Added solutions to exercise 3

justinbois · Jun 21, 2024 · 15ccd75 · 15ccd75
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diff --git a/2024/_sources/exercise_solutions/exercise_3/exercise_3.1_solution.ipynb.txt b/2024/_sources/exercise_solutions/exercise_3/exercise_3.1_solution.ipynb.txt
diff --git a/2024/_sources/exercise_solutions/exercise_3/exercise_3.2_solution.ipynb.txt b/2024/_sources/exercise_solutions/exercise_3/exercise_3.2_solution.ipynb.txt
diff --git a/2024/_sources/exercise_solutions/exercise_3/exercise_3.3_solution.ipynb.txt b/2024/_sources/exercise_solutions/exercise_3/exercise_3.3_solution.ipynb.txt
diff --git a/2024/_sources/exercise_solutions/exercise_3/exercise_3.4_solution.ipynb.txt b/2024/_sources/exercise_solutions/exercise_3/exercise_3.4_solution.ipynb.txt
diff --git a/2024/_sources/exercise_solutions/exercise_3/exercise_3.5_solution.ipynb.txt b/2024/_sources/exercise_solutions/exercise_3/exercise_3.5_solution.ipynb.txt
diff --git a/2024/_sources/exercise_solutions/exercise_3/index.rst.txt b/2024/_sources/exercise_solutions/exercise_3/index.rst.txt
@@ -0,0 +1,12 @@
+******************************************************************
+Exercise 3 solutions
+******************************************************************
+
+.. toctree::
+   :maxdepth: 1
+
+   exercise_3.1_solution.ipynb
+   exercise_3.2_solution.ipynb
+   exercise_3.3_solution.ipynb
+   exercise_3.4_solution.ipynb
+   exercise_3.5_solution.ipynb
diff --git a/2024/exercise_solutions/exercise_1/exercise_1.1_solution.html b/2024/exercise_solutions/exercise_1/exercise_1.1_solution.html
@@ -135,6 +135,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -221,11 +222,11 @@ <h2>Solution<a class="headerlink" href="#Solution" title="Link to this heading">
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x128817950> 
+   <jinja2.runtime.BlockReference object at 0x16b296110> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_1/exercise_1.2_solution.html b/2024/exercise_solutions/exercise_1/exercise_1.2_solution.html
@@ -135,6 +135,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -253,11 +254,11 @@ <h2>Solution<a class="headerlink" href="#Solution" title="Link to this heading">
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x128d02810> 
+   <jinja2.runtime.BlockReference object at 0x16a093810> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_1/exercise_1.3_solution.html b/2024/exercise_solutions/exercise_1/exercise_1.3_solution.html
@@ -137,6 +137,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -267,11 +268,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x128ca6c90> 
+   <jinja2.runtime.BlockReference object at 0x147a16b90> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_1/exercise_1.4_solution.html b/2024/exercise_solutions/exercise_1/exercise_1.4_solution.html
@@ -137,6 +137,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -339,11 +340,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x128479650> 
+   <jinja2.runtime.BlockReference object at 0x142ce8ed0> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_1/exercise_1.5_solution.html b/2024/exercise_solutions/exercise_1/exercise_1.5_solution.html
@@ -137,6 +137,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -343,11 +344,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x128d8f110> 
+   <jinja2.runtime.BlockReference object at 0x147a584d0> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_1/exercise_1.6_solution.html b/2024/exercise_solutions/exercise_1/exercise_1.6_solution.html
@@ -138,6 +138,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -526,11 +527,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x12843a3d0> 
+   <jinja2.runtime.BlockReference object at 0x142e16090> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_1/index.html b/2024/exercise_solutions/exercise_1/index.html
@@ -132,6 +132,7 @@
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="../exercise_2/index.html">Exercise 2 solutions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -203,11 +204,11 @@ <h1>Exercise 1 solutions<a class="headerlink" href="#exercise-1-solutions" title
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x11fc284d0> 
+   <jinja2.runtime.BlockReference object at 0x142a1c490> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_2/exercise_2.1_solution.html b/2024/exercise_solutions/exercise_2/exercise_2.1_solution.html
@@ -135,6 +135,7 @@
 <li class="toctree-l2"><a class="reference internal" href="exercise_2.4_solution.html">Exercise 2.4: ORF detection</a></li>
 </ul>
 </li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -335,11 +336,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x11f75f790> 
+   <jinja2.runtime.BlockReference object at 0x142a6de90> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_2/exercise_2.2_solution.html b/2024/exercise_solutions/exercise_2/exercise_2.2_solution.html
@@ -135,6 +135,7 @@
 <li class="toctree-l2"><a class="reference internal" href="exercise_2.4_solution.html">Exercise 2.4: ORF detection</a></li>
 </ul>
 </li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -406,11 +407,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x12848c950> 
+   <jinja2.runtime.BlockReference object at 0x142fc9310> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_2/exercise_2.3_solution.html b/2024/exercise_solutions/exercise_2/exercise_2.3_solution.html
@@ -135,6 +135,7 @@
 <li class="toctree-l2"><a class="reference internal" href="exercise_2.4_solution.html">Exercise 2.4: ORF detection</a></li>
 </ul>
 </li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -705,11 +706,11 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x11f8b5b50> 
+   <jinja2.runtime.BlockReference object at 0x142e17c50> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_2/exercise_2.4_solution.html b/2024/exercise_solutions/exercise_2/exercise_2.4_solution.html
@@ -36,7 +36,7 @@
     <script src="../../_static/js/theme.js"></script>
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
-    <link rel="next" title="Schedule overview" href="../../schedule.html" />
+    <link rel="next" title="Exercise 3 solutions" href="../exercise_3/index.html" />
     <link rel="prev" title="Exercise 2.3: Pathogenicity islands" href="exercise_2.3_solution.html" /> 
 </head>
 
@@ -135,6 +135,7 @@
 </li>
 </ul>
 </li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -813,18 +814,18 @@ <h2>Computing environment<a class="headerlink" href="#Computing-environment" tit
           </div>
           <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
         <a href="exercise_2.3_solution.html" class="btn btn-neutral float-left" title="Exercise 2.3: Pathogenicity islands" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
-        <a href="../../schedule.html" class="btn btn-neutral float-right" title="Schedule overview" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
+        <a href="../exercise_3/index.html" class="btn btn-neutral float-right" title="Exercise 3 solutions" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
     </div>
 
   <hr/>
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x12849f910> 
+   <jinja2.runtime.BlockReference object at 0x3053af150> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>
 

diff --git a/2024/exercise_solutions/exercise_2/index.html b/2024/exercise_solutions/exercise_2/index.html
@@ -130,6 +130,7 @@
 <li class="toctree-l2"><a class="reference internal" href="exercise_2.4_solution.html">Exercise 2.4: ORF detection</a></li>
 </ul>
 </li>
+<li class="toctree-l1"><a class="reference internal" href="../exercise_3/index.html">Exercise 3 solutions</a></li>
 </ul>
 <p class="caption" role="heading"><span class="caption-text">Schedule</span></p>
 <ul>
@@ -199,11 +200,11 @@ <h1>Exercise 2 solutions<a class="headerlink" href="#exercise-2-solutions" title
 
   <div role="contentinfo">
     <p>
-      <span class="lastupdated">Last updated on Jun 19, 2024.
+      <span class="lastupdated">Last updated on Jun 20, 2024.
       </span></p>
   </div>
 
-   <jinja2.runtime.BlockReference object at 0x11f6b8d90> 
+   <jinja2.runtime.BlockReference object at 0x30541c790> 
 
 <p>© 2015–2024 Justin Bois. With the exception of pasted graphics, where the source is noted, this work is licensed under a <a rel="license" href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License CC-BY 4.0</a>. All code contained herein is licensed under an <a rel="license" href="https://opensource.org/licenses/MIT">MIT license</a>.</p>