diff --git a/htdocs/index.html b/htdocs/index.html
index de5dc4b..089ace3 100644
--- a/htdocs/index.html
+++ b/htdocs/index.html
@@ -18,13 +18,13 @@
       </div>
       <div id="output"></div>
       <div id="permanent-ignore" style="display: none">
-        To permanently ignore tokens, do one of the following:
+        To permanently ignore tokens (and globally ignore modules), do one of the following:
         <ul>
           <li>To ignore globally, place at the top of the file on its own line:
-            <blockquote><code>//harmonious <span class="ignore-code-holder"></span></code></blockquote>
+            <blockquote><code>//harmonious <span id="ignore-code-holder-global"></span></code></blockquote>
           </li>
-          <li>To ignore within a particular block of code, wrap the code in the following:
-            <blockquote><code>//harmonious <span class="ignore-code-holder"></span><br />
+          <li id="permanent-ignore-block">To ignore within a particular block of code, wrap the code in the following:
+            <blockquote><code>//harmonious <span id="ignore-code-holder-block"></span><br />
             &nbsp;&nbsp;...your code...<br />
             //harmonious_end</code></blockquote>
           </li>
diff --git a/htdocs/style.css b/htdocs/style.css
index 69e5010..fea3b5e 100644
--- a/htdocs/style.css
+++ b/htdocs/style.css
@@ -23,7 +23,8 @@ div#loading {
 }
 
 table {
-  border-left: solid #aaa 1px
+  border-left: solid #aaa 1px;
+  margin-bottom: 10px;
 }
 
 td, th {
@@ -34,7 +35,8 @@ td {
   padding: 0 3px
 }
 
-td.token {
+td.token,
+td.module {
   text-align: center;
   font-weight: bold
 }
diff --git a/src/CodeVersionInformation.hx b/src/CodeVersionInformation.hx
index b5b02f7..62fa48d 100644
--- a/src/CodeVersionInformation.hx
+++ b/src/CodeVersionInformation.hx
@@ -178,12 +178,7 @@ class CodeVersionInformation {
       this.all_modules.push(source);
     }
 
-    this.all_modules.sort(function(a, b) {
-      if (a == "PHP") { return -1; }
-      if (b == "PHP") { return -1; }
-      if (a == b) { return 0; }
-      return (a < b) ? -1 : 1;
-    });
+    this.all_modules.sort(CodeVersionInformation.module_name_sorter);
 
     for (source in start_maximum_versions.keys()) {
       this.maximum_versions.set(source, get_lowest_version(start_maximum_versions.get(source)));
@@ -195,6 +190,10 @@ class CodeVersionInformation {
     this.final_versions.set("maximum", maximum_versions);
   }
 
+  /**
+    Return true if the minimum and maximum module versions within this
+    CodeVersionInformation object will produce runnable code.
+  **/
   public function is_valid() {
     for (source in this.maximum_versions.keys()) {
       var versions = [ this.maximum_versions.get(source), this.minimum_versions.get(source) ];
@@ -205,4 +204,14 @@ class CodeVersionInformation {
     }
     return true;
   }
+
+  /**
+    Sort module names, making sure PHP is first in the list.
+  **/
+  public static function module_name_sorter(a : String, b : String) : Int {
+    if (a.toLowerCase() == "php") { return -1; }
+    if (b.toLowerCase() == "php") { return 1; }
+    if (a == b) { return 0; }
+    return (a < b) ? -1 : 1;
+  }
 }
\ No newline at end of file
diff --git a/src/JavaScriptTarget.hx b/src/JavaScriptTarget.hx
index 14463b8..52d6cf2 100644
--- a/src/JavaScriptTarget.hx
+++ b/src/JavaScriptTarget.hx
@@ -1,8 +1,12 @@
+/**
+  The JavaScript functionality of Harmonious Code.
+**/
 class JavaScriptTarget {
   static public var code_parser : CodeParser;
   static public var current_results : Array<Result>;
   static public var show_only_modules : Hash<Bool>;
   static public var ignored_modules : Hash<Bool>;
+  static public var manually_ignored_modules : Hash<Bool>;
 
   static public function main() {
     var function_token = new FunctionToken("a","a");
@@ -12,6 +16,7 @@ class JavaScriptTarget {
 
     show_only_modules = new Hash<Bool>();
     ignored_modules = new Hash<Bool>();
+    manually_ignored_modules = new Hash<Bool>();
 
     #if js
       var loading_div = js.Lib.document.getElementById("loading");
@@ -22,11 +27,18 @@ class JavaScriptTarget {
     #end
   }
 
+  /**
+    Parse a String and get the token results and ignored modules.
+  **/
   static public function get_results(s : String) {
     current_results = code_parser.parse(s);
     ignored_modules = code_parser.ignored_modules;
+    manually_ignored_modules = new Hash<Bool>();
   }
 
+  /**
+    Enable/disable a particular Result from the version calculations.
+  **/
   static public function change_result(index_id : Int, state : Bool) : Bool {
     if (index_id < current_results.length) {
       current_results[index_id].is_enabled = state;
@@ -35,6 +47,9 @@ class JavaScriptTarget {
     return false;
   }
 
+  /**
+    Toggle the visibility of module functions.
+  **/
   static public function toggle_module(module : String) {
     if (!show_only_modules.exists(module)) {
       show_only_modules.set(module, false);
@@ -42,15 +57,21 @@ class JavaScriptTarget {
     show_only_modules.set(module, !show_only_modules.get(module));
   }
 
+  /**
+    Set the ignore state on a module.
+  **/
   static public function change_module_ignore(module : String, state : Bool) {
-    ignored_modules.set(module, state);
+    manually_ignored_modules.set(module, state);
   }
 
-  static public function toggle_ignore_module(module: String) {
-    if (!ignored_modules.exists(module)) {
-      ignored_modules.set(module, false);
+  /**
+    Toggle ignoring a module.
+  **/
+  static public function toggle_ignore_module(module : String) {
+    if (!manually_ignored_modules.exists(module)) {
+      manually_ignored_modules.set(module, false);
     }
-    ignored_modules.set(module, !ignored_modules.get(module));
+    manually_ignored_modules.set(module, !manually_ignored_modules.get(module));
   }
 
   #if js
@@ -75,11 +96,71 @@ class JavaScriptTarget {
 
       output += "<ul>";
 
-      for (module in minimum.keys()) {
-        output += "<li>" + module + ": " + minimum.get(module) + "</li>";
+      var all_modules_hash = new Hash<Bool>();
+
+      for (module in minimum.keys()) { all_modules_hash.set(module, true); }
+      for (module in ignored_modules.keys()) { all_modules_hash.set(module, true); }
+      for (module in manually_ignored_modules.keys()) { all_modules_hash.set(module, true); }
+
+      var all_modules = new Array<String>();
+
+      for (module in all_modules_hash.keys()) { all_modules.push(module); }
+
+      all_modules.sort(CodeVersionInformation.module_name_sorter);
+
+      var ignored_tokens        = new Array<String>();
+      var ignored_modules_array = new Array<String>();
+      for (module in manually_ignored_modules.keys()) {
+        if (manually_ignored_modules.get(module) == true) {
+          ignored_modules_array.push("@" + module);
+        }
       }
 
-      output += "</ul>";
+      output += "<table cellspacing=\"0\" id=\"modules\">";
+      output += "<tr><th>Module</th><th>Ignore?</th><th>Version</th></tr>";
+
+      for (module in all_modules) {
+        var is_ignored = false;
+        var is_ignored_in_source = false;
+        var show_checkbox = true;
+        var is_checked = false;
+
+        if (ignored_modules.exists(module) == true) {
+          is_ignored = true;
+          is_ignored_in_source = true;
+          show_checkbox = false;
+        }
+        if (manually_ignored_modules.get(module) == true) {
+          is_ignored = true;
+          is_checked = true;
+        }
+
+        output += "<tr class=\"" + (is_ignored ? "disabled" : "enabled") + "\"><td class=\"module\">" + module + "</td>";
+
+        if (show_checkbox && (module.toLowerCase() != "php")) {
+          output += "<td align=\"center\"><input type=\"checkbox\" name=\"ignore-module-" + module + "\" id=\"ignore-module-" + module + "\" onclick=\"JavaScriptTarget.toggle_ignore_module_and_redraw('" + module + "')\" " + (is_checked ? " checked" : "") + "/></td>";
+        } else {
+          output += "<td>&nbsp;</td>";
+        }
+
+        if (is_ignored) {
+          if (is_ignored_in_source) {
+            output += "<td>(ignored in source)</td>";
+          } else {
+            output += "<td>(ignored)</td>";
+          }
+        } else {
+          if (minimum.exists(module)) {
+            output += "<td>" + minimum.get(module) + "</td>";
+          } else {
+            output += "<td>&nbsp;</td>";
+          }
+        }
+
+        output += "</tr>";
+      }
+
+      output += "</table>";
 
       var maximum = version_info.final_versions.get("maximum");
       var printed_message = false;
@@ -109,13 +190,14 @@ class JavaScriptTarget {
             classes.push("is-filtering");
           }
         }
-        output += "<th title=\"click to toggle filter\" class=\"" + classes.join(" ") + "\" onclick=\"JavaScriptTarget.toggle_module_and_redraw('" + module + "')\">" + module + "</th>";
+
+        if (manually_ignored_modules.get(module) != true) {
+          output += "<th title=\"click to toggle filter\" class=\"" + classes.join(" ") + "\" onclick=\"JavaScriptTarget.toggle_module_and_redraw('" + module + "')\">" + module + "</th>";
+        }
       }
 
       output += "</tr>";
 
-      var ignored_tokens = new Array<String>();
-
       var id_index = 0;
       for (result in current_results) {
         var ok_to_show = true;
@@ -156,31 +238,45 @@ class JavaScriptTarget {
           + ((!result.is_enabled) ? " checked" : "") + " /></td>";
 
           for (module in version_info.all_modules) {
-            output += "<td>";
-            if (max_versions.exists(module)) {
-              output += max_versions.get(module);
-            } else {
-              output += "&nbsp;";
+            if (manually_ignored_modules.get(module) != true) {
+              output += "<td>";
+              if (max_versions.exists(module)) {
+                output += max_versions.get(module);
+              } else {
+                output += "&nbsp;";
+              }
+              output += "</td>";
             }
-            output += "</td>";
           }
 
           output += "</tr>";
-          id_index++;
         }
+        id_index++;
       }
       output += "</table>";
 
       output += "</form>";
 
-      var permanent_ignore_div = js.Lib.document.getElementById('permanent-ignore');
-      if (ignored_tokens.length > 0) {
-        var spans = js.Lib.document.getElementsByTagName("span");
-        for (span_index in 0...spans.length) {
-          if (spans[span_index].className == "ignore-code-holder") {
-            spans[span_index].innerHTML = ignored_tokens.join(" ");
-          }
+      var permanent_ignore_div = js.Lib.document.getElementById("permanent-ignore");
+
+      if ((ignored_modules_array.length > 0) || (ignored_tokens.length > 0)) {
+        var ignored_modules_string = ignored_modules_array.join(" ");
+        var ignored_tokens_string  = ignored_tokens.join(" ");
+
+        var global_span = js.Lib.document.getElementById("ignore-code-holder-global");
+        global_span.innerHTML = ignored_modules_string + " " + ignored_tokens_string;
+
+        var permanent_ignore_block_li = js.Lib.document.getElementById("permanent-ignore-block");
+
+        if (ignored_tokens.length > 0) {
+          var block_span = js.Lib.document.getElementById("ignore-code-holder-block");
+          block_span.innerHTML = ignored_tokens_string;
+
+          permanent_ignore_block_li.style.display = "";
+        } else {
+          permanent_ignore_block_li.style.display = "none";
         }
+
         permanent_ignore_div.style.display = "";
       } else {
         permanent_ignore_div.style.display = "none";
diff --git a/src/TestCodeVersionInformation.hx b/src/TestCodeVersionInformation.hx
index 27b1c76..19f1abb 100644
--- a/src/TestCodeVersionInformation.hx
+++ b/src/TestCodeVersionInformation.hx
@@ -1,5 +1,11 @@
+/**
+  Test the CodeVersionInformation object.
+**/
 class TestCodeVersionInformation extends haxe.unit.TestCase {
-  function testIsInvalid() {
+  /**
+    Test is_invalid()
+  **/
+  function test_is_invalid() {
     var valid_results = [
       new Result(ResultType.Function, "one", "PHP 4, PHP 5"),
       new Result(ResultType.Function, "two", "PHP 4 &lt;= 4.2.0")
@@ -17,7 +23,10 @@ class TestCodeVersionInformation extends haxe.unit.TestCase {
     assertFalse(code_version_info.is_valid());
   }
 
-  function testBreakdownVersionString() {
+  /**
+    Test breakdown_version_string()
+  **/
+  function test_breakdown_version_string() {
     assertEquals("[PHP, 4]", CodeVersionInformation.breakdown_php_version_string("PHP 4").toString());
     assertEquals("[PHP, 5.2.0]", CodeVersionInformation.breakdown_php_version_string("PHP 5 &gt;= 5.2.0").toString());
     assertEquals("[xmlwriter, 2.0.4]", CodeVersionInformation.breakdown_php_version_string("xmlwriter 2.0.4").toString());
@@ -25,7 +34,10 @@ class TestCodeVersionInformation extends haxe.unit.TestCase {
     assertEquals("[xmlwriter, 0.1]", CodeVersionInformation.breakdown_php_version_string("xmlwriter 0.1-2.0.4").toString());
   }
 
-  function testVersionCompare() {
+  /**
+    Test version_compare()
+  **/
+  function test_version_compare() {
     assertEquals(-1, CodeVersionInformation.version_compare("4", "5"));
     assertEquals(1, CodeVersionInformation.version_compare("5", "4"));
     assertEquals(-1, CodeVersionInformation.version_compare("4", "4.5"));
@@ -34,26 +46,38 @@ class TestCodeVersionInformation extends haxe.unit.TestCase {
     assertEquals(-1, CodeVersionInformation.version_compare("4.5", "4.10"));
   }
 
-  function testGetHighestVersion() {
+  /**
+    Test get_highest_version()
+  **/
+  function test_get_highest_version() {
     assertEquals("5.2.0", CodeVersionInformation.get_highest_version(["5.2.0"]));
     assertEquals("5.2.0", CodeVersionInformation.get_highest_version(["5.1.0", "5.2.0"]));
     assertEquals("5", CodeVersionInformation.get_highest_version(["4", "4.1", "5"]));
   }
 
-  function testGetLowestVersion() {
+  /**
+    Test get_lowest_version()
+  **/
+  function test_get_lowest_version() {
     assertEquals("5.2.0", CodeVersionInformation.get_lowest_version(["5.2.0"]));
     assertEquals("5.1.0", CodeVersionInformation.get_lowest_version(["5.1.0", "5.2.0"]));
     assertEquals("4", CodeVersionInformation.get_lowest_version(["4", "4.1", "5"]));
     assertEquals("4.0.6", CodeVersionInformation.get_lowest_version(["4.0.6", "5"]));
   }
 
+  /**
+    Test get_version_lower_than()
+  **/
   function testGetVersionLowerThan() {
     assertEquals(null, CodeVersionInformation.get_version_lower_than("PHP 5"));
     assertEquals(null, CodeVersionInformation.get_version_lower_than("PHP 5 &gt;= 5.2.0"));
     assertEquals("4.0.4", CodeVersionInformation.get_version_lower_than("PHP 4 &lt;= 4.0.4"));
   }
 
-  function testCreate() {
+  /**
+    Test instantiating a CodeVersionInformation object
+  **/
+  function test_create() {
     var valid_results = [
       new Result(ResultType.Function, "one", "PHP 4, PHP 5"),
       new Result(ResultType.Function, "two", "PHP 4 &gt;= 4.0.6, PHP 5"),
@@ -68,13 +92,19 @@ class TestCodeVersionInformation extends haxe.unit.TestCase {
     assertEquals("4", v.minimum_versions.get("PHP"));
   }
 
-  function testGetVersionStringSplit() {
+  /**
+    Test split_version_string()
+  **/
+  function test_get_version_string_split() {
     assertEquals("{xmlwriter => 2.0.4, PHP => 4}", CodeVersionInformation.split_version_string("PHP 4, xmlwriter 2.0.4").toString());
     assertEquals("{xmlwriter => 2.0.4, PHP => 4.0.3}", CodeVersionInformation.split_version_string("PHP 4 &gt;= 4.0.3, xmlwriter 2.0.4").toString());
     assertEquals("{PHP => 4}", CodeVersionInformation.split_version_string("PHP 5, PHP 4").toString());
   }
 
-  function testGetModuleInformation() {
+  /**
+    Test getting module information
+  **/
+  function test_get_module_information() {
     var valid_results = [
       new Result(ResultType.Function, "one", "PHP 4, zmod 5"),
       new Result(ResultType.Function, "two", "PHP 4 &gt;= 4.0.6, xmod 5"),
@@ -84,7 +114,10 @@ class TestCodeVersionInformation extends haxe.unit.TestCase {
     assertEquals("[PHP, xmod, zmod]", v.all_modules.toString());
   }
 
-  function testIgnoreModules() {
+  /**
+    Test ignoring modules
+  **/
+  function test_ignore_modules() {
     var valid_results = [
       new Result(ResultType.Function, "one", "PHP 4, zmod 5"),
       new Result(ResultType.Function, "two", "PHP 4 &gt;= 4.0.6, xmod 5"),
@@ -96,4 +129,15 @@ class TestCodeVersionInformation extends haxe.unit.TestCase {
 
     assertEquals("[PHP, zmod]", v.all_modules.toString());
   }
+
+  /**
+    Test module name sorting
+  **/
+  function test_module_name_sorting() {
+    var module_names = [ "zmod", "xmod", "PHP" ];
+
+    module_names.sort(CodeVersionInformation.module_name_sorter);
+
+    assertEquals("[PHP, xmod, zmod]", module_names.toString());
+  }
 }
\ No newline at end of file
diff --git a/src/TestJavaScriptTarget.hx b/src/TestJavaScriptTarget.hx
index 9aa083c..dde4b3a 100644
--- a/src/TestJavaScriptTarget.hx
+++ b/src/TestJavaScriptTarget.hx
@@ -15,10 +15,10 @@ class TestJavaScriptTarget extends haxe.unit.TestCase {
     JavaScriptTarget.toggle_module("zip");
     assertEquals("{zip => true}", JavaScriptTarget.show_only_modules.toString());
 
-    assertEquals("{}", JavaScriptTarget.ignored_modules.toString());
+    assertEquals("{}", JavaScriptTarget.manually_ignored_modules.toString());
     JavaScriptTarget.change_module_ignore("zip", true);
-    assertEquals("{zip => true}", JavaScriptTarget.ignored_modules.toString());
+    assertEquals("{zip => true}", JavaScriptTarget.manually_ignored_modules.toString());
     JavaScriptTarget.change_module_ignore("zip", false);
-    assertEquals("{zip => false}", JavaScriptTarget.ignored_modules.toString());
+    assertEquals("{zip => false}", JavaScriptTarget.manually_ignored_modules.toString());
   }
 }
\ No newline at end of file