From 922c96dbd9685c6f9a5b76cea6bb0176016693d7 Mon Sep 17 00:00:00 2001
From: davidmeunier79 <david_meunier_79@hotmail.fr>
Date: Thu, 12 Dec 2024 10:31:00 +0000
Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20Macatool?=
 =?UTF-8?q?s/macapype@e58ce8184a39ac5bab3f2a964c232c7c9736d749=20?=
 =?UTF-8?q?=F0=9F=9A=80?=
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

---
 .buildinfo                                    |   2 +-
 .../auto_examples_python.zip                  | Bin 1613 -> 1613 bytes
 .../auto_examples_jupyter.zip                 | Bin 2508 -> 2508 bytes
 ...plot_segment_sphinx_macaque_ants_based.zip | Bin 4099 -> 4099 bytes
 ..._segment_sphinx_macaque_ants_based.rst.txt |   2 +-
 .../auto_examples/sg_execution_times.rst.txt  |   4 ++--
 _sources/sg_execution_times.rst.txt           |   4 ++--
 auto_examples/index.html                      |   2 +-
 ...lot_segment_sphinx_macaque_ants_based.html |   4 ++--
 auto_examples/sg_execution_times.html         |   6 +++---
 command.html                                  |   2 +-
 docker_install.html                           |   2 +-
 genindex.html                                 |   2 +-
 index.html                                    |   2 +-
 indiv_params.html                             |   2 +-
 params.html                                   |  19 ++----------------
 quick_install.html                            |   2 +-
 search.html                                   |   2 +-
 searchindex.js                                |   2 +-
 sg_execution_times.html                       |   6 +++---
 20 files changed, 25 insertions(+), 40 deletions(-)

diff --git a/.buildinfo b/.buildinfo
index d7b9d4696..8e2f9a9a8 100644
--- 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
index 18f4612e556189029da13d19fb7b3b89201c894c..64d49254b39ab0c916b339d5f899194952dcbc1c 100644
GIT binary patch
delta 30
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delta 30
icmX@hbC!oUz?+#xgaHIjHFs|0z0b-Fq$j^;jROFHED5Xt

diff --git a/_downloads/6f1e7a639e0699d6164445b55e6c116d/auto_examples_jupyter.zip b/_downloads/6f1e7a639e0699d6164445b55e6c116d/auto_examples_jupyter.zip
index 14d4b5d009e3a88a279721def4372c18f48bdb66..cb200ea9e5f0f603c1f21bdd349aafd942843941 100644
GIT binary patch
delta 30
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delta 30
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diff --git a/_downloads/ee07afbe2c91f0228fd25f815bb8b5f8/plot_segment_sphinx_macaque_ants_based.zip b/_downloads/ee07afbe2c91f0228fd25f815bb8b5f8/plot_segment_sphinx_macaque_ants_based.zip
index 6fbdca10b518c4ac0255b88937a05d540d097d08..07c08cead1634c30a26bbbf35f1dd5cf524ba491 100644
GIT binary patch
delta 47
tcmZoxXjb42@MdNaVE}=<!95#!@3Jxj>CJChqd7s0$=>`SV0saMA^=2E50U@?

delta 47
tcmZoxXjb42@MdNaVE}<s&7B*0@3Jxj>CJChqd7s0$=>`SV0saMA^=O45BdNA

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
index 08920cf2d..a3bd36f17 100644
--- 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
index 16f07e593..a33a8c4c0 100644
--- 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
index c440ff55b..86e83d6a8 100644
--- 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
index 6e0078de1..6bc2a4f94 100644
--- 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
index f0e2fc407..d5df737ef 100644
--- 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
index 87f893a71..4c211ac67 100644
--- 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
index c922861ab..4ad348adb 100644
--- 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
index 65f62c9fd..a1562fc8b 100644
--- 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
index 57fca46f9..9adde93b9 100644
--- 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
index 4f7b8478e..4b5eacf02 100644
--- 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
index 5ec60247e..2533b7a6e 100644
--- 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
index b7a567605..8ffc0a256 100644
--- 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
index b11f58b00..78d0d46bd 100644
--- 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
index e270d3636..808b9ee09 100644
--- 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>
diff --git a/searchindex.js b/searchindex.js
index f0be1973d..ea7fe1134 100644
--- a/searchindex.js
+++ b/searchindex.js
@@ -1 +1 @@
-Search.setIndex({"alltitles": {"# Data preparation": [[1, "data-preparation"]], "Adding -indiv": [[6, "adding-indiv"]], "Adding -params": [[7, "adding-params"]], "Advanced parameters settings": [[6, "advanced-parameters-settings"], [7, "advanced-parameters-settings"]], "Command line examples": [[3, "command-line-examples"]], "Command line parameters": [[3, "command-line-parameters"], [5, "command-line-parameters"]], "Commands": [[3, "commands"]], "Computation times": [[2, null], [9, null]], "Container install": [[4, null]], "Creating environment with all packages": [[8, "creating-environment-with-all-packages"]], "Dependancies": [[8, "dependancies"]], "Docker image": [[4, "docker-image"]], "Dockerfile": [[4, "dockerfile"]], "Examples Gallery": [[0, null]], "Expected input data": [[3, "expected-input-data"]], "External software dependancies": [[8, "external-software-dependancies"]], "From conda": [[8, "from-conda"]], "Individual Parameters": [[6, null]], "Install macapype package": [[8, "install-macapype-package"]], "Installation": [[5, "installation"], [8, null]], "Launching a processing": [[3, null]], "Macapype": [[5, null]], "Note on Singularity": [[4, "note-on-singularity"]], "Parameters": [[7, null]], "Plot the results of a segmentation with ANTS-based pipeline in sphinx position": [[1, null]], "Python packages dependancies": [[8, "python-packages-dependancies"]], "Table of contents": [[5, "table-of-contents"]], "Testing plot in local": [[1, "testing-plot-in-local"]], "Testing the install": [[8, "testing-the-install"]], "The following parameters are exclusive": [[3, "the-following-parameters-are-exclusive"]], "The following parameters are mandatory": [[3, "the-following-parameters-are-mandatory"]], "The following parameters are optional": [[3, "the-following-parameters-are-optional"], [3, "id1"]], "Using git": [[8, "using-git"]], "Using pip": [[8, "using-pip"]], "from github": [[8, "from-github"]], "from pypi": [[8, "from-pypi"]]}, "docnames": 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\ No newline at end of file
diff --git a/sg_execution_times.html b/sg_execution_times.html
index cdc1bc285..148588372 100644
--- a/sg_execution_times.html
+++ b/sg_execution_times.html
@@ -176,7 +176,7 @@
       
   <section id="computation-times">
 <span id="sphx-glr-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 all galleries</strong>:</p>
+<p><strong>00:00.003</strong> total execution time for 1 file <strong>from all galleries</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="auto_examples/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">../examples_doc/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>