diff --git a/PHPCI/Plugin/PhpCodeSniffer.php b/PHPCI/Plugin/PhpCodeSniffer.php
old mode 100644
new mode 100755
index 5986f724..ccaf69a7
--- a/PHPCI/Plugin/PhpCodeSniffer.php
+++ b/PHPCI/Plugin/PhpCodeSniffer.php
@@ -47,6 +47,17 @@ class PhpCodeSniffer implements \PHPCI\Plugin
      */
     protected $encoding;
 
+    /**
+     * @var string, based on the assumption the root may not hold the code to be
+     * tested, exteds the base path
+     */
+    protected $path;
+
+    /**
+     * @var array - paths to ignore
+     */
+    protected $ignore;
+
     /**
      * @param \PHPCI\Builder $phpci
      * @param array $options
@@ -59,6 +70,8 @@ class PhpCodeSniffer implements \PHPCI\Plugin
         $this->standard     = isset($options['standard']) ? $options['standard'] : 'PSR2';
         $this->tab_width    = isset($options['tab_width']) ? $options['tab_width'] : '';
         $this->encoding     = isset($options['encoding']) ? $options['encoding'] : '';
+        $this->path         = (isset($options['path'])) ? $options['path'] : '';
+        $this->ignore       = (isset($options['ignore'])) ? (array)$options['ignore'] : $this->phpci->ignore;
     }
 
     /**
@@ -67,8 +80,8 @@ class PhpCodeSniffer implements \PHPCI\Plugin
     public function execute()
     {
         $ignore = '';
-        if (count($this->phpci->ignore)) {
-            $ignore = ' --ignore=' . implode(',', $this->phpci->ignore);
+        if (count($this->ignore)) {
+            $ignore = ' --ignore=' . implode(',', $this->ignore);
         }
 
         if (strpos($this->standard, '/') !== false) {
@@ -93,6 +106,6 @@ class PhpCodeSniffer implements \PHPCI\Plugin
         }
 
         $cmd = PHPCI_BIN_DIR . 'phpcs %s %s %s %s %s "%s"';
-        return $this->phpci->executeCommand($cmd, $standard, $suffixes, $ignore, $tab_width, $encoding, $this->phpci->buildPath);
+        return $this->phpci->executeCommand($cmd, $standard, $suffixes, $ignore, $tab_width, $encoding, $this->phpci->buildPath . $this->path);
     }
 }
diff --git a/PHPCI/Plugin/PhpCpd.php b/PHPCI/Plugin/PhpCpd.php
old mode 100644
new mode 100755
index 5ec0bd9f..ecb54077
--- a/PHPCI/Plugin/PhpCpd.php
+++ b/PHPCI/Plugin/PhpCpd.php
@@ -21,11 +21,25 @@ class PhpCpd implements \PHPCI\Plugin
     protected $args;
     protected $phpci;
 
+    /**
+     * @var string, based on the assumption the root may not hold the code to be
+     * tested, exteds the base path
+     */
+    protected $path;
+
+    /**
+     * @var array - paths to ignore
+     */
+    protected $ignore;
+
     public function __construct(\PHPCI\Builder $phpci, array $options = array())
     {
         $this->phpci        = $phpci;
         $this->directory    = isset($options['directory']) ? $options['directory'] : $phpci->buildPath;
         $this->standard     = isset($options['standard']) ? $options['standard'] : 'PSR2';
+        $this->path         = (isset($options['path'])) ? $options['path'] : '';
+        $this->ignore       = (isset($options['ignore'])) ? (array)$options['ignore'] : $this->phpci->ignore;
+
     }
 
     /**
@@ -34,15 +48,15 @@ class PhpCpd implements \PHPCI\Plugin
     public function execute()
     {
         $ignore = '';
-        if (count($this->phpci->ignore)) {
+        if (count($this->ignore)) {
             $map = function ($item) {
                 return ' --exclude ' . (substr($item, -1) == '/' ? substr($item, 0, -1) : $item);
             };
-            $ignore = array_map($map, $this->phpci->ignore);
+            $ignore = array_map($map, $this->ignore);
 
             $ignore = implode('', $ignore);
         }
 
-        return $this->phpci->executeCommand(PHPCI_BIN_DIR . 'phpcpd %s "%s"', $ignore, $this->phpci->buildPath);
+        return $this->phpci->executeCommand(PHPCI_BIN_DIR . 'phpcpd %s "%s"', $ignore, $this->phpci->buildPath.$this->path);
     }
 }
diff --git a/PHPCI/Plugin/PhpMessDetector.php b/PHPCI/Plugin/PhpMessDetector.php
old mode 100644
new mode 100755
index 545cb070..40ca3fcf
--- a/PHPCI/Plugin/PhpMessDetector.php
+++ b/PHPCI/Plugin/PhpMessDetector.php
@@ -27,6 +27,17 @@ class PhpMessDetector implements \PHPCI\Plugin
      */
     protected $suffixes;
 
+    /**
+     * @var string, based on the assumption the root may not hold the code to be
+     * tested, exteds the base path
+     */
+    protected $path;
+
+    /**
+     * @var array - paths to ignore
+     */
+    protected $ignore;
+
     /**
      * Array of PHPMD rules. Can be one of the builtins (codesize, unusedcode, naming, design, controversial)
      * or a filenname (detected by checking for a / in it), either absolute or relative to the project root.
@@ -44,6 +55,10 @@ class PhpMessDetector implements \PHPCI\Plugin
 
         $this->suffixes = isset($options['suffixes']) ? (array)$options['suffixes'] : array('php');
 
+        $this->ignore = (isset($options['ignore'])) ? (array)$options['ignore'] : $this->phpci->ignore;
+
+        $this->path = (isset($options['path'])) ? $options['path'] : '';
+
         $this->rules = isset($options['rules']) ? (array)$options['rules'] : array('codesize', 'unusedcode', 'naming');
         foreach ($this->rules as &$rule) {
             if ($rule[0] !== '/' && strpos($rule, '/') !== FALSE) {
@@ -58,8 +73,8 @@ class PhpMessDetector implements \PHPCI\Plugin
     public function execute()
     {
         $ignore = '';
-        if (count($this->phpci->ignore)) {
-            $ignore = ' --exclude ' . implode(',', $this->phpci->ignore);
+        if (count($this->ignore)) {
+            $ignore = ' --exclude ' . implode(',', $this->ignore);
         }
 
         $suffixes = '';
@@ -68,6 +83,6 @@ class PhpMessDetector implements \PHPCI\Plugin
         }
 
         $cmd = PHPCI_BIN_DIR . 'phpmd "%s" text %s %s %s';
-        return $this->phpci->executeCommand($cmd, $this->phpci->buildPath, implode(',', $this->rules), $ignore, $suffixes);
+        return $this->phpci->executeCommand($cmd, $this->phpci->buildPath . $this->path, implode(',', $this->rules), $ignore, $suffixes);
     }
 }