title: Doxygen does not find files when specifying Source directory
body: <hr>
  
  <p>Hello,</p>
  
  <p>I try to use doxygen to generate code documentation from a set of folders. My folder structure is like this:</p>
  
  <pre><code>+root
  +-include/
  +-include/subdir/file.h
  +-src
  +-src/subdir/file.cpp
  +-Documentation/doxygen.config
  </code></pre>
  
  <p>Then in the configuration file I have the following settings in the "default" configuration file (Which is stated in the documentation and other questions here):</p>
  
  <pre><code>INPUT                  = "../include" "../src"
  RECURSIVE              = YES
  </code></pre>
  
  <p>The problem is that when running this configuration, the HTML output does not contain any documentation whatsoever. When I add all individual files like </p>
  
  <pre><code>INPUT  = "../include/subdir/file.h"
  </code></pre>
  
  <p>to the input, it does generate documentation for those files. Is there an additional setting in the default configuration that I need to include in order for doxygen to find the files and create documentation?</p>
  
  <p>I'm using doxygen 1.8.4 on Linux Ubuntu (12.04 LTS).</p>
  
  <p>Thanks in advance for any hints or tips.</p>