to `.archon/config.yaml` that flows
through the isolation layer to worktree creation execFileAsync calls,
replacing the hardcoded 30000ms timeout. Default remains 30000ms for
backward compatibility. Fixes repos with heavy post-checkout hooks that
exceed 30s.

- Add `timeout?: number` to RepoConfig.worktree and WorktreeCreateConfig
- Thread timeout through WorktreeProvider creation methods (11 instances)
- Keep hardcoded timeouts for removal, listing, and branch cleanup ops

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@coderabbitai

coderabbitai Bot commented Apr 10, 2026

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📝 Walkthrough

Walkthrough

This change makes the git worktree operation timeout configurable. A new optional timeout?: number (milliseconds, default 30000) was added to worktree configuration types and is propagated through worktree creation paths so git command invocations use the configured timeout instead of a hardcoded 30000ms.

Changes

Cohort / File(s) Summary
Config Types
packages/core/src/config/config-types.ts, packages/isolation/src/types.ts
Added optional timeout?: number to RepoConfig.worktree and WorktreeCreateConfig with documented default 30000ms.
Worktree Provider
packages/isolation/src/providers/worktree.ts
Derive timeout from config (validated positive number, fallback 30000) and pass it into PR and branch worktree creation helpers; replaced hardcoded { timeout: 30000 } on git exec calls with the provided timeout. Note: the git branch -D retry still uses a hardcoded 30000ms.

Estimated code review effort

🎯 3 (Moderate) | ⏱️ ~20 minutes

Poem

🐰 I nibble the config, a timeout in hand,
I thread it through branches across this land.
Thirty seconds to start, or longer if planned,
Worktrees now listen — from burrow to strand. ✨

🚥 Pre-merge checks | ✅ 3
✅ Passed checks (3 passed)
Check name Status Explanation
Title check ✅ Passed The title 'feat(isolation): add configurable worktree creation timeout' accurately and concisely describes the main change—adding a new configurable timeout option for worktree creation in the isolation layer.
Description check ✅ Passed The PR description comprehensively covers all major template sections: Summary with problem/why/what changed/scope boundary, detailed UX Journey before/after, Architecture Diagram with connection inventory, proper Labels, Change Metadata, Validation Evidence with bun run validate results, Security Impact assessment, Compatibility/Migration details, Human Verification notes, Side Effects analysis, and Rollback Plan. All required sections are present and substantive.
Docstring Coverage ✅ Passed No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check.

✏️ Tip: You can configure your own custom pre-merge checks in the settings.

✨ Finishing Touches
🧪 Generate unit tests (beta)
  • Create PR with unit tests

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Actionable comments posted: 1

🤖 Prompt for all review comments with AI agents
Verify each finding against the current code and only fix it if needed.

Inline comments:
In `@packages/isolation/src/providers/worktree.ts`:
- Around line 559-560: Validate the user-provided worktree timeout before using
it: check worktreeConfig?.timeout (the value assigned to the local variable
timeout) is a finite positive integer within an acceptable bound (e.g., >0 and
<= some safe max like 5 minutes), throw a clear error if it is missing/invalid,
and use the sanitized value (e.g., validatedTimeout) when building process
options; update the validation in the worktree creation flow in this file
(around the const timeout = worktreeConfig?.timeout ?? 30000 line) so invalid
YAML-cast values are rejected early.
🪄 Autofix (Beta)

Fix all unresolved CodeRabbit comments on this PR:

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

ℹ️ Review info
⚙️ Run configuration

Configuration used: defaults

Review profile: CHILL

Plan: Pro

Run ID: dad1e612-6b56-475c-be9a-0a87e17e431c

📥 Commits

Reviewing files that changed from the base of the PR and between 95679fa and d951863.

📒 Files selected for processing (3)
  • packages/core/src/config/config-types.ts
  • packages/isolation/src/providers/worktree.ts
  • packages/isolation/src/types.ts

Comment thread packages/isolation/src/providers/worktree.ts Outdated
Guard against invalid YAML-cast values (e.g., strings, negatives, NaN)
by checking the type before using the config timeout. Falls back to
30000ms default for any nonsensical value.

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

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♻️ Duplicate comments (1)
packages/isolation/src/providers/worktree.ts (1)

559-562: ⚠️ Potential issue | 🟡 Minor

Clamp and finite-check worktree.timeout before using it in process options.

This check still accepts Infinity and unbounded large numbers. Please sanitize to a finite positive integer and cap to a safe upper bound before passing it to git calls.

🔧 Proposed hardening
-    const timeout =
-      typeof worktreeConfig?.timeout === 'number' && worktreeConfig.timeout > 0
-        ? worktreeConfig.timeout
-        : 30000;
+    const configuredTimeout = worktreeConfig?.timeout;
+    const timeout =
+      typeof configuredTimeout === 'number' &&
+      Number.isFinite(configuredTimeout) &&
+      configuredTimeout > 0 &&
+      configuredTimeout <= 2_147_483_647
+        ? Math.floor(configuredTimeout)
+        : 30000;
In Node.js child_process.execFile options, what are the valid bounds/behavior for `timeout`, specifically for `Infinity` and values greater than 2^31-1 milliseconds?
🤖 Prompt for AI Agents
Verify each finding against the current code and only fix it if needed.

In `@packages/isolation/src/providers/worktree.ts` around lines 559 - 562, The
computed timeout value from worktreeConfig?.timeout may be Infinity or exceed
platform limits; change the logic around the timeout variable so you first
verify Number.isFinite(worktreeConfig.timeout) and that it is > 0, coerce to an
integer (e.g., Math.floor), then clamp it to a safe upper bound such as
MAX_TIMEOUT = 2**31 - 1 (2147483647) before using timeout in process options for
git calls; update references to timeout (the const defined from
worktreeConfig?.timeout) to use this sanitized value.
🤖 Prompt for all review comments with AI agents
Verify each finding against the current code and only fix it if needed.

Duplicate comments:
In `@packages/isolation/src/providers/worktree.ts`:
- Around line 559-562: The computed timeout value from worktreeConfig?.timeout
may be Infinity or exceed platform limits; change the logic around the timeout
variable so you first verify Number.isFinite(worktreeConfig.timeout) and that it
is > 0, coerce to an integer (e.g., Math.floor), then clamp it to a safe upper
bound such as MAX_TIMEOUT = 2**31 - 1 (2147483647) before using timeout in
process options for git calls; update references to timeout (the const defined
from worktreeConfig?.timeout) to use this sanitized value.

ℹ️ Review info
⚙️ Run configuration

Configuration used: defaults

Review profile: CHILL

Plan: Pro

Run ID: a203ea52-7480-4aad-850a-077746e814c6

📥 Commits

Reviewing files that changed from the base of the PR and between d951863 and 25dc450.

📒 Files selected for processing (1)
  • packages/isolation/src/providers/worktree.ts

tasty007 pushed a commit to tasty007/Archon that referenced this pull request Apr 10, 2026
…nd subprocesses (coleam00#1030)

* Fix: prevent target repo .env leakage into Claude subprocess (coleam00#1029)

Bun auto-loads CWD .env before user code runs. When archon runs from a
target repo, that repo's ANTHROPIC_API_KEY (and other secrets) leaked into
process.env and were passed through to the Claude Code subprocess, billing
the wrong account.

Changes:
- Add SUBPROCESS_ENV_ALLOWLIST + buildCleanSubprocessEnv() utility
- claude.ts buildSubprocessEnv now starts from allowlist, not process.env
- CLI and server entry points strip all keys parsed from CWD .env on startup
  (replaces DATABASE_URL-only patch)
- Update claude.test.ts to assert ANTHROPIC_API_KEY no longer reaches subprocess
- Add env-allowlist tests

Fixes coleam00#1029

* fix: address review findings for env allowlist PR

- Register env-allowlist.test.ts in @archon/core test batch so security tests run in CI
- Remove CLAUDECODE, NODE_OPTIONS, VSCODE_INSPECTOR_OPTIONS from allowlist (they are always stripped by caller — listing them was semantically contradictory)
- Add intent comment to silent dotenv parse fallback in cli.ts and server/index.ts
- Add test for useGlobalAuth=false path verifying ANTHROPIC_API_KEY excluded from subprocess env
- Update security.md to document full CWD .env isolation and subprocess allowlist (was only describing DATABASE_URL)
Tyone88 pushed a commit to Tyone88/Archon that referenced this pull request Apr 16, 2026
…nd subprocesses (coleam00#1030)

* Fix: prevent target repo .env leakage into Claude subprocess (coleam00#1029)

Bun auto-loads CWD .env before user code runs. When archon runs from a
target repo, that repo's ANTHROPIC_API_KEY (and other secrets) leaked into
process.env and were passed through to the Claude Code subprocess, billing
the wrong account.

Changes:
- Add SUBPROCESS_ENV_ALLOWLIST + buildCleanSubprocessEnv() utility
- claude.ts buildSubprocessEnv now starts from allowlist, not process.env
- CLI and server entry points strip all keys parsed from CWD .env on startup
  (replaces DATABASE_URL-only patch)
- Update claude.test.ts to assert ANTHROPIC_API_KEY no longer reaches subprocess
- Add env-allowlist tests

Fixes coleam00#1029

* fix: address review findings for env allowlist PR

- Register env-allowlist.test.ts in @archon/core test batch so security tests run in CI
- Remove CLAUDECODE, NODE_OPTIONS, VSCODE_INSPECTOR_OPTIONS from allowlist (they are always stripped by caller — listing them was semantically contradictory)
- Add intent comment to silent dotenv parse fallback in cli.ts and server/index.ts
- Add test for useGlobalAuth=false path verifying ANTHROPIC_API_KEY excluded from subprocess env
- Update security.md to document full CWD .env isolation and subprocess allowlist (was only describing DATABASE_URL)
@Wirasm

Wirasm commented Apr 17, 2026

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This PR appears to fully address #1119. Consider adding Closes #1119 to the PR body so the issue auto-closes on merge.

@Wirasm

Wirasm commented Apr 20, 2026

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Thanks for the careful scoping and the detailed writeup, @norbinsh — the underlying problem (30s is too tight when repos have heavy post-checkout hooks) is real, and your PR body made it easy to evaluate.

After thinking about it though, I don't think a new config key is the right primitive here. A few reasons:

  1. Config bloat cost. .archon/config.yaml keys carry permanent maintenance + documentation weight. We try to avoid adding them without multiple concrete user reports (per the YAGNI guidance in CLAUDE.md).
  2. Half-measure. The same timeout: 30000 pattern appears in ~15 sites across worktree.ts — this PR makes 11 configurable and leaves 4 hardcoded (removal, branch-delete, listing). Either they all share one knob or none do.
  3. Cheaper fix exists. Just bumping the default from 30s to something generous (e.g., 5 min) covers the reported case without any new API surface. Genuine hangs (credential prompts in non-TTY, network stalls) still get caught by the ceiling; heavy post-checkout hooks stop failing.

I'm going to close this in favor of #XXXX, which consolidates all 15 sites onto a single GIT_OPERATION_TIMEOUT_MS = 300_000 constant. If you later hit a case where 5 min is also too tight, that's a strong signal we should revisit adding the config key — but let's cross that bridge if it comes up.

Really appreciate you surfacing the problem and writing up #1119. Crediting you in the replacement PR.

Wirasm added a commit that referenced this pull request Apr 20, 2026
All 15 worktree git-subprocess timeouts in WorktreeProvider were hardcoded
at 30000ms. Repos with heavy post-checkout hooks (lint, dependency install,
submodule init) routinely exceed that budget and fail worktree creation.

Consolidate them onto a single GIT_OPERATION_TIMEOUT_MS constant at 5 min.
Generous enough to cover reported cases while still catching genuine hangs
(credential prompts in non-TTY, stalled fetches).

Chosen over the config-key approach in #1029 to avoid adding permanent
.archon/config.yaml surface for a problem a raised default solves cleanly.
If 5 min turns out to also be too tight for real-world use, we'll revisit.

Closes #1119
Supersedes #1029

Co-authored-by: Shay Elmualem <12733941+norbinsh@users.noreply.github.com>
@Wirasm

Wirasm commented Apr 20, 2026

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Opened the replacement: #1306. Closing this in its favor. Thanks again @norbinsh — credited you in the commit and PR body.

@Wirasm Wirasm closed this Apr 20, 2026
Wirasm added a commit that referenced this pull request Apr 20, 2026
All 15 worktree git-subprocess timeouts in WorktreeProvider were hardcoded
at 30000ms. Repos with heavy post-checkout hooks (lint, dependency install,
submodule init) routinely exceed that budget and fail worktree creation.

Consolidate them onto a single GIT_OPERATION_TIMEOUT_MS constant at 5 min.
Generous enough to cover reported cases while still catching genuine hangs
(credential prompts in non-TTY, stalled fetches).

Chosen over the config-key approach in #1029 to avoid adding permanent
.archon/config.yaml surface for a problem a raised default solves cleanly.
If 5 min turns out to also be too tight for real-world use, we'll revisit.

Closes #1119
Supersedes #1029

Co-authored-by: Shay Elmualem <12733941+norbinsh@users.noreply.github.com>
joaobmonteiro pushed a commit to joaobmonteiro/Archon that referenced this pull request Apr 26, 2026
…nd subprocesses (coleam00#1030)

* Fix: prevent target repo .env leakage into Claude subprocess (coleam00#1029)

Bun auto-loads CWD .env before user code runs. When archon runs from a
target repo, that repo's ANTHROPIC_API_KEY (and other secrets) leaked into
process.env and were passed through to the Claude Code subprocess, billing
the wrong account.

Changes:
- Add SUBPROCESS_ENV_ALLOWLIST + buildCleanSubprocessEnv() utility
- claude.ts buildSubprocessEnv now starts from allowlist, not process.env
- CLI and server entry points strip all keys parsed from CWD .env on startup
  (replaces DATABASE_URL-only patch)
- Update claude.test.ts to assert ANTHROPIC_API_KEY no longer reaches subprocess
- Add env-allowlist tests

Fixes coleam00#1029

* fix: address review findings for env allowlist PR

- Register env-allowlist.test.ts in @archon/core test batch so security tests run in CI
- Remove CLAUDECODE, NODE_OPTIONS, VSCODE_INSPECTOR_OPTIONS from allowlist (they are always stripped by caller — listing them was semantically contradictory)
- Add intent comment to silent dotenv parse fallback in cli.ts and server/index.ts
- Add test for useGlobalAuth=false path verifying ANTHROPIC_API_KEY excluded from subprocess env
- Update security.md to document full CWD .env isolation and subprocess allowlist (was only describing DATABASE_URL)
prospapledge88 added a commit to prospapledge88/Archon that referenced this pull request May 5, 2026
* fix(workflows): fail loudly on SDK isError results (coleam00#1208) (coleam00#1291)

Previously, `dag-executor` only failed nodes/iterations when the SDK
returned an `error_max_budget_usd` result. Every other `isError: true`
subtype — including `error_during_execution` — was silently `break`ed
out of the stream with whatever partial output had accumulated, letting
failed runs masquerade as successful ones with empty output.

This is the most likely explanation for the "5-second crash" symptom in
coleam00#1208: iterations finish instantly with empty text, the loop keeps
going, and only the `claude.result_is_error` log tips the user off.

Changes:
- Capture the SDK's `errors: string[]` detail on result messages
  (previously discarded) and surface it through `MessageChunk.errors`.
- Log `errors`, `stopReason` alongside `errorSubtype` in
  `claude.result_is_error` so users can see what actually failed.
- Throw from both the general node path and the loop iteration path
  on any `isError: true` result, including the subtype and SDK errors
  detail in the thrown message.

Note: this does not implement auto-retry. See PR comments on coleam00#1121 and
the analysis on coleam00#1208 — a retry-with-fresh-session approach for loop
iterations is not obviously correct until we see what
`error_during_execution` actually carries in the reporter's env.
This change is the observability + fail-loud step that has to come
first so that signal is no longer silent.

Co-authored-by: Claude Opus 4.7 <noreply@anthropic.com>
(cherry picked from commit 4c6ddd9)

* fix(db): throw on corrupt commands JSON instead of silent empty fallback (coleam00#1033)

* fix(db): throw on corrupt commands JSON instead of silent empty fallback (coleam00#967)

getCodebaseCommands() silently returned {} when the commands column
contained corrupt JSON. Callers had no way to distinguish 'no commands'
from 'unreadable data', violating fail-fast principles.

Now throws a descriptive error with the codebase ID and a recovery hint.
The error is still logged for observability before throwing.

Adds two test cases: corrupt JSON throws, valid JSON string parses.

* fix: include parse error in log for better diagnostics

(cherry picked from commit 39a05b7)

* fix(isolation): raise worktree git-operation timeout to 5m (coleam00#1306)

All 15 worktree git-subprocess timeouts in WorktreeProvider were hardcoded
at 30000ms. Repos with heavy post-checkout hooks (lint, dependency install,
submodule init) routinely exceed that budget and fail worktree creation.

Consolidate them onto a single GIT_OPERATION_TIMEOUT_MS constant at 5 min.
Generous enough to cover reported cases while still catching genuine hangs
(credential prompts in non-TTY, stalled fetches).

Chosen over the config-key approach in coleam00#1029 to avoid adding permanent
.archon/config.yaml surface for a problem a raised default solves cleanly.
If 5 min turns out to also be too tight for real-world use, we'll revisit.

Closes coleam00#1119
Supersedes coleam00#1029

Co-authored-by: Shay Elmualem <12733941+norbinsh@users.noreply.github.com>
(cherry picked from commit cc78071)

* fix(web,server): show real platform connection status in Settings (coleam00#1061)

The Settings page's Platform Connections section hardcoded every platform
except Web to 'Not configured', so users couldn't tell whether their Slack/
Telegram/Discord/GitHub/Gitea/GitLab adapters had actually started.

- Server: /api/health now returns an activePlatforms array populated live
  as each adapter's start() resolves. Passed into registerApiRoutes so the
  reference stays mutable — Telegram starts after the HTTP listener is
  already accepting requests, so a snapshot would miss it.
- Web: SettingsPage.PlatformConnectionsSection now reads activePlatforms
  from /api/health and looks each platform up in a Set. Also adds Gitea
  and GitLab to the list (they already ship as adapters).

Closes coleam00#1031

Co-authored-by: Lior Franko <liorfr@dreamgroup.com>
(cherry picked from commit 08de8ee)

* fix: initialize options.hooks before merging YAML node hooks (coleam00#1177)

When a workflow node defines hooks (PreToolUse/PostToolUse) in YAML but
no hooks exist yet on the options object, applyNodeConfig crashes with
"undefined is not an object" because it tries to assign properties on
the undefined options.hooks.

Initialize options.hooks to {} before the merge loop.

Reproduces with: archon workflow run archon-architect (which uses
per-node hooks extensively).

Co-authored-by: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
(cherry picked from commit 7ea3214)

* fix: detect completion signal in any XML tag, not just <promise> (coleam00#1126) (coleam00#1184)

* fix: detect completion signal in any XML tag, not just <promise> (coleam00#1126)

Loop nodes with `until:` reported max_iterations_reached when the AI wrapped
the completion signal in XML tags other than `<promise>` (e.g.,
`<COMPLETE>ALL_CLEAN</COMPLETE>`). The three existing regex patterns all missed
this format, causing the loop to exhaust iterations and fail.

Changes:
- Add generic XML-wrapped signal pattern to `detectCompletionSignal`
- Extend `stripCompletionTags` to strip matched XML-wrapped signals from output
- Pass `loop.until` to `stripCompletionTags` call site in dag-executor
- Add unit tests for detection and stripping of XML-wrapped signals
- Add integration test for loop completing on final iteration with XML tags

Fixes coleam00#1126

* fix: address review findings for completion signal detection

- Update detectCompletionSignal JSDoc to document all three detection formats
- Update stripCompletionTags JSDoc to mention the `until` parameter
- Remove superfluous `m` flag from xmlWrappedPattern (no anchors, no effect)
- Document that XML tag names are matched independently (intentional permissiveness)
- Add test: detects signal in mismatched XML tags (permissive behavior)
- Add test: strips both <promise> and XML-tagged signal in same chunk
- Add assertion in DAG integration test that raw XML tags don't appear in sent messages

* simplify: reduce complexity in changed files

* fix: require matching XML tag names in completion-signal detection

Follow-up to the initial broadening in this PR. The first version of the
regex accepted mismatched open/close tags (e.g. `<COMPLETE>X</done>`)
which was a small false-positive surface when the AI interleaves tags
in prose. Tightens both detectCompletionSignal and stripCompletionTags
to capture the tag name and enforce it on the close via \1
backreference. Case-insensitivity on the tag name is preserved.

Test updates:
- Flip the "permissive mismatch" case to assert strict rejection with a
  comment explaining the guard.
- Add a case-insensitive matching case to lock that behavior in.

No behavior change for workflows that use matching tags (the
overwhelming common case) or for <promise>...</promise>. Behavior change
is limited to the narrow "open tag and close tag disagree" case, which
only happens when the AI is confused — in which case we'd rather report
max_iterations_reached and let the author inspect than silently call
the loop complete.

(cherry picked from commit bc25dee)

* fix(web): allow deleting nodes from Workflow Builder (coleam00#971) (coleam00#1113)

* fix(web): allow deleting nodes from Workflow Builder (coleam00#971)

Three independent gaps prevented users from deleting nodes added to the
Workflow Builder canvas: dropped nodes were never auto-selected so
keyboard shortcuts silently no-oped, no right-click context menu
existed, and the Delete Node button was buried in the Advanced tab
(hidden below the viewport for Prompt/Command, completely absent for
Bash since bash nodes have no Advanced tab).

Fixes coleam00#971.

* fix(web): push undo snapshot before adding nodes on canvas

Call onPushSnapshot() before setNodes() in both onDrop and quick-add
handlers so that node additions are captured by undo/redo history.

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

* fix(web): address PR coleam00#1113 review feedback

- Hold nodes/edges in refs so handleNodeDeleteById and onPushSnapshot
  can't capture stale pre-drop state (fixes undo-stack correctness).
- Clamp context-menu x/y to viewport so right-click near edges stays
  fully on-screen.
- Drop non-conformant role=menu/menuitem from the single-item context
  menu; rely on the native button for accessibility.
- Extend isInputTarget() to cover ARIA combobox/textbox/searchbox so
  Backspace in Radix/shadcn widgets never nukes a node.
- Extract handleBuilderKeydown as a pure function and add tests
  covering the Delete/Backspace + isInputTarget invariant.
- Remove issue-number references from code comments per CLAUDE.md.
- Document the new delete affordances in the Workflow Builder docs.
- Inline context-menu dismissal, rename pointer handler, drop unused
  deps in keyboardActions useMemo.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

---------

Co-authored-by: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
(cherry picked from commit d7f36b2)

* fix(workflows): make archon-adversarial-dev sed replacement macOS-safe (coleam00#1155)

* fix(workflows): make adversarial init sed portable on macOS

* chore: regenerate bundled-defaults after adversarial-dev sed fix

Sync generated bundle with the new temp-file sed pattern in
archon-adversarial-dev.yaml so check:bundled passes and binary
distributions ship the macOS-safe version.

---------

Co-authored-by: laplace young <yangqk12@whu.edu.cn>
Co-authored-by: Rasmus Widing <rasmus.widing@gmail.com>
(cherry picked from commit 817186d)

* fix(deps): override transitive axios to ^1.15.0 for CVE-2025-62718 (coleam00#1330)

axios <1.15.0 can be coerced to bypass NO_PROXY rules via hostname
normalization, enabling SSRF in the right network shape. Archon pulls
axios transitively through @slack/bolt (^1.12.0) and @slack/web-api
(^1.13.5); before this change bun.lock resolved axios@1.13.6 — within
the vulnerable range.

Adding "axios": "^1.15.0" to the root package.json overrides bumps the
transitive resolution to axios@1.15.1 (latest compatible 1.x). Both
Slack range specs accept it without API surface changes — no downstream
code touches axios directly.

Supersedes coleam00#1153. Credits @stefans71 for identifying and reporting the
vulnerability; their PR was stale on the lockfile (0.3.5 → 0.3.6 drift
on dev), so this is a fresh one-line re-do on current dev.

Closes coleam00#1053.

Co-authored-by: Stefans71 <stefans71@users.noreply.github.com>
(cherry picked from commit ae2d936)

* fix(cli): surface stale-workspace registration error instead of fake "not a git repo" (coleam00#1332)

* fix(cli): surface stale-workspace registration error instead of fake "not a git repo"

When workflowRunCommand auto-registers an unregistered repo, a stale
~/.archon/workspaces/<owner>/<repo>/source symlink (pointing to an old
checkout) causes createProjectSourceSymlink() in @archon/paths to throw:

  Source symlink at <linkPath> already points to <existing>, expected <target>

The CLI caught that in a try/catch, logged it at warn level, continued
with `codebase = null`, and then the isolation / resume branches hit
their "codebase missing" fallback and threw the generic:

  Cannot create worktree: not in a git repository.

That message is false — the repo is valid; the Archon workspace entry
is stale. It sends users down the wrong diagnostic path (checking git
config, permissions, etc.) instead of pointing at the workspace dir.

Fix: preserve the registration error on a new `codebaseRegistrationError`
local, and at both fallback sites (resume + worktree-creation) check it
before the generic "not a git repo" branch. When set, throw a truthful:

  Cannot {create worktree,resume}: repository registration failed.
  Error: <original message>
  Hint: Remove the stale workspace entry at <dir> and retry, or
        use --no-worktree to skip isolation.

The hint's exact path comes from a small parser that extracts the
workspace directory from the known "Source symlink at …" format; when
the message shape doesn't match (future error text changes), the parser
returns null and we fall back to a generic "check registration under
<archon-home>/workspaces" hint — safe degradation.

Regression test in workflow.test.ts asserts the new error message and
negatively asserts the old "not in a git repository" string is gone.

Supersedes coleam00#1157 — that PR was draft + CONFLICTING against current dev,
and also mentioned Windows test-compat changes that weren't in the diff
(pruned scope). This is a fresh re-do focused strictly on coleam00#1146.

Closes coleam00#1146.

Co-authored-by: Bortlesboat <Bortlesboat@users.noreply.github.com>

* review: add resume-path test, null-fallback test, update troubleshooting docs

Addresses multi-agent review feedback on this PR:

- Add regression test for the --resume fallback site (the worktree-create
  site was already covered; the resume site had identical wiring but zero
  test coverage).
- Add test for the unrecognized-error-shape branch of
  buildRegistrationFailureError so the generic workspace hint is pinned
  (prevents accidental inversion of the stale-entry vs generic-hint
  ternary).
- Update the troubleshooting page to key on the new
  "Cannot create worktree: repository registration failed." message.
  Users hitting the new error won't find the page under the old heading,
  and the "In the future..." note is obsolete now that the error itself
  contains the cleanup path.
- Trim both new docblocks: keep the load-bearing cross-package error
  string contract in extractStaleWorkspaceEntry, drop narration of what
  the code already shows. Drop the "Before this helper existed..."
  paragraph from buildRegistrationFailureError — that's CHANGELOG
  material. Drop PR-reference suffix from the test section divider.

* review: guard getArchonHome in hint + export parser for direct tests

Two follow-up fixes to the multi-agent review commit (f32f002):

CodeRabbit finding — unguarded getArchonHome() in the fallback hint.
If getArchonHome() ever throws (misconfigured env vars, permission issues
on the resolution path), the registration-failure Error would never get
constructed: we'd throw a secondary home-resolution error that masks the
root cause. Wrap the fallback branch in try/catch — prefer losing the
exact path in the hint over replacing the actionable registration error.
A safe generic hint ("Check your Archon workspace registration and retry")
takes over when getArchonHome() throws. The original error.message is
always embedded verbatim in the re-thrown Error.

S2 — export extractStaleWorkspaceEntry for direct table tests. The parser
is where the cross-package string contract with @archon/paths actually
lives; direct tests against it are cheaper than end-to-end CLI tests and
pin the edge cases:

- POSIX path with forward slashes (typical unix user)
- Windows path with backslashes (verifies Math.max(lastIndexOf / , lastIndexOf \))
- Unrelated error message (no prefix) → null
- Prefix matches but delimiter missing → null
- Source path without any separator → null (guards against returning
  empty string, which would produce a nonsense "Remove the stale
  workspace entry at " hint)
- Empty string → null

Six new cases in the test file. The claim of Windows support in the
PR description is now actually verified.

* fix(test): make generic-hint assertion path-separator agnostic

Windows test runner (CI) hit:
  Expected to contain: "Check your Archon workspace registration under /home/test/.archon/workspaces"
  Received: "... under \home\test\.archon\workspaces and retry, ..."

path.join normalizes to `\` on Windows and `/` on POSIX. The test hardcoded
forward slashes in the expected substring. Split into two separator-agnostic
asserts: the prefix up to "under", then `/workspaces\b/` regex for the final
path segment. Behavior doesn't change — the hint still gets the full
path.join'd workspaces dir on either platform.

---------

Co-authored-by: Bortlesboat <Bortlesboat@users.noreply.github.com>
(cherry picked from commit 056707d)

* fix(server,web,workflows): web approval gates auto-resume + reject-with-reason dialog (coleam00#1329)

* fix(server,web,workflows): web approval gates auto-resume + reject-with-reason dialog

Fixes three tightly-coupled bugs that made web approval gates unusable:

1. orchestrator-agent did not pass parentConversationId to executeWorkflow
   for any web-dispatched foreground / interactive / resumable run. Without
   that field, findResumableRunByParentConversation (the machinery the CLI
   relies on for resume) couldn't find the paused run from the same
   conversation on a follow-up message, and the approve/reject API handlers
   had no conversation to dispatch back to.

2. POST /api/workflows/runs/:runId/{approve,reject} recorded the decision
   and returned "Send a message to continue the workflow." — the workflow
   never actually resumed. Added tryAutoResumeAfterGate() that mirrors what
   workflowApproveCommand / workflowRejectCommand already do on the CLI:
   look up the parent conversation, dispatch `/workflow run <name>
   <userMessage>` back through dispatchToOrchestrator. Failures are
   non-fatal — the user can still send a manual message as a fallback.

3. The during-streaming cancel-check in dag-executor aborted any streaming
   node whenever the run status left 'running', including the legitimate
   transition to 'paused' that an approval node performs. A concurrent AI
   node in the same DAG layer now tolerates 'paused' and finishes its own
   stream; only truly terminal / unknown states (null, cancelled, failed,
   completed) abort the in-flight stream.

Web UI: ConfirmRunActionDialog gains an optional reasonInput prop (label +
placeholder) that renders a textarea and passes the trimmed value to
onConfirm. WorkflowRunCard (dashboard) and WorkflowProgressCard (chat)
both use it for Reject now — the chat card was still on window.confirm,
which was both inconsistent with the dashboard and couldn't collect a
reason. The trimmed reason threads through to $REJECTION_REASON in the
workflow's on_reject prompt.

Supersedes coleam00#1147. @jonasvanderhaegen surfaced the root cause and shape of
the fix; that PR was 87 commits stale and pre-dated the reject-UX upgrade
(coleam00#1261 area), so this is a fresh re-do on current dev.

Tests:
- packages/server/src/routes/api.workflow-runs.test.ts — 5 new cases:
  approve with parent dispatches; approve without parent returns "Send a
  message"; approve with deleted parent conversation skips safely; reject
  dispatches on-reject flows; reject that cancels (no on_reject) does NOT
  dispatch.
- packages/core/src/orchestrator/orchestrator.test.ts — updated the two
  synthesizedPrompt-dispatch tests for the new executeWorkflow arity.

Closes coleam00#1131.

Co-authored-by: Jonas Vanderhaegen <7755555+jonasvanderhaegen@users.noreply.github.com>

* fix: address multi-agent review findings for web approval auto-resume

C1 (critical) — cross-adapter misrouting guard
  tryAutoResumeAfterGate now checks parentConv.platform_type === 'web'
  before dispatching. Non-web parents (Slack/Telegram/GitHub/Discord)
  being approved from the dashboard skip auto-resume rather than
  dispatching a Slack thread_ts or Telegram chat_id through the web
  adapter's lock manager.

C2 (critical) — fire-and-forget dispatch replaced with await
  void dispatchToOrchestrator() meant the "Resuming workflow." response
  fired before async work completed, and the outer try/catch couldn't
  observe dispatch failures. Changed to await; response now accurately
  reflects dispatch outcome.

I1 — replaced logPrefix string-template (which produced 3-segment
  api.workflow_*.dispatched event names violating {domain}.{action}_{state})
  with literal event names per action, branched inside the helper.
  Accepts action: 'approve' | 'reject' instead.

I2 — corrected misleading "foreground/interactive" qualifier in the
  approve-endpoint comment; background web dispatches also set
  parent_conversation_id via the pre-created run, so they auto-resume too.

I3 — extracted shouldContinueStreamingForStatus() as a small exported
  policy and added 7 unit tests covering running/paused/null/cancelled/
  failed/completed/unknown. Full-integration coverage of the paused-
  tolerance invariant would require manipulating the 10s
  CANCEL_CHECK_INTERVAL_MS, which is flaky-prone; unit test of the
  policy function captures the same invariant deterministically.

I4 — updated approval-nodes.md and authoring-workflows.md to reflect
  that Web UI approve/reject now auto-resumes (no "send a follow-up
  message" copy), documented the reject-with-reason dialog and
  $REJECTION_REASON flow, and called out the cross-platform caveat.

S1 — rewrote streaming status check as positive shouldContinue safe-list
  via the extracted policy function, matching the inline comment.

S2 — inlined handleReject on the dashboard rather than squeezing
  rejectWorkflowRun through runAction with a closure; keeps runAction
  narrow for the single-arg lifecycle actions.

S5 — new regression test covering the non-web-parent skip path
  (slack-platform parent → dispatch skipped → response falls back to
  "Send a message to continue").

S6 — removed stale reference to runAction in ConfirmRunActionDialog's
  onConfirm JSDoc (no longer accurate now that WorkflowProgressCard
  calls the dialog without runAction).

S7 — fixed misleading "user can resume manually by sending any message"
  docstring (resume is triggered by re-running the workflow command,
  not by an arbitrary message).

Skipped as out-of-scope:
  S3 — cancelWorkflowRun rowCount check (pre-existing defect; separate PR)
  S4 — tightening expect.anything() to UUID regex (deferred)
  S8 — 12-positional-arg executeWorkflow → options-bag refactor
    (tracked follow-up)

bun run validate green locally; 68 tests in api.workflow-runs.test.ts
(up from 67), 173 in dag-executor.test.ts (up from 166).

* review: close I1/I2/I3/I4/I6 — paused tolerance in loop + emitter, resume test, useId

I1 (loop inter-iteration check) — dag-executor.ts:1715
  Used `!== 'running'` in the loop node's between-iteration status check.
  A sibling approval node pausing the run in the same topological layer
  would abort the loop mid-iteration with "Loop node '<id>' stopped at
  iteration N (paused)". Switched to the shared shouldContinueStreamingForStatus
  helper so paused is tolerated — same semantics the streaming check got.
  Extended inline comment explains the sibling-layer concurrency reason.

I2 (skipIfStatusChanged emitter unregister) — dag-executor.ts:2886
  At DAG-finalization writes the helper correctly skipped writing on any
  non-running state (paused included — don't mark a paused run complete),
  but it *also* called getWorkflowEventEmitter().unregisterRun() which
  broke SSE observability for a run that's still live (waiting for user
  approval). Split the two responsibilities: skip the write for all
  non-running states, but only unregister the emitter for terminal states
  (cancelled / deleted / completed / failed). `paused` keeps the emitter
  registered so resume stays visible on the dashboard.

I3 (foreground_resume_detected branch untested) — orchestrator-agent.test.ts
  That branch was modified as part of the original fix (added
  parentConversationId as 11th positional arg) but no existing test
  configured mockFindResumableRunByParentConversation to return non-null.
  A positional mistake (e.g. accidentally swapping issueContext and
  parentConversationId) would silently break auto-resume with no failing
  test. New regression test configures the mock, asserts both the cwd
  comes from the resumable run's working_path AND parentConversationId
  is passed correctly at position 10.

I4 (null-parent log level) — api.ts tryAutoResumeAfterGate
  `getConversationById` returning null is a data-integrity signal (the
  parent conversation was deleted while the run was paused) — worth
  surfacing at info level so operators notice, not hiding at debug.
  Missing platform_conversation_id on an existing row would be an unusual
  DB state and stays at debug. Added `parentDeleted: boolean` to the log
  context so the two cases are distinguishable in observability.

I6 (hardcoded DOM id) — ConfirmRunActionDialog.tsx
  `id="confirm-run-action-reason"` collided when multiple dialog instances
  share the same page (Radix portals mitigate in practice but the code
  was fragile). Switched to React.useId() so each instance gets a unique
  id — htmlFor/id wiring preserved.

S11 (arity-only assertion) — orchestrator-agent.test.ts:1092 area
  The interactive-workflow-on-web test asserted mockExecuteWorkflow was
  called, but nothing about the args. Added a specific assertion that
  position 10 (parentConversationId) equals 'conv-1' (the caller
  conversation id) — pins the wiring that I1/I2 depend on being correct.

Deferred (from review S1-S10, I5, I7):
  - S1 (ExecuteWorkflowOptions bag) — tracked as standalone follow-up;
    12 positional args with 2 adjacent optionals is a real maintenance
    hazard but the refactor deserves its own PR.
  - S7 (WHY comment on non-web else branch) — review text says the branch
    "correctly omits" parentConversationId but the code passes it; the
    combination with the web-parent guard in tryAutoResumeAfterGate is
    intentional. Not adding a justify-what-we-don't-do comment.
  - S2/S3/S4/S5/S8/S9/S10 — pure polish (event-map ternary, platformConvId
    inlining, shared constant for REJECTION_REASON_INPUT, onChange arrow
    shorthand, discriminated union, docblock trim, suffix comment drop)
  - I5 (soften "Resuming workflow." to "— check the dashboard for progress")
    — users clicking from the dashboard are already on the dashboard; the
    current text is accurate (enqueue completed) and concise.
  - I7 (test dispatch-throws path) — covered implicitly by the try/catch
    branch of tryAutoResumeAfterGate returning false; a direct test would
    require mocking handleMessage to throw and would couple to
    dispatchToOrchestrator internals.

bun run validate green; 189 dag-executor tests, 98 orchestrator-agent
tests, 68 api.workflow-runs tests — all the new cases pass.

---------

Co-authored-by: Jonas Vanderhaegen <7755555+jonasvanderhaegen@users.noreply.github.com>
(cherry picked from commit d5c1cd9)

* feat(providers): autodetect canonical binary install paths for Claude and Codex (coleam00#1361)

Both binary resolvers previously stopped at env-var + explicit config and
threw a "not found" error when neither was set. Users who followed the
upstream-recommended install flow (Anthropic's `curl install.sh` for
Claude, `npm install -g @openai/codex`) still had to manually set either
`CLAUDE_BIN_PATH` / `CODEX_BIN_PATH` or the corresponding config field
before any workflow could run.

Add a tier-N autodetect step between the explicit config tier and the
install-instructions throw. Purely additive: env and config still win
when set (precedence covered by new tests). On autodetect miss, the same
install-instructions error fires as before.

Claude probe list (verified against docs.claude.com "Uninstall Claude
Code → Native installation" section):
  - $HOME/.local/bin/claude            (mac/linux native installer)
  - $USERPROFILE\.local\bin\claude.exe (Windows native installer)

Codex probe list (verified against openai/codex README; npm global-
install puts the binary at `{npm_prefix}/bin/<name>` on POSIX,
`{npm_prefix}\<name>.cmd` on Windows):
  - $HOME/.npm-global/bin/codex   (user-set `npm config set prefix`)
  - /opt/homebrew/bin/codex       (mac arm64 with homebrew-node)
  - /usr/local/bin/codex          (mac intel / linux system node)
  - %APPDATA%\npm\codex.cmd       (Windows npm global default)
  - $HOME\.npm-global\codex.cmd   (Windows user-set prefix)

Not probed (explicit override still required):
  - Custom npm prefixes — `npm root -g` would need a subprocess per
    resolve, too much surface for a probe helper
  - `brew install --cask codex` — cask layout isn't a PATH binary
  - Manual GitHub Releases extracts — placement is user-determined
  - `~/.bun/bin/codex` — not documented in openai/codex README

Pi provider intentionally has no equivalent change: the Pi SDK is
bundled into the archon binary (no subprocess), so there's no "binary"
to resolve. Pi auth lives at `~/.pi/agent/auth.json` which the SDK
already finds by default, and the PR A shim (`PI_PACKAGE_DIR`) handles
the package-dir case via Pi's own documented escape hatch.

E2E verified: removed both config entries from ~/.archon/config.yaml,
rebuilt compiled binary, ran `archon workflow run archon-assist` and a
Codex workflow. Logs showed `source: 'autodetect'` for both, responses
returned cleanly.

(cherry picked from commit b99cee4)

* fix(providers/test): use os.homedir() instead of $HOME in claude binary autodetect test

The native-installer autodetect test computed its expected path from
process.env.HOME, but the implementation uses node:os homedir(). On
Windows, HOME is typically unset (Windows uses USERPROFILE), so the
test fell back to '/Users/test' while the resolver returned the real
home dir — making the spy's path-equality check fail and breaking CI
on windows-latest.

Mirror the implementation by importing homedir() from node:os and
joining with node:path so the expected path matches the actual
platform-resolved home and separator.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
(cherry picked from commit f9f8775)

* fix(server): contain Discord login failure so it doesn't kill the server (coleam00#1365)

Reported in coleam00#1365: a user running `archon serve` with DISCORD_BOT_TOKEN
set but the "Message Content Intent" toggle disabled in the Discord
Developer Portal saw the entire server crash with `Used disallowed
intents`. Discord rejects the gateway connection (close code 4014) when
a privileged intent is requested without being enabled, and the
unguarded `await discord.start()` propagated the error all the way up,
taking the web UI down with it.

Wrap discord.start() in try/catch — log the failure with an actionable
hint (special-cased for the disallowed-intent error) and continue
running. Other adapters and the web UI come up regardless. The shutdown
handler already uses optional chaining (`discord?.stop()`) so nulling
discord after a failed start is safe.

Other adapters (Telegram, Slack, GitHub, Gitea, GitLab) have the same
unguarded-start pattern but are out of scope for this fix — addressing
them is tracked separately.

Also expanded the Discord setup docs with a caution callout that names
the exact error string and the new log event so users can grep for
both.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
(cherry picked from commit 5957c6e)

---------

Co-authored-by: Cole Medin <cole@dynamous.ai>
Co-authored-by: Claude Opus 4.7 <noreply@anthropic.com>
Co-authored-by: Kagura <kagura.chen28@gmail.com>
Co-authored-by: Rasmus Widing <152263317+Wirasm@users.noreply.github.com>
Co-authored-by: Shay Elmualem <12733941+norbinsh@users.noreply.github.com>
Co-authored-by: Lior Franko <lior.franko@ironsrc.com>
Co-authored-by: Lior Franko <liorfr@dreamgroup.com>
Co-authored-by: Alex Siri <alexsiri7@gmail.com>
Co-authored-by: Ahmed <44034059+medevs@users.noreply.github.com>
Co-authored-by: CauchYoung <2024302072042@whu.edu.cn>
Co-authored-by: laplace young <yangqk12@whu.edu.cn>
Co-authored-by: Rasmus Widing <rasmus.widing@gmail.com>
Co-authored-by: Stefans71 <stefans71@users.noreply.github.com>
Co-authored-by: Bortlesboat <Bortlesboat@users.noreply.github.com>
Co-authored-by: Jonas Vanderhaegen <7755555+jonasvanderhaegen@users.noreply.github.com>
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