deploy: 6986e38

01_1_train_CF.html

@@ -995,8 +995,8 @@ <h3>Training<a class="headerlink" href="#training" title="Link to this heading">
         background: #F44336;
     }
 </style>
-</div><div class="output text_html"></div><div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>suggested_lr.valley = 0.00759
-No improvement since epoch 10: early stopping
+</div><div class="output text_html"></div><div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>suggested_lr.valley = 0.00174
+No improvement since epoch 20: early stopping
 pimmslearn.plotting - INFO     Saved Figures to runs/alzheimer_study/figures/collab_training
 </pre></div>
 </div>
@@ -1032,79 +1032,139 @@ <h3>Training<a class="headerlink" href="#training" title="Link to this heading">
   <tbody>
     <tr>
       <td>0</td>
-      <td>7.365228</td>
-      <td>10.037841</td>
+      <td>9.168651</td>
+      <td>13.741968</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>1</td>
-      <td>2.032692</td>
-      <td>2.401942</td>
+      <td>8.461307</td>
+      <td>12.723242</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>2</td>
-      <td>0.711758</td>
-      <td>0.873825</td>
+      <td>7.035571</td>
+      <td>10.529428</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>3</td>
-      <td>0.566351</td>
-      <td>0.741343</td>
+      <td>4.549444</td>
+      <td>6.741402</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>4</td>
-      <td>0.545464</td>
-      <td>0.724314</td>
+      <td>2.045494</td>
+      <td>3.072513</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>5</td>
-      <td>0.489364</td>
-      <td>0.649803</td>
+      <td>0.941053</td>
+      <td>1.321486</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>6</td>
-      <td>0.413048</td>
-      <td>0.561579</td>
+      <td>0.627824</td>
+      <td>0.833342</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>7</td>
-      <td>0.382740</td>
-      <td>0.530915</td>
+      <td>0.562150</td>
+      <td>0.746193</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>8</td>
-      <td>0.343510</td>
-      <td>0.504798</td>
+      <td>0.556102</td>
+      <td>0.737756</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>9</td>
-      <td>0.305056</td>
-      <td>0.478460</td>
+      <td>0.548338</td>
+      <td>0.723306</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>10</td>
-      <td>0.271160</td>
-      <td>0.463562</td>
+      <td>0.520307</td>
+      <td>0.697268</td>
       <td>00:01</td>
     </tr>
     <tr>
       <td>11</td>
-      <td>0.239125</td>
-      <td>0.484891</td>
+      <td>0.466461</td>
+      <td>0.635079</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>12</td>
+      <td>0.423360</td>
+      <td>0.578209</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>13</td>
+      <td>0.383152</td>
+      <td>0.543723</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>14</td>
+      <td>0.361486</td>
+      <td>0.520882</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>15</td>
+      <td>0.343894</td>
+      <td>0.505671</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>16</td>
+      <td>0.322305</td>
+      <td>0.476073</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>17</td>
+      <td>0.295077</td>
+      <td>0.463171</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>18</td>
+      <td>0.270299</td>
+      <td>0.445510</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>19</td>
+      <td>0.243685</td>
+      <td>0.444090</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>20</td>
+      <td>0.224203</td>
+      <td>0.438164</td>
+      <td>00:01</td>
+    </tr>
+    <tr>
+      <td>21</td>
+      <td>0.205752</td>
+      <td>0.441532</td>
       <td>00:01</td>
     </tr>
   </tbody>
-</table></div><img alt="_images/d66125edd6b5af11510ef584142ea086f3f6b554670e4ed7559c574e3beaad0d.png" src="_images/d66125edd6b5af11510ef584142ea086f3f6b554670e4ed7559c574e3beaad0d.png" />
-<img alt="_images/98f358eff0f75d1115807834727a3fbba438128c36e5dcc957d3000b9bb7af61.png" src="_images/98f358eff0f75d1115807834727a3fbba438128c36e5dcc957d3000b9bb7af61.png" />
+</table></div><img alt="_images/a699db148fb94315eac8484e701207a74103930ecedf6451e1c05a45be921ca0.png" src="_images/a699db148fb94315eac8484e701207a74103930ecedf6451e1c05a45be921ca0.png" />
+<img alt="_images/ce7b3c0a7711940cca450cda8dfda92328c22625f1b1ec4c06c89597c8a2a805.png" src="_images/ce7b3c0a7711940cca450cda8dfda92328c22625f1b1ec4c06c89597c8a2a805.png" />
 </div>
 </div>
 </section>
@@ -1179,31 +1239,31 @@ <h3>Predictions<a class="headerlink" href="#predictions" title="Link to this hea
       <th>Sample_158</th>
       <th>Q9UN70;Q9UN70-2</th>
       <td>14.630</td>
-      <td>15.688</td>
+      <td>15.527</td>
     </tr>
     <tr>
       <th>Sample_050</th>
       <th>Q9Y287</th>
       <td>15.755</td>
-      <td>16.321</td>
+      <td>17.003</td>
     </tr>
     <tr>
       <th>Sample_107</th>
       <th>Q8N475;Q8N475-2</th>
       <td>15.029</td>
-      <td>14.681</td>
+      <td>14.165</td>
     </tr>
     <tr>
       <th>Sample_199</th>
       <th>P06307</th>
       <td>19.376</td>
-      <td>19.612</td>
+      <td>19.440</td>
     </tr>
     <tr>
       <th>Sample_067</th>
       <th>Q5VUB5</th>
       <td>15.309</td>
-      <td>15.382</td>
+      <td>15.032</td>
     </tr>
     <tr>
       <th>...</th>
@@ -1215,31 +1275,31 @@ <h3>Predictions<a class="headerlink" href="#predictions" title="Link to this hea
       <th>Sample_111</th>
       <th>F6SYF8;Q9UBP4</th>
       <td>22.822</td>
-      <td>23.062</td>
+      <td>22.991</td>
     </tr>
     <tr>
       <th>Sample_002</th>
       <th>A0A0A0MT36</th>
       <td>18.165</td>
-      <td>15.780</td>
+      <td>15.819</td>
     </tr>
     <tr>
       <th>Sample_049</th>
       <th>Q8WY21;Q8WY21-2;Q8WY21-3;Q8WY21-4</th>
       <td>15.525</td>
-      <td>15.189</td>
+      <td>15.470</td>
     </tr>
     <tr>
       <th>Sample_182</th>
       <th>Q8NFT8</th>
       <td>14.379</td>
-      <td>13.638</td>
+      <td>14.419</td>
     </tr>
     <tr>
       <th>Sample_123</th>
       <th>Q16853;Q16853-2</th>
       <td>14.504</td>
-      <td>14.396</td>
+      <td>14.578</td>
     </tr>
   </tbody>
 </table>
@@ -1312,27 +1372,27 @@ <h3>Predictions<a class="headerlink" href="#predictions" title="Link to this hea
       <th rowspan="5" valign="top">Sample_000</th>
       <th>A0A075B6P5;P01615</th>
       <td>17.016</td>
-      <td>17.538</td>
+      <td>17.315</td>
     </tr>
     <tr>
       <th>A0A087X089;Q16627;Q16627-2</th>
       <td>18.280</td>
-      <td>17.803</td>
+      <td>17.821</td>
     </tr>
     <tr>
       <th>A0A0B4J2B5;S4R460</th>
       <td>21.735</td>
-      <td>22.921</td>
+      <td>22.818</td>
     </tr>
     <tr>
       <th>A0A140T971;O95865;Q5SRR8;Q5SSV3</th>
       <td>14.603</td>
-      <td>15.239</td>
+      <td>14.990</td>
     </tr>
     <tr>
       <th>A0A140TA33;A0A140TA41;A0A140TA52;P22105;P22105-3;P22105-4</th>
       <td>16.143</td>
-      <td>16.048</td>
+      <td>16.367</td>
     </tr>
     <tr>
       <th>...</th>
@@ -1344,27 +1404,27 @@ <h3>Predictions<a class="headerlink" href="#predictions" title="Link to this hea
       <th rowspan="5" valign="top">Sample_209</th>
       <th>Q96ID5</th>
       <td>16.074</td>
-      <td>16.052</td>
+      <td>16.289</td>
     </tr>
     <tr>
       <th>Q9H492;Q9H492-2</th>
       <td>13.173</td>
-      <td>13.225</td>
+      <td>13.412</td>
     </tr>
     <tr>
       <th>Q9HC57</th>
       <td>14.207</td>
-      <td>14.390</td>
+      <td>13.861</td>
     </tr>
     <tr>
       <th>Q9NPH3;Q9NPH3-2;Q9NPH3-5</th>
       <td>14.962</td>
-      <td>15.381</td>
+      <td>15.117</td>
     </tr>
     <tr>
       <th>Q9UGM5;Q9UGM5-2</th>
       <td>16.871</td>
-      <td>16.136</td>
+      <td>16.250</td>
     </tr>
   </tbody>
 </table>
@@ -1656,8 +1716,8 @@ <h3>Validation data<a class="headerlink" href="#validation-data" title="Link to
 <div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>Selected as truth to compare to: observed
 </pre></div>
 </div>
-<div class="output text_plain highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>{&#39;CF&#39;: {&#39;MSE&#39;: 0.4848906868950271,
-  &#39;MAE&#39;: 0.4732235899731502,
+<div class="output text_plain highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>{&#39;CF&#39;: {&#39;MSE&#39;: 0.44153182857210116,
+  &#39;MAE&#39;: 0.44627106551225626,
   &#39;N&#39;: 12600,
   &#39;prop&#39;: 1.0}}
 </pre></div>
@@ -1681,8 +1741,8 @@ <h3>Test Datasplit<a class="headerlink" href="#test-datasplit" title="Link to th
 <div class="output stream highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>Selected as truth to compare to: observed
 </pre></div>
 </div>
-<div class="output text_plain highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>{&#39;CF&#39;: {&#39;MSE&#39;: 0.5095124560652031,
-  &#39;MAE&#39;: 0.4802188171423251,
+<div class="output text_plain highlight-myst-ansi notranslate"><div class="highlight"><pre><span></span>{&#39;CF&#39;: {&#39;MSE&#39;: 0.4640952124832808,
+  &#39;MAE&#39;: 0.4495267468936316,
   &#39;N&#39;: 12600,
   &#39;prop&#39;: 1.0}}
 </pre></div>
@@ -1740,13 +1800,13 @@ <h3>Test Datasplit<a class="headerlink" href="#test-datasplit" title="Link to th
     <tr>
       <th rowspan="4" valign="top">CF</th>
       <th>MSE</th>
-      <td>0.485</td>
-      <td>0.510</td>
+      <td>0.442</td>
+      <td>0.464</td>
     </tr>
     <tr>
       <th>MAE</th>
-      <td>0.473</td>
-      <td>0.480</td>
+      <td>0.446</td>
+      <td>0.450</td>
     </tr>
     <tr>
       <th>N</th>
@@ -1802,7 +1862,7 @@ <h2>Config<a class="headerlink" href="#config" title="Link to this heading">#</a
  &#39;batch_size&#39;: 1024,
  &#39;cuda&#39;: False,
  &#39;data&#39;: Path(&#39;runs/alzheimer_study/data&#39;),
- &#39;epoch_trained&#39;: 12,
+ &#39;epoch_trained&#39;: 22,
  &#39;epochs_max&#39;: 100,
  &#39;file_format&#39;: &#39;csv&#39;,
  &#39;fn_rawfile_metadata&#39;: &#39;https://raw.githubusercontent.com/RasmussenLab/njab/HEAD/docs/tutorial/data/alzheimer/meta.csv&#39;,