refactor: migrate skills/ directory to .agents/skills/

BOOTSTRAP.md

@@ -10,7 +10,7 @@ A new agent can follow the steps in this guide sequentially to establish a stabl
 
 Before cloning this project into a new environment, you must first understand the locations and roles of its core components:
 
-*   `skills/`: A collection of shell scripts that execute multi-agent coordination and asynchronous job processing.
+*   `.agents/skills/`: A collection of shell scripts that execute multi-agent coordination and asynchronous job processing.
     *   `lib.sh`: The core orchestration shell functions and virtual environment (venv) auto-loading library.
     *   `tmux-agent-orchestrate-create/`: Script to launch isolated tmux agent sessions.
     *   `tmux-agent-orchestrate-stop/`: Script to gracefully stop agent sessions and update states.
@@ -84,7 +84,7 @@ Install the required packages listed in `requirements.txt` under `tmux-agent-orc
 
 ```bash
 # Install dependencies (pyyaml, paho-mqtt, etc.)
-pip install -r skills/tmux-agent-orchestrate-delegate-job/requirements.txt
+pip install -r .agents/skills/tmux-agent-orchestrate-delegate-job/requirements.txt
 ```
 
 ---
@@ -122,7 +122,7 @@ Verify that the Python scripts and virtual environment libraries load correctly
 
 ```bash
 # Run using the python interpreter in the virtual environment
-.venv/bin/python3 skills/tmux-agent-orchestrate-delegate-job/scripts/registry.py list
+.venv/bin/python3 .agents/skills/tmux-agent-orchestrate-delegate-job/scripts/registry.py list
 ```
 *   **Expected Output**: The command should exit successfully and print an empty JSON array `[]` (or a list of pending/running jobs if any exist) without any python traceback errors.
 
@@ -131,20 +131,20 @@ Test the end-to-end communication through the broker to verify that events are p
 
 ```bash
 # 1. Register a temporary test job and capture its 8-character Hex Job ID
-JID=$(.venv/bin/python3 skills/tmux-agent-orchestrate-delegate-job/scripts/registry.py register \
+JID=$(.venv/bin/python3 .agents/skills/tmux-agent-orchestrate-delegate-job/scripts/registry.py register \
   --agent "test-agent" \
   --prompt "Bootstrap check command" \
   --timeout 120)
 echo "Generated Job ID: $JID"
 
 # 2. Run the background event subscriber (Subscriber) for this Job ID
-.venv/bin/python3 skills/tmux-agent-orchestrate-delegate-job/scripts/job_subscriber.py --job "$JID" &
+.venv/bin/python3 .agents/skills/tmux-agent-orchestrate-delegate-job/scripts/job_subscriber.py --job "$JID" &
 
 # 3. Wait 2 seconds to allow the Subscriber to establish its MQTT socket connection
 sleep 2
 
 # 4. Publish a start event (adhering to the Subscribe-before-Publish rule)
-.venv/bin/python3 skills/tmux-agent-orchestrate-delegate-job/scripts/publish_event.py \
+.venv/bin/python3 .agents/skills/tmux-agent-orchestrate-delegate-job/scripts/publish_event.py \
   --job "$JID" \
   --event started \
   --detail "Bootstrap MQTT verification connection check"