fix(config): atomic write for .env to prevent API key loss on crash

save_env_value() used bare open('w') which truncates .env immediately.
A crash or OOM kill between truncation and completed write silently
wipes every credential in the file.

Write now goes to a temp file first, then os.replace() swaps it
atomically. Either the old .env exists or the new one does — never
a truncated half-write. Same pattern used in cron/jobs.py.

Cherry-picked from PR #842 by alireza78a, rebased onto current main
with conflict resolution (_secure_file refactor).

Co-authored-by: alireza78a <alireza78a@users.noreply.github.com>

hermes_cli/config.py

@@ -17,6 +17,7 @@ import platform
 import stat
 import subprocess
 import sys
+import tempfile
 from pathlib import Path
 from typing import Dict, Any, Optional, List, Tuple
 
@@ -958,8 +959,19 @@ def save_env_value(key: str, value: str):
             lines[-1] += "\n"
         lines.append(f"{key}={value}\n")
     
-    with open(env_path, 'w', **write_kw) as f:
+    fd, tmp_path = tempfile.mkstemp(dir=str(env_path.parent), suffix='.tmp', prefix='.env_')
-        f.writelines(lines)
+    try:
+        with os.fdopen(fd, 'w', **write_kw) as f:
+            f.writelines(lines)
+            f.flush()
+            os.fsync(f.fileno())
+        os.replace(tmp_path, env_path)
+    except BaseException:
+        try:
+            os.unlink(tmp_path)
+        except OSError:
+            pass
+        raise
     _secure_file(env_path)
 
     # Restrict .env permissions to owner-only (contains API keys)