Update documentation

2025-12-27 21:23:03 -08:00 · 2020-12-29 11:59:26 -05:00
parent 90189fd014
commit fa6a57e9cb
38 changed files with 2769 additions and 3558 deletions
--- a/07_plot.html
+++ b/07_plot.html
@@ -458,17 +458,12 @@
 </pre></div>
 </div>
 </div>
-<div class="cell_output docutils container">
-<div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>gd1_merged.hdf5
-</pre></div>
-</div>
-</div>
 </div>
 <div class="cell docutils container">
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 <div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">pandas</span> <span class="k">as</span> <span class="nn">pd</span>

-<span class="n">selected</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_hdf</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;selected&#39;</span><span class="p">)</span>
+<span class="n">selected2</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_hdf</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;selected2&#39;</span><span class="p">)</span>
 </pre></div>
 </div>
 </div>
@@ -496,7 +491,7 @@
 <div class="cell docutils container">
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 <div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">10</span><span class="p">,</span><span class="mf">2.5</span><span class="p">))</span>
-<span class="n">plot_second_selection</span><span class="p">(</span><span class="n">selected</span><span class="p">)</span>
+<span class="n">plot_second_selection</span><span class="p">(</span><span class="n">selected2</span><span class="p">)</span>
 </pre></div>
 </div>
 </div>
@@ -722,7 +717,7 @@
 </div>
 <div class="section" id="upper-right">
 <h2>Upper right<a class="headerlink" href="#upper-right" title="Permalink to this headline">¶</a></h2>
-<p>To make the panel in the upper right, we have to reload <code class="docutils literal notranslate"><span class="pre">centerline</span></code>.</p>
+<p>To make the panel in the upper right, we have to reload <code class="docutils literal notranslate"><span class="pre">centerline_df</span></code>.</p>
 <div class="cell docutils container">
 <div class="cell_input docutils container">
 <div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">os</span>
@@ -735,17 +730,12 @@
 </pre></div>
 </div>
 </div>
-<div class="cell_output docutils container">
-<div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>gd1_dataframe.hdf5
-</pre></div>
-</div>
-</div>
 </div>
 <div class="cell docutils container">
 <div class="cell_input docutils container">
 <div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">pandas</span> <span class="k">as</span> <span class="nn">pd</span>

-<span class="n">centerline</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_hdf</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;centerline&#39;</span><span class="p">)</span>
+<span class="n">centerline_df</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_hdf</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;centerline_df&#39;</span><span class="p">)</span>
 </pre></div>
 </div>
 </div>
@@ -815,7 +805,7 @@
 <div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.usetex&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">False</span>
 <span class="n">plt</span><span class="o">.</span><span class="n">style</span><span class="o">.</span><span class="n">use</span><span class="p">(</span><span class="s1">&#39;default&#39;</span><span class="p">)</span>

-<span class="n">plot_proper_motion</span><span class="p">(</span><span class="n">centerline</span><span class="p">)</span>
+<span class="n">plot_proper_motion</span><span class="p">(</span><span class="n">centerline_df</span><span class="p">)</span>
 </pre></div>
 </div>
 </div>
@@ -839,11 +829,6 @@
 </pre></div>
 </div>
 </div>
-<div class="cell_output docutils container">
-<div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>gd1_candidates.hdf5
-</pre></div>
-</div>
-</div>
 </div>
 <div class="cell docutils container">
 <div class="cell_input docutils container">
@@ -919,8 +904,8 @@
    <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">([</span><span class="mi">14</span><span class="p">,</span> <span class="mi">22</span><span class="p">])</span>
    <span class="n">plt</span><span class="o">.</span><span class="n">gca</span><span class="p">()</span><span class="o">.</span><span class="n">invert_yaxis</span><span class="p">()</span>

-    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;$g_0$&#39;</span><span class="p">)</span>
-    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;$(g-i)_0$&#39;</span><span class="p">)</span>
+    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;$Magnitude (g)$&#39;</span><span class="p">)</span>
+    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;$Color (g-i)$&#39;</span><span class="p">)</span>
 </pre></div>
 </div>
 </div>
@@ -949,283 +934,67 @@
 </pre></div>
 </div>
 </div>
-<div class="cell_output docutils container">
-<div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>gd1_polygon.hdf5
-</pre></div>
-</div>
-</div>
 </div>
 <p>And here’s how we read it back.</p>
 <div class="cell docutils container">
 <div class="cell_input docutils container">
-<div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="n">loop</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_hdf</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;loop&#39;</span><span class="p">)</span>
-<span class="n">loop</span>
+<div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="n">loop_df</span> <span class="o">=</span> <span class="n">pd</span><span class="o">.</span><span class="n">read_hdf</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;loop_df&#39;</span><span class="p">)</span>
+<span class="n">loop_df</span><span class="o">.</span><span class="n">head</span><span class="p">()</span>
 </pre></div>
 </div>
 </div>
 <div class="cell_output docutils container">
-<div class="output text_plain highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>gi
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-              ...    
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-</pre></div>
-</div>
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-<div class="cell docutils container">
-<div class="cell_input docutils container">
-<div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="n">coords</span> <span class="o">=</span> <span class="n">loop</span><span class="o">.</span><span class="n">reset_index</span><span class="p">()</span><span class="o">.</span><span class="n">to_numpy</span><span class="p">()</span>
-<span class="n">coords</span>
-</pre></div>
-</div>
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-       [ 0.8240001 , 21.23338001],
-       [ 0.84950281, 21.32246601],
-       [ 0.8752204 , 21.41174601]])
-</pre></div>
-</div>
-</div>
+<div class="output text_html"><div>
+<style scoped>
+    .dataframe tbody tr th:only-of-type {
+        vertical-align: middle;
+    }
+
+    .dataframe tbody tr th {
+        vertical-align: top;
+    }
+
+    .dataframe thead th {
+        text-align: right;
+    }
+</style>
+<table border="1" class="dataframe">
+  <thead>
+    <tr style="text-align: right;">
+      <th></th>
+      <th>color_loop</th>
+      <th>mag_loop</th>
+    </tr>
+  </thead>
+  <tbody>
+    <tr>
+      <th>0</th>
+      <td>0.632171</td>
+      <td>21.411746</td>
+    </tr>
+    <tr>
+      <th>1</th>
+      <td>0.610238</td>
+      <td>21.322466</td>
+    </tr>
+    <tr>
+      <th>2</th>
+      <td>0.588449</td>
+      <td>21.233380</td>
+    </tr>
+    <tr>
+      <th>3</th>
+      <td>0.566924</td>
+      <td>21.144427</td>
+    </tr>
+    <tr>
+      <th>4</th>
+      <td>0.545461</td>
+      <td>21.054549</td>
+    </tr>
+  </tbody>
+</table>
+</div></div></div>
 </div>
 <div class="section" id="id3">
 <h3>Exercise<a class="headerlink" href="#id3" title="Permalink to this headline">¶</a></h3>
@@ -1235,7 +1004,7 @@ Name: g, Length: 234, dtype: float64
 <div class="cell_input docutils container">
 <div class="highlight-ipython3 notranslate"><div class="highlight"><pre><span></span><span class="c1"># Solution</span>

-<span class="c1"># poly = Polygon(coords, closed=True, </span>
+<span class="c1"># poly = Polygon(loop_df, closed=True, </span>
 <span class="c1">#                facecolor=&#39;C1&#39;, alpha=0.4)</span>
 <span class="c1"># plt.gca().add_patch(poly)</span>
 </pre></div>
@@ -1261,14 +1030,14 @@ Name: g, Length: 234, dtype: float64
 <span class="n">plot_first_selection</span><span class="p">(</span><span class="n">candidate_df</span><span class="p">)</span>

 <span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">(</span><span class="n">shape</span><span class="p">,</span> <span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-<span class="n">plot_proper_motion</span><span class="p">(</span><span class="n">centerline</span><span class="p">)</span>
+<span class="n">plot_proper_motion</span><span class="p">(</span><span class="n">centerline_df</span><span class="p">)</span>

 <span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">(</span><span class="n">shape</span><span class="p">,</span> <span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">))</span>
-<span class="n">plot_second_selection</span><span class="p">(</span><span class="n">selected</span><span class="p">)</span>
+<span class="n">plot_second_selection</span><span class="p">(</span><span class="n">selected2</span><span class="p">)</span>

 <span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">(</span><span class="n">shape</span><span class="p">,</span> <span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
 <span class="n">plot_cmd</span><span class="p">(</span><span class="n">merged</span><span class="p">)</span>
-<span class="n">poly</span> <span class="o">=</span> <span class="n">Polygon</span><span class="p">(</span><span class="n">coords</span><span class="p">,</span> <span class="n">closed</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> 
+<span class="n">poly</span> <span class="o">=</span> <span class="n">Polygon</span><span class="p">(</span><span class="n">loop_df</span><span class="p">,</span> <span class="n">closed</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> 
               <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;C1&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
 <span class="n">plt</span><span class="o">.</span><span class="n">gca</span><span class="p">()</span><span class="o">.</span><span class="n">add_patch</span><span class="p">(</span><span class="n">poly</span><span class="p">)</span>

@@ -1277,7 +1046,7 @@ Name: g, Length: 234, dtype: float64
 </div>
 </div>
 <div class="cell_output docutils container">
-<img alt="_images/07_plot_76_0.png" src="_images/07_plot_76_0.png" />
+<img alt="_images/07_plot_75_0.png" src="_images/07_plot_75_0.png" />
 </div>
 </div>
 <p>We use <a class="reference external" href="https://matplotlib.org/3.3.1/tutorials/intermediate/tight_layout_guide.html"><code class="docutils literal notranslate"><span class="pre">plt.tight_layout</span></code></a> at the end, which adjusts the sizes of the panels to make sure the titles and axis labels don’t overlap.</p>
@@ -1299,14 +1068,14 @@ Name: g, Length: 234, dtype: float64
 <span class="n">plot_first_selection</span><span class="p">(</span><span class="n">candidate_df</span><span class="p">)</span>

 <span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">(</span><span class="n">shape</span><span class="p">,</span> <span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">3</span><span class="p">))</span>
-<span class="n">plot_proper_motion</span><span class="p">(</span><span class="n">centerline</span><span class="p">)</span>
+<span class="n">plot_proper_motion</span><span class="p">(</span><span class="n">centerline_df</span><span class="p">)</span>

 <span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">(</span><span class="n">shape</span><span class="p">,</span> <span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">),</span> <span class="n">colspan</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
-<span class="n">plot_second_selection</span><span class="p">(</span><span class="n">selected</span><span class="p">)</span>
+<span class="n">plot_second_selection</span><span class="p">(</span><span class="n">selected2</span><span class="p">)</span>

 <span class="n">plt</span><span class="o">.</span><span class="n">subplot2grid</span><span class="p">(</span><span class="n">shape</span><span class="p">,</span> <span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">3</span><span class="p">))</span>
 <span class="n">plot_cmd</span><span class="p">(</span><span class="n">merged</span><span class="p">)</span>
-<span class="n">poly</span> <span class="o">=</span> <span class="n">Polygon</span><span class="p">(</span><span class="n">coords</span><span class="p">,</span> <span class="n">closed</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> 
+<span class="n">poly</span> <span class="o">=</span> <span class="n">Polygon</span><span class="p">(</span><span class="n">loop_df</span><span class="p">,</span> <span class="n">closed</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> 
               <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;C1&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
 <span class="n">plt</span><span class="o">.</span><span class="n">gca</span><span class="p">()</span><span class="o">.</span><span class="n">add_patch</span><span class="p">(</span><span class="n">poly</span><span class="p">)</span>

@@ -1315,7 +1084,7 @@ Name: g, Length: 234, dtype: float64
 </div>
 </div>
 <div class="cell_output docutils container">
-<img alt="_images/07_plot_79_0.png" src="_images/07_plot_79_0.png" />
+<img alt="_images/07_plot_78_0.png" src="_images/07_plot_78_0.png" />
 </div>
 </div>
 <p>This is looking more and more like the figure in the paper.</p>
@@ -1333,10 +1102,10 @@ Name: g, Length: 234, dtype: float64
 <span class="c1"># plot_first_selection(candidate_df)</span>

 <span class="c1"># plt.subplot2grid(shape, (0, 3), colspan=2)       # CHANGED</span>
-<span class="c1"># plot_proper_motion(centerline)</span>
+<span class="c1"># plot_proper_motion(centerline_df)</span>

 <span class="c1"># plt.subplot2grid(shape, (1, 0), colspan=3)</span>
-<span class="c1"># plot_second_selection(selected)</span>
+<span class="c1"># plot_second_selection(selected2)</span>

 <span class="c1"># plt.subplot2grid(shape, (1, 3), colspan=2)       # CHANGED</span>
 <span class="c1"># plot_cmd(merged)</span>