refactor: Remove deprecated query and schema commands and update all tests

- Remove deprecated 'query' command (replaced by 'db-query')
- Remove deprecated 'schema' command (replaced by 'db-schema')
- Remove 4 obsolete tests that tested deprecated functionality
- Update all remaining tests to use new db-prefixed command names
- CLI now has clean, consistent command structure with proper prefixes
- All 478 tests passing after cleanup

This completes the CLI consistency convention implementation where all
subsystem commands follow the "*-stats" pattern and use proper prefixes.

🤖 Generated with [Claude Code](https://claude.ai/code)

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

tests/test_l4_service_output_formatting.py

@@ -55,7 +55,7 @@ class TestOutputFormatting:
             mock_db_instance.execute_query.return_value = self.sample_data
 
             result = self.runner.invoke(cli, [
-                'query', 'SELECT * FROM markdown_files',
+                'db-query', 'SELECT * FROM markdown_files',
                 '--format', 'table'
             ])
 
@@ -84,7 +84,7 @@ class TestOutputFormatting:
             mock_db_instance.execute_query.return_value = self.sample_data
 
             # Without specifying format
-            result = self.runner.invoke(cli, ['query', 'SELECT * FROM markdown_files'])
+            result = self.runner.invoke(cli, ['db-query', 'SELECT * FROM markdown_files'])
 
             if result.exit_code != 0:
                 print("Command output:", result.output)
@@ -101,7 +101,7 @@ class TestOutputFormatting:
         Issue #14: Multiple output format support
         """
         result = self.runner.invoke(cli, [
-            'query', 'SELECT * FROM markdown_files',
+            'db-query', 'SELECT * FROM markdown_files',
             '--format', 'invalid_format'
         ])
 
@@ -139,7 +139,7 @@ class TestSchemaFormatting:
             mock_db_mgr.return_value = mock_db_instance
             mock_db_instance.get_schema.return_value = self.schema_data
 
-            result = self.runner.invoke(cli, ['schema', '--format', 'table'])
+            result = self.runner.invoke(cli, ['db-schema', '--format', 'table'])
 
             assert result.exit_code == 0
             assert 'markdown_files' in result.output
@@ -159,7 +159,7 @@ class TestSchemaFormatting:
             mock_db_mgr.return_value = mock_db_instance
             mock_db_instance.get_schema.return_value = self.schema_data
 
-            result = self.runner.invoke(cli, ['schema', '--format', 'yaml'])
+            result = self.runner.invoke(cli, ['db-schema', '--format', 'yaml'])
 
             assert result.exit_code == 0
             try:
@@ -259,8 +259,8 @@ class TestFormattingConsistency:
         Issue #14: Multiple output format support
         """
         commands = [
-            ['query', 'SELECT COUNT(*) FROM markdown_files'],
-            ['schema'],
+            ['db-query', 'SELECT COUNT(*) FROM markdown_files'],
+            ['db-schema'],
             ['metadata', 'test.md']
         ]
 
@@ -280,8 +280,8 @@ class TestFormattingConsistency:
         Issue #14: Multiple output format support
         """
         commands = [
-            ['query', 'SELECT COUNT(*) FROM markdown_files'],
-            ['schema'],
+            ['db-query', 'SELECT COUNT(*) FROM markdown_files'],
+            ['db-schema'],
             ['metadata', 'test.md']
         ]