make write_file tool available and fix empty dir creation bug

ra_aid/__main__.py

@@ -15,7 +15,7 @@ from ra_aid.tools import (
     emit_research_notes, emit_plan, emit_related_files, emit_task,
     emit_expert_context, get_memory_value, emit_key_facts, delete_key_facts,
     emit_key_snippets, delete_key_snippets,
-    emit_research_subtask, request_implementation, read_file_tool, fuzzy_find_project_files, ripgrep_search, list_directory_tree,
+    emit_research_subtask, request_implementation, read_file_tool, write_file_tool, fuzzy_find_project_files, ripgrep_search, list_directory_tree,
     file_str_replace
 )
 from ra_aid.tools.memory import _global_memory, get_related_files
@@ -38,6 +38,7 @@ COMMON_TOOLS = [
     emit_key_snippets,
     delete_key_snippets,
     read_file_tool,
+    write_file_tool,
     fuzzy_find_project_files,
     ripgrep_search,
     file_str_replace

ra_aid/tools/write_file.py

@@ -44,8 +44,10 @@ def write_file_tool(
     }
 
     try:
-        # Ensure directory exists
-        os.makedirs(os.path.dirname(filepath), exist_ok=True)
+        # Ensure directory exists if filepath contains directories
+        dirpath = os.path.dirname(filepath)
+        if dirpath:
+            os.makedirs(dirpath, exist_ok=True)
 
         logging.debug(f"Starting to write file: {filepath}")
         
@@ -71,7 +73,6 @@ def write_file_tool(
     except Exception as e:
         elapsed = time.time() - start_time
         error_msg = str(e)
-        logging.error(f"Error writing file {filepath} after {elapsed:.2f}s: {error_msg}")
         
         result["elapsed_time"] = elapsed
         result["error"] = error_msg