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Macatools · Dec 12, 2024 · 922c96d · 922c96d
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diff --git a/.buildinfo b/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: bb947ca06ec952ee2357aa7d7fbb8ec5
+config: fd752fe966269a2abdcafab42c10d369
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/_downloads/07fcc19ba03226cd3d83d4e40ec44385/auto_examples_python.zip b/_downloads/07fcc19ba03226cd3d83d4e40ec44385/auto_examples_python.zip
diff --git a/_downloads/6f1e7a639e0699d6164445b55e6c116d/auto_examples_jupyter.zip b/_downloads/6f1e7a639e0699d6164445b55e6c116d/auto_examples_jupyter.zip
diff --git a/_downloads/ee07afbe2c91f0228fd25f815bb8b5f8/plot_segment_sphinx_macaque_ants_based.zip b/_downloads/ee07afbe2c91f0228fd25f815bb8b5f8/plot_segment_sphinx_macaque_ants_based.zip
diff --git a/_sources/auto_examples/plot_segment_sphinx_macaque_ants_based.rst.txt b/_sources/auto_examples/plot_segment_sphinx_macaque_ants_based.rst.txt
@@ -105,7 +105,7 @@ Testing plot in local
 
 .. rst-class:: sphx-glr-timing
 
-   **Total running time of the script:** (0 minutes 0.002 seconds)
+   **Total running time of the script:** (0 minutes 0.003 seconds)
 
 
 .. _sphx_glr_download_auto_examples_plot_segment_sphinx_macaque_ants_based.py:

diff --git a/_sources/auto_examples/sg_execution_times.rst.txt b/_sources/auto_examples/sg_execution_times.rst.txt
@@ -6,7 +6,7 @@
 
 Computation times
 =================
-**00:00.002** total execution time for 1 file **from auto_examples**:
+**00:00.003** total execution time for 1 file **from auto_examples**:
 
 .. container::
 
@@ -33,5 +33,5 @@ Computation times
      - Time
      - Mem (MB)
    * - :ref:`sphx_glr_auto_examples_plot_segment_sphinx_macaque_ants_based.py` (``plot_segment_sphinx_macaque_ants_based.py``)
-     - 00:00.002
+     - 00:00.003
      - 0.0
diff --git a/_sources/sg_execution_times.rst.txt b/_sources/sg_execution_times.rst.txt
@@ -6,7 +6,7 @@
 
 Computation times
 =================
-**00:00.002** total execution time for 1 file **from all galleries**:
+**00:00.003** total execution time for 1 file **from all galleries**:
 
 .. container::
 
@@ -33,5 +33,5 @@ Computation times
      - Time
      - Mem (MB)
    * - :ref:`sphx_glr_auto_examples_plot_segment_sphinx_macaque_ants_based.py` (``../examples_doc/plot_segment_sphinx_macaque_ants_based.py``)
-     - 00:00.002
+     - 00:00.003
      - 0.0
diff --git a/auto_examples/index.html b/auto_examples/index.html
@@ -204,7 +204,7 @@
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/auto_examples/plot_segment_sphinx_macaque_ants_based.html b/auto_examples/plot_segment_sphinx_macaque_ants_based.html
@@ -218,7 +218,7 @@ <h2># Data preparation<a class="headerlink" href="#data-preparation" title="Link
 <span class="c1">#plt.show()</span>
 </pre></div>
 </div>
-<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 0.002 seconds)</p>
+<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 0.003 seconds)</p>
 <div class="sphx-glr-footer sphx-glr-footer-example docutils container" id="sphx-glr-download-auto-examples-plot-segment-sphinx-macaque-ants-based-py">
 <div class="sphx-glr-download sphx-glr-download-jupyter docutils container">
 <p><a class="reference download internal" download="" href="../_downloads/3b6f8c2caa57ff3deb043fa09bd4e4c8/plot_segment_sphinx_macaque_ants_based.ipynb"><code class="xref download docutils literal notranslate"><span class="pre">Download</span> <span class="pre">Jupyter</span> <span class="pre">notebook:</span> <span class="pre">plot_segment_sphinx_macaque_ants_based.ipynb</span></code></a></p>
@@ -246,7 +246,7 @@ <h2># Data preparation<a class="headerlink" href="#data-preparation" title="Link
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/auto_examples/sg_execution_times.html b/auto_examples/sg_execution_times.html
@@ -176,7 +176,7 @@
 
   <section id="computation-times">
 <span id="sphx-glr-auto-examples-sg-execution-times"></span><h1>Computation times<a class="headerlink" href="#computation-times" title="Link to this heading">¶</a></h1>
-<p><strong>00:00.002</strong> total execution time for 1 file <strong>from auto_examples</strong>:</p>
+<p><strong>00:00.003</strong> total execution time for 1 file <strong>from auto_examples</strong>:</p>
 <div class="docutils container">
 <style scoped>
 <link href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/5.3.0/css/bootstrap.min.css" rel="stylesheet" />
@@ -198,7 +198,7 @@
 </thead>
 <tbody>
 <tr class="row-even"><td><p><a class="reference internal" href="plot_segment_sphinx_macaque_ants_based.html#sphx-glr-auto-examples-plot-segment-sphinx-macaque-ants-based-py"><span class="std std-ref">Plot the results of a segmentation with ANTS-based pipeline in sphinx position</span></a> (<code class="docutils literal notranslate"><span class="pre">plot_segment_sphinx_macaque_ants_based.py</span></code>)</p></td>
-<td><p>00:00.002</p></td>
+<td><p>00:00.003</p></td>
 <td><p>0.0</p></td>
 </tr>
 </tbody>
@@ -218,7 +218,7 @@
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/command.html b/command.html
@@ -354,7 +354,7 @@ <h4>Command line examples<a class="headerlink" href="#command-line-examples" tit
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/docker_install.html b/docker_install.html
@@ -235,7 +235,7 @@ <h2>Note on Singularity<a class="headerlink" href="#note-on-singularity" title="
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/genindex.html b/genindex.html
@@ -188,7 +188,7 @@ <h1 id="index">Index</h1>
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/index.html b/index.html
@@ -239,7 +239,7 @@ <h2>Table of contents<a class="headerlink" href="#table-of-contents" title="Link
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/indiv_params.html b/indiv_params.html
@@ -354,7 +354,7 @@ <h2>Advanced parameters settings<a class="headerlink" href="#advanced-parameters
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/params.html b/params.html
@@ -340,15 +340,7 @@ <h2>Advanced parameters settings<a class="headerlink" href="#advanced-parameters
 
         &quot;crop_aladin_pipe&quot;:
         {
-            &quot;pre_crop_z_T1&quot;:
-            {
-
-                &quot;comment&quot;: &quot;OPTIONAL&quot;,
-                &quot;comment&quot;: &quot;use with caution&quot;,
-                &quot;params&quot;: &quot;RobustFOV (FSL)&quot;,
-
-                &quot;brainsize&quot;: &quot;70&quot;
-            },
+            &quot;remove_capsule_pipe&quot;:{},
             &quot;reg_T1_on_template&quot;:
             {
                 &quot;params&quot;: &quot;RegAladin (NiftyReg)&quot;
@@ -361,13 +353,6 @@ <h2>Advanced parameters settings<a class="headerlink" href="#advanced-parameters
 
                 &quot;params&quot;: &quot;RegAladin (NiftyReg)&quot;
 
-            },
-            &quot;crop_z_T1&quot;:
-            {
-                &quot;comment&quot;: &quot;OPTIONAL&quot;,
-                &quot;params&quot;: &quot;RobustFOV (FSL)&quot;,
-
-                &quot;brainsize&quot;: &quot;70&quot;
             }
         },
 
@@ -723,7 +708,7 @@ <h2>Advanced parameters settings<a class="headerlink" href="#advanced-parameters
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/quick_install.html b/quick_install.html
@@ -307,7 +307,7 @@ <h2>Testing the install<a class="headerlink" href="#testing-the-install" title="
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>

diff --git a/search.html b/search.html
@@ -210,7 +210,7 @@ <h1 id="search-documentation">Search</h1>
 
     </p>
     <p>
-        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+        &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
       Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
     </p>
   </div>
-Original file line number
+Diff line change
@@ Expand Up / @@ -204,7 +204,7 @@ @@
         </p>
         <p>
-            &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-09.<br/>
+            &copy; Copyright 2024, Macapype Developers (macatools). Last updated on 2024-12-12.<br/>
           Created using <a href="http://sphinx-doc.org/">Sphinx</a> 8.1.3.<br/>
         </p>
       </div>
@@ Expand Down @@