Added filter for .git directories

src/MakePhar/Manifest.php

@@ -198,6 +198,10 @@ class Manifest
                 log_warn("Unsupported source type: %s", $source->type);
             }
         }
+        $items = array_filter($items, function ($item) {
+            if (fnmatch("*/.git/*", $item->src)) return false;
+            return true;
+        });
         return $items;
     }