Add "Protein Builder" to "Additional Tools"

docs/en_us/course_authors/source/additional_tools.rst

@@ -14,6 +14,7 @@ Individual course teams frequently create tools and problem types that don't hav
 Below, you'll find the information you need to create the following tools.
 
 * :ref:`Multiple Choice and Numerical Input`
+* :ref:`Protein Builder`
 
 .. _Multiple Choice and Numerical Input:
 
@@ -61,3 +62,70 @@ Multiple Choice and Numerical Input Problem Code
   </choicetextresponse>
   </problem>
 
+.. _Protein Builder:
+
+************************
+Protein Builder
+************************
+
+The protein builder asks students to create specified protein shapes by stringing together amino acids. In the example below, the goal protein shape is a simple line. 
+
+
+.. image:: /Images/ProteinBuilder.gif
+  :alt: Image of the protein builder
+
+.. _Create the Protein Builder:
+
+==========================
+Create the Protein Builder
+==========================
+
+To create the protein builder:
+
+#. Upload all of the files listed above to the *Files & Uploads* page in your course.
+#. Under the HTML component, click **Problem** under **Add New Component**, and then click **Blank Advanced Problem**.
+#. In the component that appears, click **Edit**.
+#. In the component editor, paste the Problem component code from below.
+#. Make any changes that you want, and then click **Save**.
+
+.. _Protein Builder Code:
+
+=====================
+Protein Builder Code
+=====================
+
+::
+
+  <problem>
+      <p>The protein builder allows you string together the building blocks of proteins, amino acids, and see how that string will form into a structure. You are presented with a goal protein shape, and your task is to try to re-create it. In the example below, the shape that you are asked to form is a simple line.</p> 
+
+      <script type="loncapa/python">
+
+  def two_d_grader(expect,ans):
+    import json
+    ans=json.loads(ans)
+    if "ERROR" in ans["protex_answer"]:
+      raise ValueError("Protex did not understand your answer... try folding the protein")
+    return ans["protex_answer"]=="CORRECT"
+
+
+  </script>
+    <text>
+      <customresponse cfn="two_d_grader">
+        <designprotein2dinput width="855" height="500" target_shape="W;W;W;W;W;W;W"/>
+      </customresponse>
+    </text>
+    <p>Be sure to click "Fold" to fold your protein before you click "Check".</p>
+    <solution>
+      <p>
+              There are many protein sequences that will fold to the shape we asked you
+              about. Here is a sample sequence that will work. You can play around with
+              it if you are curious.
+          </p>
+      <ul>
+        <li>
+                  Stick: RRRRRRR
+              </li>
+      </ul>
+    </solution>
+  </problem>

docs/en_us/course_authors/source/change_log.rst

@@ -13,6 +13,8 @@ Change Log
 
    * - Date
      - Change
+   * - 02/04/14
+     - Added :ref:`Additional Tools` topic with :ref:`Multiple Choice and Numerical Input` and :ref:`Protein Builder`
    * - 01/29/2014
      - Added the chapter :ref:`Using an Instant Hangout in Your Course`.
    * - 01/21/2014