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fix(observer): improve Windows compatibility for temp files and Haiku prompt#972

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affaan-m merged 5 commits intoaffaan-m:mainfrom
Lidang-Jiang:fix/observer-windows-temp-files
Mar 28, 2026
Merged

fix(observer): improve Windows compatibility for temp files and Haiku prompt#972
affaan-m merged 5 commits intoaffaan-m:mainfrom
Lidang-Jiang:fix/observer-windows-temp-files

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@Lidang-Jiang Lidang-Jiang commented Mar 28, 2026

Summary

  • Use relative paths in observer prompt for cross-platform compatibility
  • Add explicit non-interactive mode instructions to prevent Haiku agent from asking for confirmation
  • Pass prompt via -p flag instead of stdin redirect for Windows compatibility
  • Guard cd "$PROJECT_DIR" failure with cleanup and early return
  • Clean up prompt_file immediately after shell expansion (greptile feedback)
  • Fix test assertion to match analysis_relpath variable rename
  • Add .observer-tmp/ to .gitignore

Problem

After PR #903 moved temp files from /tmp to PROJECT_DIR/.observer-tmp, two issues from #842 remain:

Bug A: On Windows (Git Bash/MSYS2), mktemp returns absolute paths with MSYS-style prefixes (/c/Users/...) that the spawned Claude subprocess cannot resolve, causing ~50% of analysis cycles to fail with "cannot access the file".

Bug B: When the Haiku agent can read the analysis file, it asks "Would you like me to save these as instinct files?" instead of writing directly — which nobody can answer in --print mode. Result: 0 instinct files created across 12+ analysis cycles.

Changes

File Change
observer-loop.sh Use relative path .observer-tmp/<filename> instead of absolute path in prompt
observer-loop.sh Add IMPORTANT: block telling agent it's in non-interactive mode, must write directly
observer-loop.sh Pass prompt via -p "$(cat ...)" instead of < file stdin redirect
observer-loop.sh Guard cd "$PROJECT_DIR" with error logging and temp file cleanup on failure
observer-loop.sh Remove prompt_file immediately after shell expansion (adopted from greptile review)
observer-memory.test.js Update assertion to check ${analysis_relpath} instead of ${analysis_file}
.gitignore Add .observer-tmp/ to prevent accidental commits

Reviewer feedback addressed

  • CodeRabbit: Ensure Claude runs from PROJECT_DIR when using relative paths ✅ (commit 31af1ad)
  • CodeRabbit: Clean up temp files on cd failure path ✅ (commit 4517321)
  • CodeRabbit: Guard cd "$PROJECT_DIR" failure ✅ (commit 194bc00)
  • greptile: Relative path assumes CWD==PROJECT_DIR — all platforms affected ✅ (commit 31af1ad)
  • greptile: prompt_file no longer needed after shell expansion ✅ (commit 7a4cb8c)
  • cubic: Relative analysis path not anchored to PROJECT_DIR ✅ (commit 31af1ad)
  • cubic: Early return on failed cd skips cleanup ✅ (commit 4517321)
Before (observer-memory tests — test fails because assertion expects analysis_file but code uses analysis_relpath)
$ bash -n skills/continuous-learning-v2/agents/observer-loop.sh
Shell syntax: OK

$ node tests/hooks/observer-memory.test.js
=== Observer Memory Fix Tests (#521) ===

--- observe.sh signal throttling ---
  ✓ observe.sh contains SIGNAL_EVERY_N throttle variable
  ✓ observe.sh uses a counter file instead of signaling every call
  ✓ observe.sh only signals when counter reaches threshold
  ✓ observe.sh default throttle is 20 observations per signal

--- observer-loop.sh re-entrancy guard ---
  ✓ observer-loop.sh defines ANALYZING guard variable
  ✓ on_usr1 checks ANALYZING before starting analysis
  ✓ on_usr1 sets ANALYZING=1 before and ANALYZING=0 after analysis

--- observer-loop.sh cooldown throttle ---
  ✓ observer-loop.sh defines ANALYSIS_COOLDOWN
  ✓ on_usr1 enforces cooldown between analyses
  ✓ default cooldown is 60 seconds

--- observer-loop.sh tail-based sampling ---
  ✓ analyze_observations uses tail to sample recent observations
  ✓ default max analysis lines is 500
  ✓ analysis temp file is created and cleaned up
  ✓ observer-loop uses project-local temp directory for analysis artifacts
  ✓ observer-loop prompt requires direct instinct writes without asking permission
  ✗ prompt references analysis_file not full OBSERVATIONS_FILE
    Error: Prompt should point Claude at the sampled analysis file, not the full observations file

--- Signal counter file behavior ---
  ✓ counter file increments and resets correctly
  ✓ counter file handles missing/corrupt file gracefully

--- observe.sh end-to-end throttle (shell execution) ---
  ✓ observe.sh creates counter file and increments on each call

--- Observer Haiku invocation flags ---
  ✓ claude invocation includes --allowedTools flag
  ✓ allowedTools includes Read permission
  ✓ allowedTools includes Write permission
  ✓ claude invocation still includes ECC_SKIP_OBSERVE and ECC_HOOK_PROFILE guards

=== Test Results ===
Passed: 22
Failed: 1
Total:  23
After (observer-memory tests + full test suite — all passing after fix)
$ bash -n skills/continuous-learning-v2/agents/observer-loop.sh
Shell syntax: OK

$ node tests/hooks/observer-memory.test.js
=== Observer Memory Fix Tests (#521) ===

--- observe.sh signal throttling ---
  ✓ observe.sh contains SIGNAL_EVERY_N throttle variable
  ✓ observe.sh uses a counter file instead of signaling every call
  ✓ observe.sh only signals when counter reaches threshold
  ✓ observe.sh default throttle is 20 observations per signal

--- observer-loop.sh re-entrancy guard ---
  ✓ observer-loop.sh defines ANALYZING guard variable
  ✓ on_usr1 checks ANALYZING before starting analysis
  ✓ on_usr1 sets ANALYZING=1 before and ANALYZING=0 after analysis

--- observer-loop.sh cooldown throttle ---
  ✓ observer-loop.sh defines ANALYSIS_COOLDOWN
  ✓ on_usr1 enforces cooldown between analyses
  ✓ default cooldown is 60 seconds

--- observer-loop.sh tail-based sampling ---
  ✓ analyze_observations uses tail to sample recent observations
  ✓ default max analysis lines is 500
  ✓ analysis temp file is created and cleaned up
  ✓ observer-loop uses project-local temp directory for analysis artifacts
  ✓ observer-loop prompt requires direct instinct writes without asking permission
  ✓ prompt references analysis_file not full OBSERVATIONS_FILE

--- Signal counter file behavior ---
  ✓ counter file increments and resets correctly
  ✓ counter file handles missing/corrupt file gracefully

--- observe.sh end-to-end throttle (shell execution) ---
  ✓ observe.sh creates counter file and increments on each call

--- Observer Haiku invocation flags ---
  ✓ claude invocation includes --allowedTools flag
  ✓ allowedTools includes Read permission
  ✓ allowedTools includes Write permission
  ✓ claude invocation still includes ECC_SKIP_OBSERVE and ECC_HOOK_PROFILE guards

=== Test Results ===
Passed: 23
Failed: 0
Total:  23

$ node tests/run-all.js
╔══════════════════════════════════════════════════════════╗
║           Everything Claude Code - Test Suite            ║
╚══════════════════════════════════════════════════════════╝

... (1621 tests across all suites) ...

╔══════════════════════════════════════════════════════════╗
║                     Final Results                        ║
╠══════════════════════════════════════════════════════════╣
║  Total Tests: 1621                                       ║
║  Passed:      1621  ✓                                    ║
║  Failed:         0                                       ║
╚══════════════════════════════════════════════════════════╝

Test plan

  • bash -n skills/continuous-learning-v2/agents/observer-loop.sh — syntax check passes
  • node tests/hooks/observer-memory.test.js — 23/23 observer tests pass
  • Full test suite: 1621/1621 passing
  • On Windows with ECC_OBSERVER_ALLOW_WINDOWS=true: verify Haiku agent can read the analysis file via relative path
  • Verify Haiku agent writes instinct files directly without asking for permission
  • Verify .observer-tmp/ is excluded from git tracking

Fixes #842

… prompt

Address remaining issues from affaan-m#842 after PR affaan-m#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 affaan-m#842

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

Signed-off-by: Lidang-Jiang <lidangjiang@gmail.com>
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📝 Walkthrough

Walkthrough

Compute a project-relative analysis path under .observer-tmp/, update the LLM prompt to require non-interactive file writes, pass the prompt to the Claude CLI via -p after cd into the project dir so relative paths resolve, and add .observer-tmp/ to .gitignore.

Changes

Cohort / File(s) Summary
Gitignore Pattern
\.gitignore
Added .observer-tmp/ to ignore observer-generated temporary files.
Observer Loop Script
skills/continuous-learning-v2/agents/observer-loop.sh
Write analysis to project-relative .observer-tmp/<basename> (analysis_relpath); prepend an IMPORTANT: non-interactive/Write-tool instruction to the Claude prompt; cd "$PROJECT_DIR" before invoking Claude and pass the prompt via -p "$(cat "$prompt_file")"; adjusted prompt-file cleanup and comments.
Tests
tests/hooks/observer-memory.test.js
Updated test expectation to match prompt using ${analysis_relpath} instead of ${analysis_file} in the heredoc assertion.

Sequence Diagram(s)

sequenceDiagram
    participant Script as Script (observer-loop.sh)
    participant FS as Filesystem (.observer-tmp/)
    participant Claude as Claude CLI
    Script->>FS: write analysis content to `.observer-tmp/<basename>` (analysis_relpath)
    Script->>Script: cd "$PROJECT_DIR" (set CWD)
    Script->>Claude: invoke `claude -p "<prompt referencing analysis_relpath>"`
    Claude->>FS: use Write tool to create/modify files at `analysis_relpath`
    Claude-->>Script: return output and logs
Loading

Estimated code review effort

🎯 3 (Moderate) | ⏱️ ~20 minutes

Possibly related issues

Possibly related PRs

Poem

🐰 I found a tiny temp-file den,
.observer-tmp my cozy glen,
"IMPORTANT: write" — no questions asked,
The loop hops on, the tasks get tasked,
A rabbit smiles, the repo's zen.

🚥 Pre-merge checks | ✅ 2 | ❌ 1

❌ Failed checks (1 warning)

Check name Status Explanation Resolution
Docstring Coverage ⚠️ Warning Docstring coverage is 0.00% which is insufficient. The required threshold is 80.00%. Write docstrings for the functions missing them to satisfy the coverage threshold.
✅ Passed checks (2 passed)
Check name Status Explanation
Title check ✅ Passed The PR title accurately describes the main changes: improving Windows compatibility by handling temp files and updating the Haiku prompt strategy.
Description Check ✅ Passed Check skipped - CodeRabbit’s high-level summary is enabled.

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

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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 `@skills/continuous-learning-v2/agents/observer-loop.sh`:
- Around line 65-69: The relative-analysis path variable analysis_relpath
(".observer-tmp/$(basename \"$analysis_file\")") can be unresolved if the script
is run from a different cwd; update the observer launch flow so the Claude
subprocess runs with PROJECT_DIR as its working directory: ensure
start-observer.sh (the code that launches this script around the
start-observer.sh start/stop block) does a cd "$PROJECT_DIR" (or uses an
explicit subprocess cwd equivalent) before invoking the observer script, and/or
make the observer-loop.sh explicitly cd "$PROJECT_DIR" near the top before any
use of analysis_relpath so Read sees .observer-tmp/... reliably.
🪄 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: 9009a8b5-c472-4776-a98e-414a4086e8e4

📥 Commits

Reviewing files that changed from the base of the PR and between 8b6140d and c80631f.

📒 Files selected for processing (2)
  • .gitignore
  • skills/continuous-learning-v2/agents/observer-loop.sh

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greptile-apps bot commented Mar 28, 2026

Greptile Summary

This PR closes two remaining Windows-compat bugs from #842 in the observer loop's Haiku analysis cycle.

  • Bug A (path resolution)analysis_relpath is now a project-relative path (.observer-tmp/<file>) rather than the absolute MSYS2-style path returned by mktemp. A paired cd "$PROJECT_DIR" (with failure guard + early return) guarantees the relative path resolves correctly on every platform before claude is launched.
  • Bug B (interactive prompt) — An explicit IMPORTANT: non-interactive block was added to the Haiku prompt, and the prompt is now delivered via -p "$(cat …)" instead of a stdin redirect, which is both more Windows-friendly and makes the non-interactive intent unambiguous.
  • .gitignore.observer-tmp/ is excluded to prevent accidental commits of ephemeral temp files.

The cd call is a permanent side-effect on the process CWD, but all other paths used by the script (LOG_FILE, OBSERVATIONS_FILE, PID_FILE, archive_dir) rely on $PROJECT_DIR-anchored absolute paths, so the change is safe.

Confidence Score: 5/5

Safe to merge — both targeted bugs are addressed correctly, no regressions introduced on Linux/macOS.

The two bugs are fixed with minimal, well-scoped changes. The previous review concern about CWD assumption has been resolved by the explicit cd "$PROJECT_DIR" || return guard. All remaining file paths in the script use absolute references anchored to $PROJECT_DIR, so the permanent CWD change is harmless. No P0 or P1 issues remain.

No files require special attention.

Important Files Changed

Filename Overview
skills/continuous-learning-v2/agents/observer-loop.sh Fixes Windows path resolution (Bug A) via explicit cd + relative path, and Haiku non-interactive behaviour (Bug B) via IMPORTANT prompt block and -p flag; cd on failure guard is correctly placed before claude invocation.
.gitignore Adds .observer-tmp/ exclusion rule to prevent accidental commits of temp analysis and prompt files.

Flowchart

%%{init: {'theme': 'neutral'}}%%
flowchart TD
    A[analyze_observations called] --> B{OBSERVATIONS_FILE exists\nand obs_count >= MIN?}
    B -- No --> Z[return early]
    B -- Yes --> C[mktemp analysis_file\ntail OBSERVATIONS_FILE into it]
    C --> D[Compute analysis_relpath\n.observer-tmp/basename]
    D --> E[mktemp prompt_file\nwrite IMPORTANT block + relpath into it]
    E --> F{cd PROJECT_DIR}
    F -- Fails --> G[Log error\nrm prompt_file & analysis_file\nreturn]
    F -- OK --> H["Launch: claude -p $(cat prompt_file)\n--allowedTools Read,Write\n--print background &"]
    H --> I[Start watchdog subshell\nsleep timeout_seconds]
    I --> J[wait claude_pid]
    J --> K[kill watchdog\nrm prompt_file & analysis_file]
    K --> L{exit_code != 0?}
    L -- Yes --> M[Log failure]
    L -- No --> N[Archive OBSERVATIONS_FILE]
    M --> N
Loading

Reviews (4): Last reviewed commit: "fix(observer): clean up temp files on cd..." | Re-trigger Greptile

ECC_SKIP_OBSERVE=1 ECC_HOOK_PROFILE=minimal claude --model haiku --max-turns "$max_turns" --print \
--allowedTools "Read,Write" \
< "$prompt_file" >> "$LOG_FILE" 2>&1 &
-p "$(cat "$prompt_file")" >> "$LOG_FILE" 2>&1 &
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P2 Prompt file no longer needed after shell expansion

With -p "$(cat "$prompt_file")" the shell reads and expands $prompt_file before launching claude, so the file's contents are baked into the argument list at launch time. This means $prompt_file is not actually needed by the claude process at all — you could rm -f "$prompt_file" immediately after the command is started (before the sleep watchdog subshell) and simplify the cleanup on line 146. Minor point, but avoids the file persisting on disk through the full $timeout_seconds window in the edge case where wait is reached late.

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Good catch — adopted in commit 7a4cb8c. The prompt_file is now rm -f'd immediately after the -p "$(cat "$prompt_file")" shell expansion, and the final cleanup line only removes analysis_file.

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1 issue found across 2 files

Prompt for AI agents (unresolved issues)

Check if these issues are valid — if so, understand the root cause of each and fix them. If appropriate, use sub-agents to investigate and fix each issue separately.


<file name="skills/continuous-learning-v2/agents/observer-loop.sh">

<violation number="1" location="skills/continuous-learning-v2/agents/observer-loop.sh:74">
P1: Relative analysis path in prompt is not anchored to PROJECT_DIR, so Claude may fail to read the temp analysis file when observer-loop runs from a different working directory.</violation>
</file>

Reply with feedback, questions, or to request a fix. Tag @cubic-dev-ai to re-run a review.

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>
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♻️ Duplicate comments (1)
skills/continuous-learning-v2/agents/observer-loop.sh (1)

127-130: ⚠️ Potential issue | 🟠 Major

Guard cd "$PROJECT_DIR" failure before invoking Claude.

Line 129 can fail silently (the script runs with set +e), which would continue in the wrong working directory and break relative analysis_relpath resolution. The prompt passed to Claude at line 48 uses the relative path .observer-tmp/..., so the working directory is critical.

🔧 Suggested fix
-  cd "$PROJECT_DIR"
+  if ! cd "$PROJECT_DIR"; then
+    echo "[$(date)] Failed to cd into PROJECT_DIR: ${PROJECT_DIR}" >> "$LOG_FILE"
+    rm -f "$prompt_file" "$analysis_file"
+    return
+  fi
🤖 Prompt for AI Agents
Verify each finding against the current code and only fix it if needed.

In `@skills/continuous-learning-v2/agents/observer-loop.sh` around lines 127 -
130, The script currently does an unguarded cd "$PROJECT_DIR" which can fail
silently and break relative analysis_relpath resolution used when invoking
Claude (the prompt built around .observer-tmp/...). Update observer-loop.sh to
verify the cd succeeded immediately after the cd "$PROJECT_DIR" call (check the
exit status of that command) and abort with a clear error/log and non-zero exit
if it fails, so the Claude invocation (the block that constructs/sends the
prompt using analysis_relpath) never runs from the wrong working directory;
reference PROJECT_DIR, the cd command, analysis_relpath, and the Claude
invocation when making the change.
🤖 Prompt for all review comments with AI agents
Verify each finding against the current code and only fix it if needed.

Duplicate comments:
In `@skills/continuous-learning-v2/agents/observer-loop.sh`:
- Around line 127-130: The script currently does an unguarded cd "$PROJECT_DIR"
which can fail silently and break relative analysis_relpath resolution used when
invoking Claude (the prompt built around .observer-tmp/...). Update
observer-loop.sh to verify the cd succeeded immediately after the cd
"$PROJECT_DIR" call (check the exit status of that command) and abort with a
clear error/log and non-zero exit if it fails, so the Claude invocation (the
block that constructs/sends the prompt using analysis_relpath) never runs from
the wrong working directory; reference PROJECT_DIR, the cd command,
analysis_relpath, and the Claude invocation when making the change.

ℹ️ Review info
⚙️ Run configuration

Configuration used: defaults

Review profile: CHILL

Plan: Pro

Run ID: 24ebab6f-2f0a-42cd-8240-828f286661ca

📥 Commits

Reviewing files that changed from the base of the PR and between c80631f and 31af1ad.

📒 Files selected for processing (1)
  • skills/continuous-learning-v2/agents/observer-loop.sh

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>
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1 issue found across 1 file (changes from recent commits).

Prompt for AI agents (unresolved issues)

Check if these issues are valid — if so, understand the root cause of each and fix them. If appropriate, use sub-agents to investigate and fix each issue separately.


<file name="skills/continuous-learning-v2/agents/observer-loop.sh">

<violation number="1" location="skills/continuous-learning-v2/agents/observer-loop.sh:129">
P2: Early return on failed `cd` skips cleanup of `prompt_file` and `analysis_file`, leaving temp files in `.observer-tmp`.</violation>
</file>

Reply with feedback, questions, or to request a fix. Tag @cubic-dev-ai to re-run a review.

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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 `@skills/continuous-learning-v2/agents/observer-loop.sh`:
- Around line 127-130: The cd failure path in the observer loop returns early
and skips cleanup, leaving stale temp files; update the failure branch that
handles cd "$PROJECT_DIR" (when it logs to "$LOG_FILE" and returns) to remove
the temporary files referenced by prompt_file and analysis_file (and any other
.observer-tmp artifacts the script creates) before returning so cleanup is
always performed even if PROJECT_DIR is invalid/unavailable; locate the cd
failure block in observer-loop.sh and add safe checks/removals for prompt_file
and analysis_file (use test -f before rm or a safe rm -f) and preserve the
existing logging to "$LOG_FILE".
🪄 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: d4fcaaa9-f877-49d1-9028-6734b9adc59f

📥 Commits

Reviewing files that changed from the base of the PR and between 31af1ad and 194bc00.

📒 Files selected for processing (1)
  • skills/continuous-learning-v2/agents/observer-loop.sh

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>
…elpath

- 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>
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@affaan-m affaan-m merged commit 1e7c299 into affaan-m:main Mar 28, 2026
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[Windows] Observer Haiku agent cannot read temp files and never writes instinct files

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