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6 changes: 5 additions & 1 deletion core/core.html
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<a class="nav-link" href="../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -337,7 +341,7 @@ <h1 class="title">Core Data Analysis</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-1/overview.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -333,7 +337,7 @@ <h1 class="title">Overview</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-1/study_after_workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -333,7 +337,7 @@ <h1 class="title">Independent Study to consolidate this week</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-1/study_before_workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -326,7 +330,7 @@ <h1 class="title">Independent Study to prepare for workshop</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-1/workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -386,7 +390,7 @@ <h1 class="title">Workshop</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-11/overview.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -333,7 +337,7 @@ <h1 class="title">Overview</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-11/study_after_workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -337,7 +341,7 @@ <h1 class="title">Independent Study to consolidate this week</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-11/study_before_workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -326,7 +330,7 @@ <h1 class="title">Independent Study to prepare for workshop</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-11/workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -339,7 +343,7 @@ <h1 class="title">Workshop</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-2/overview.html
Original file line number Diff line number Diff line change
Expand Up @@ -125,6 +125,10 @@
<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -324,7 +328,7 @@ <h1 class="title">Overview</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-2/study_after_workshop.html
Original file line number Diff line number Diff line change
Expand Up @@ -125,6 +125,10 @@
<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -324,7 +328,7 @@ <h1 class="title">Independent Study to consolidate this week</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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2 changes: 1 addition & 1 deletion core/week-2/study_before_workshop.html
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</div>
</div>

<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</section><section id="overview" class="slide level2"><h2>Overview</h2>
<ul>
<li>RStudio Projects revisited
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82 changes: 43 additions & 39 deletions core/week-2/workshop.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -400,7 +404,7 @@ <h1 class="title">Workshop</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

Expand Down Expand Up @@ -489,58 +493,58 @@ <h1 class="title">Workshop</h1>
<div class="sourceCode cell-code" id="cb9"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb9-1"><a href="#cb9-1" aria-hidden="true" tabindex="-1"></a><span class="fu">ls</span> <span class="at">-l</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-stdout">
<pre><code>total 212
drwxr-xr-x 2 runner docker 4096 Nov 22 19:23 data
drwxr-xr-x 2 runner docker 4096 Nov 22 19:23 images
-rw-r--r-- 1 runner docker 1597 Nov 22 19:23 overview.qmd
-rw-r--r-- 1 runner docker 25383 Nov 22 19:28 study_after_workshop.html
-rw-r--r-- 1 runner docker 184 Nov 22 19:23 study_after_workshop.qmd
-rw-r--r-- 1 runner docker 70840 Nov 22 19:28 study_before_workshop.html
-rw-r--r-- 1 runner docker 4807 Nov 22 19:23 study_before_workshop.ipynb
-rw-r--r-- 1 runner docker 13029 Nov 22 19:23 study_before_workshop.qmd
-rw-r--r-- 1 runner docker 44938 Nov 22 19:23 workshop.html
-rw-r--r-- 1 runner docker 8550 Nov 22 19:23 workshop.qmd
-rw-r--r-- 1 runner docker 8564 Nov 22 19:28 workshop.rmarkdown
drwxr-xr-x 3 runner docker 4096 Nov 22 19:23 workshop_files</code></pre>
drwxr-xr-x 2 runner docker 4096 Nov 26 14:13 data
drwxr-xr-x 2 runner docker 4096 Nov 26 14:13 images
-rw-r--r-- 1 runner docker 1597 Nov 26 14:13 overview.qmd
-rw-r--r-- 1 runner docker 25554 Nov 26 14:18 study_after_workshop.html
-rw-r--r-- 1 runner docker 184 Nov 26 14:13 study_after_workshop.qmd
-rw-r--r-- 1 runner docker 70840 Nov 26 14:18 study_before_workshop.html
-rw-r--r-- 1 runner docker 4807 Nov 26 14:13 study_before_workshop.ipynb
-rw-r--r-- 1 runner docker 13029 Nov 26 14:13 study_before_workshop.qmd
-rw-r--r-- 1 runner docker 44938 Nov 26 14:13 workshop.html
-rw-r--r-- 1 runner docker 8550 Nov 26 14:13 workshop.qmd
-rw-r--r-- 1 runner docker 8564 Nov 26 14:18 workshop.rmarkdown
drwxr-xr-x 3 runner docker 4096 Nov 26 14:13 workshop_files</code></pre>
</div>
</div>
<p>You can use more than one option at once. The <code>-h</code> option stands for “human readable” and makes the file sizes easier to understand for humans:</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb11"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb11-1"><a href="#cb11-1" aria-hidden="true" tabindex="-1"></a><span class="fu">ls</span> <span class="at">-hl</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-stdout">
<pre><code>total 212K
drwxr-xr-x 2 runner docker 4.0K Nov 22 19:23 data
drwxr-xr-x 2 runner docker 4.0K Nov 22 19:23 images
-rw-r--r-- 1 runner docker 1.6K Nov 22 19:23 overview.qmd
-rw-r--r-- 1 runner docker 25K Nov 22 19:28 study_after_workshop.html
-rw-r--r-- 1 runner docker 184 Nov 22 19:23 study_after_workshop.qmd
-rw-r--r-- 1 runner docker 70K Nov 22 19:28 study_before_workshop.html
-rw-r--r-- 1 runner docker 4.7K Nov 22 19:23 study_before_workshop.ipynb
-rw-r--r-- 1 runner docker 13K Nov 22 19:23 study_before_workshop.qmd
-rw-r--r-- 1 runner docker 44K Nov 22 19:23 workshop.html
-rw-r--r-- 1 runner docker 8.4K Nov 22 19:23 workshop.qmd
-rw-r--r-- 1 runner docker 8.4K Nov 22 19:28 workshop.rmarkdown
drwxr-xr-x 3 runner docker 4.0K Nov 22 19:23 workshop_files</code></pre>
drwxr-xr-x 2 runner docker 4.0K Nov 26 14:13 data
drwxr-xr-x 2 runner docker 4.0K Nov 26 14:13 images
-rw-r--r-- 1 runner docker 1.6K Nov 26 14:13 overview.qmd
-rw-r--r-- 1 runner docker 25K Nov 26 14:18 study_after_workshop.html
-rw-r--r-- 1 runner docker 184 Nov 26 14:13 study_after_workshop.qmd
-rw-r--r-- 1 runner docker 70K Nov 26 14:18 study_before_workshop.html
-rw-r--r-- 1 runner docker 4.7K Nov 26 14:13 study_before_workshop.ipynb
-rw-r--r-- 1 runner docker 13K Nov 26 14:13 study_before_workshop.qmd
-rw-r--r-- 1 runner docker 44K Nov 26 14:13 workshop.html
-rw-r--r-- 1 runner docker 8.4K Nov 26 14:13 workshop.qmd
-rw-r--r-- 1 runner docker 8.4K Nov 26 14:18 workshop.rmarkdown
drwxr-xr-x 3 runner docker 4.0K Nov 26 14:13 workshop_files</code></pre>
</div>
</div>
<p>The <code>-a</code> option stands for “all” and shows us all the files, including hidden files.</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb13"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb13-1"><a href="#cb13-1" aria-hidden="true" tabindex="-1"></a><span class="fu">ls</span> <span class="at">-alh</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-stdout">
<pre><code>total 220K
drwxr-xr-x 5 runner docker 4.0K Nov 22 19:28 .
drwxr-xr-x 6 runner docker 4.0K Nov 22 19:27 ..
drwxr-xr-x 2 runner docker 4.0K Nov 22 19:23 data
drwxr-xr-x 2 runner docker 4.0K Nov 22 19:23 images
-rw-r--r-- 1 runner docker 1.6K Nov 22 19:23 overview.qmd
-rw-r--r-- 1 runner docker 25K Nov 22 19:28 study_after_workshop.html
-rw-r--r-- 1 runner docker 184 Nov 22 19:23 study_after_workshop.qmd
-rw-r--r-- 1 runner docker 70K Nov 22 19:28 study_before_workshop.html
-rw-r--r-- 1 runner docker 4.7K Nov 22 19:23 study_before_workshop.ipynb
-rw-r--r-- 1 runner docker 13K Nov 22 19:23 study_before_workshop.qmd
-rw-r--r-- 1 runner docker 44K Nov 22 19:23 workshop.html
-rw-r--r-- 1 runner docker 8.4K Nov 22 19:23 workshop.qmd
-rw-r--r-- 1 runner docker 8.4K Nov 22 19:28 workshop.rmarkdown
drwxr-xr-x 3 runner docker 4.0K Nov 22 19:23 workshop_files</code></pre>
drwxr-xr-x 5 runner docker 4.0K Nov 26 14:18 .
drwxr-xr-x 6 runner docker 4.0K Nov 26 14:17 ..
drwxr-xr-x 2 runner docker 4.0K Nov 26 14:13 data
drwxr-xr-x 2 runner docker 4.0K Nov 26 14:13 images
-rw-r--r-- 1 runner docker 1.6K Nov 26 14:13 overview.qmd
-rw-r--r-- 1 runner docker 25K Nov 26 14:18 study_after_workshop.html
-rw-r--r-- 1 runner docker 184 Nov 26 14:13 study_after_workshop.qmd
-rw-r--r-- 1 runner docker 70K Nov 26 14:18 study_before_workshop.html
-rw-r--r-- 1 runner docker 4.7K Nov 26 14:13 study_before_workshop.ipynb
-rw-r--r-- 1 runner docker 13K Nov 26 14:13 study_before_workshop.qmd
-rw-r--r-- 1 runner docker 44K Nov 26 14:13 workshop.html
-rw-r--r-- 1 runner docker 8.4K Nov 26 14:13 workshop.qmd
-rw-r--r-- 1 runner docker 8.4K Nov 26 14:18 workshop.rmarkdown
drwxr-xr-x 3 runner docker 4.0K Nov 26 14:13 workshop_files</code></pre>
</div>
</div>
<p>You can move about with the <code>cd</code> command, which stands for “change directory”. You can use it to move into a directory by specifying the path to the directory:</p>
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6 changes: 5 additions & 1 deletion core/week-6/overview.html
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<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -332,7 +336,7 @@ <h1 class="title">Overview</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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6 changes: 5 additions & 1 deletion core/week-6/study_after_workshop.html
Original file line number Diff line number Diff line change
Expand Up @@ -125,6 +125,10 @@
<a class="nav-link" href="../../images/images.html" rel="" target="">
<span class="menu-text">Image Analysis</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="../../structures/structures.html" rel="" target="">
<span class="menu-text">Structure Analysis</span></a>
</li>
</ul>
<div class="quarto-navbar-tools ms-auto">
<a href="https://twitter.com/er_13" rel="" title="Emma's Twitter" class="quarto-navigation-tool px-1" aria-label="Emma's Twitter"><i class="bi bi-twitter"></i></a>
Expand Down Expand Up @@ -326,7 +330,7 @@ <h1 class="title">Independent Study to consolidate this week</h1>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">22 November, 2023</p>
<p class="date">26 November, 2023</p>
</div>
</div>

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