Place "packages" directories inside "tool".

utils/pub/entrypoint.dart

Index: utils/pub/entrypoint.dart
diff --git a/utils/pub/entrypoint.dart b/utils/pub/entrypoint.dart
index 7a82a63bbb59e80d40e9dae58806bf0a54c2eeea..521f2614c4bdae4b88cf55fbc88be08a0a56c703 100644
--- a/utils/pub/entrypoint.dart
+++ b/utils/pub/entrypoint.dart
@@ -215,14 +215,16 @@ class Entrypoint {
    */
   Future _linkSecondaryPackageDirs(_) {
     var binDir = join(root.dir, 'bin');
-    var testDir = join(root.dir, 'test');
     var exampleDir = join(root.dir, 'example');
+    var testDir = join(root.dir, 'test');
+    var toolDir = join(root.dir, 'tool');
     var webDir = join(root.dir, 'web');
     return dirExists(binDir).chain((exists) {
       if (!exists) return new Future.immediate(null);
       return _linkSecondaryPackageDir(binDir);
-    }).chain((_) => _linkSecondaryPackageDirsRecursively(testDir))
-      .chain((_) => _linkSecondaryPackageDirsRecursively(exampleDir))
+    }).chain((_) => _linkSecondaryPackageDirsRecursively(exampleDir))
+      .chain((_) => _linkSecondaryPackageDirsRecursively(testDir))
+      .chain((_) => _linkSecondaryPackageDirsRecursively(toolDir))
       .chain((_) => _linkSecondaryPackageDirsRecursively(webDir));
   }