fix(install): empty the skills directories instead of replacing them

install.sh removed ~/.claude/skills and ~/.agents/skills and created them anew. The Agent Orchestrator bind-mounts ~/.claude/skills, and a new inode left that mount showing the deleted directory, so the hub's radio send failed with radio.py not found after every make install. The installer now keeps each directory and deletes its contents before copying.

🎯 Fix: 93 %
💥 Break: 3 %
💸 Cost: 100 %
⏱️ Time: 100 %
🛡️ Security: 100 %
🏆 Score: 90
🚦 Gate: ✅ 90/5, cost and time <= 100, security 100 %

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>

tests/test_install.py

@@ -0,0 +1,42 @@
+"""Pin scripts/install.sh: the installed skill directories keep their inode, so a bind mount of them stays current."""
+
+from __future__ import annotations
+
+import os
+import shutil
+import subprocess
+import tempfile
+import unittest
+from pathlib import Path
+
+INSTALL = Path(__file__).resolve().parents[1] / "scripts" / "install.sh"
+NPX = "#!/bin/sh\nmkdir -p .agents/skills/locked\necho locked > .agents/skills/locked/SKILL.md\n"
+
+
+class TestInstall(unittest.TestCase):
+    def test_reinstall_empties_the_skill_directories_in_place(self):
+        with tempfile.TemporaryDirectory() as tmp:
+            root = Path(tmp)
+            repo, target, stubs = root / "repo", root / "target", root / "bin"
+            (repo / "scripts").mkdir(parents=True)
+            shutil.copy(INSTALL, repo / "scripts" / "install.sh")
+            (repo / "scripts" / "enable-plugins.js").write_text("", encoding="utf-8")
+            (repo / "skills" / "own").mkdir(parents=True)
+            (repo / "skills" / "own" / "SKILL.md").write_text("own", encoding="utf-8")
+            stubs.mkdir()
+            (stubs / "npx").write_text(NPX, encoding="utf-8")
+            (stubs / "npx").chmod(0o755)
+            installed = [target / ".agents" / "skills", target / ".claude" / "skills"]
+            for folder in installed:
+                (folder / "stale").mkdir(parents=True)
+            before = [folder.stat().st_ino for folder in installed]
+            env = {**os.environ, "PATH": f"{stubs}:/usr/bin:/bin", "TARGET": str(target)}
+            done = subprocess.run(["bash", str(repo / "scripts" / "install.sh")], env=env, capture_output=True, text=True, check=False)
+            self.assertEqual(done.returncode, 0, done.stderr)
+            self.assertEqual([folder.stat().st_ino for folder in installed], before)
+            for folder in installed:
+                self.assertEqual(sorted(path.name for path in folder.iterdir()), ["locked", "own"])
+
+
+if __name__ == "__main__":
+    unittest.main()