- Add options={} parameter to run() to match run-with-flags.js contract
- Remove case-insensitive flag from extension pre-filter for consistency
with ADHOC_FILENAMES regex (both now case-sensitive)
- Expand warning text to list more structured paths
- Add test cases for uppercase extensions (TODO.MD, NOTES.TXT)
Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
Replace the broad allowlist approach with a targeted denylist that only
warns on known ad-hoc filenames (NOTES, TODO, SCRATCH, TEMP, DRAFT,
BRAINSTORM, SPIKE, DEBUG, WIP) outside structured directories. This
eliminates false positives for legitimate markdown-heavy workflows while
still catching impulse documentation files.
Closes#988
Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
- Remove prompt_file immediately after shell expansion into -p arg,
avoiding stale temp files during long analysis windows (greptile feedback)
- Update test assertion to check analysis_relpath instead of analysis_file,
matching the cross-platform relative path change from earlier commits
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
Add @latest suffix to '@upstash/context7-mcp' in ECC_SERVERS so the
generated merge spec matches .codex/config.toml exactly, preventing
configDiffers from flagging false drift on --update-mcp runs.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
The cd "$PROJECT_DIR" failure path returned without removing prompt_file
and analysis_file, leaving stale temp files in .observer-tmp/.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
The rg pattern anchored at line start (^persistent_instructions) would
miss indented TOML entries. Use ^\s* prefix to match both top-level and
indented configurations.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
On Windows (native cmd/PowerShell), process.env.HOME is undefined.
Seven CLI entry points and two library files pass process.env.HOME
directly as homeDir without a cross-platform fallback, causing all
path resolutions to silently fail (resolving to "undefined/.claude/...").
Node.js os.homedir() correctly handles all platforms (HOME on Unix,
USERPROFILE on Windows, OS-level fallback). The project already uses
this pattern in scripts/lib/state-store/index.js and has a getHomeDir()
utility in scripts/lib/utils.js, but it was not applied consistently.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
The global sanity check (check-codex-global-state.sh) hard-fails when
persistent_instructions is missing from ~/.codex/config.toml, but neither
the baseline .codex/config.toml nor the sync script ever define this field.
This causes a clean install to report a failing sanity check even though the
sync otherwise succeeds (#967).
- Add persistent_instructions to the baseline .codex/config.toml so that
users who cp the config get a working default.
- Downgrade the sanity check from fail to warn, since persistent_instructions
is additive and optional — users who rely solely on AGENTS.md should not be
blocked.
Fixes#967 (persistent_instructions part; context7 naming addressed by #970)
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
Address reviewer feedback: under set +e, a failing cd would silently
leave CWD unchanged, causing the relative analysis path to break.
Add || return with a diagnostic log entry.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
Reviewers identified that merge-mcp-config.js --update-mcp would
silently strip the startup_timeout_sec from config.toml because the
ECC_SERVERS spec did not include it. Add startup_timeout_sec = 30 to
playwright, context7-mcp, github, memory, and sequential-thinking.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
Reviewers correctly identified that the relative analysis_relpath
(.observer-tmp/<file>) only resolves when CWD equals PROJECT_DIR.
Without an explicit cd, non-Windows users launching the observer from
a different directory would fail to read the analysis file.
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
Address remaining issues from #842 after PR #903 moved temp files to
PROJECT_DIR/.observer-tmp:
Bug A (path resolution): Use relative paths (.observer-tmp/filename)
in the prompt instead of absolute paths from mktemp. On Windows
Git Bash/MSYS2, absolute paths use MSYS-style prefixes (/c/Users/...)
that the spawned Claude subprocess may fail to resolve.
Bug B (asks for permission): Add explicit IMPORTANT instruction block
at the prompt start telling the Haiku agent it is in non-interactive
--print mode and must use the Write tool directly without asking for
confirmation.
Additional improvements:
- Pass prompt via -p flag instead of stdin redirect for Windows compat
- Add .observer-tmp/ to .gitignore to prevent accidental commits
Fixes#842
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
On first startup, npx-based MCP servers need to download packages before
they can respond. The default timeout is too short for this, causing
frequent "timed out after 10 seconds" errors reported in #544.
Add startup_timeout_sec = 30 to all five command-based MCP servers
(github, context7, memory, playwright, sequential-thinking). The URL-based
exa server is unaffected and left unchanged.
30 seconds was chosen over the 20s precedent in merge-mcp-config.js to
give extra headroom for slow networks on first run.
Fixes#544
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
