add trouble shooting

README.md

@@ -173,6 +173,77 @@ Every command have verbose option. So use it, check error detail.
 PHPStan need autoloader (likely `vendor/autoload.php` ) of repository.
 So, current working directory is must repository root.
 
+### Rule violation was not detected
+#### Define rule by phpdoc(`@canOnlyUsedBy`)
+There are two possible causes.
+
+The first possibility is that the dependency is not analyzed correctly.
+Output a graph, and check that the analysis result is what you expected.
+If it is different, the target code is that can not be statically analyzed, or a bug of this library.
+
+```bash
+php vendor/bin/analyze-deps graph --output ./graph.puml ./some/analyze/dir1 ./some/analyze/dir2
+```
+
+The second possibility is that this library can not collect phpdoc(`@canOnlyUsedBy`).
+Use verify command with `-v` option.
+You can check the final rule definition.
+
+```bash
+php vendor/bin/analyze-deps verify -v ./some/analyze/dir1 ./some/analyze/dir2
+```
+
+
+If you do not find a rule definition like below, this library have failed to collect phpdoc.
+Please adjust the position of phpdoc, or check typo.
+
+```bash
+Defined rules:
+array (
+  'phpdoc in Your\\Class\\Name\\Have\\Phpdoc' => 
+  array (
+    'phpdoc' => 
+    array (
+      'define' => 
+      array (
+        'include' => 
+        array (
+          0 => 'Your\\Class\\Name\\Have\\Phpdoc',
+        ),
+        'exclude' => 
+        array (
+        ),
+      ),
+      'depender' => 
+      array (
+        'include' => 
+        array (
+          0 => 'Your\\Definition1\\In\\Phpdoc',
+          1 => 'Your\\Definition2\\In\\Phpdoc',
+        ),
+        'exclude' => 
+        array (
+        ),
+      ),
+    ),
+    'other' => 
+    array (
+      'define' => 
+      array (
+        'include' => 
+        array (
+        ),
+        'exclude' => 
+        array (
+          0 => 'Your\\Definition1\\In\\Phpdoc',
+          1 => 'Your\\Definition2\\In\\Phpdoc',
+        ),
+      ),
+    ),
+  ),
+)
+```
+
 ## Advanced Usages
 ### Create dependency graph
 TBD...