Makes the new subtitles subsubtitles

Author: miguelgondu

docs/poli-docs/_build/.doctrees/environment.pickle

@@ -130,7 +130,7 @@ LaMBO Fluorescence (RFP) by stability and solvent-accessible surface area.
 
 On top of `poli`, we provide `poli-baselines`, a collection of **black-box optimization algorithms** (focusing especially on *discrete* sequences). Examples include
 
-## Discrete
+### Discrete
 
 ::::{grid}
 :gutter: 3
@@ -143,7 +143,7 @@ Optimizing a discrete sequence by performing random mutations
 
 ::::
 
-## Continuous
+### Continuous
 
 ::::{grid}
 :gutter: 3

docs/poli-docs/_build/.doctrees/index.doctree

@@ -546,9 +546,11 @@ <h2> Contents </h2>
 <li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#proteins">Proteins</a></li>
 </ul>
 </li>
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#black-box-optimization-algorithms">Black-box optimization algorithms</a></li>
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#discrete">Discrete</a></li>
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#continuous">Continuous</a></li>
+<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#black-box-optimization-algorithms">Black-box optimization algorithms</a><ul class="nav section-nav flex-column">
+<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#discrete">Discrete</a></li>
+<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#continuous">Continuous</a></li>
+</ul>
+</li>
 <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#cite-us-and-other-relevant-work">Cite us and other relevant work</a></li>
 <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#contribute-problems-or-solvers">Contribute problems or solvers</a></li>
 </ul>
@@ -726,9 +728,8 @@ <h3>Proteins<a class="headerlink" href="#proteins" title="Permalink to this head
 <section id="black-box-optimization-algorithms">
 <h2>Black-box optimization algorithms<a class="headerlink" href="#black-box-optimization-algorithms" title="Permalink to this heading">#</a></h2>
 <p>On top of <code class="docutils literal notranslate"><span class="pre">poli</span></code>, we provide <code class="docutils literal notranslate"><span class="pre">poli-baselines</span></code>, a collection of <strong>black-box optimization algorithms</strong> (focusing especially on <em>discrete</em> sequences). Examples include</p>
-</section>
 <section id="discrete">
-<h2>Discrete<a class="headerlink" href="#discrete" title="Permalink to this heading">#</a></h2>
+<h3>Discrete<a class="headerlink" href="#discrete" title="Permalink to this heading">#</a></h3>
 <div class="sd-container-fluid sd-sphinx-override sd-mb-4 docutils">
 <div class="sd-row sd-g-3 sd-g-xs-3 sd-g-sm-3 sd-g-md-3 sd-g-lg-3 docutils">
 <div class="sd-col sd-d-flex-row sd-col-6 sd-col-xs-6 sd-col-sm-6 sd-col-md-6 sd-col-lg-6 docutils">
@@ -744,7 +745,7 @@ <h2>Discrete<a class="headerlink" href="#discrete" title="Permalink to this head
 </div>
 </section>
 <section id="continuous">
-<h2>Continuous<a class="headerlink" href="#continuous" title="Permalink to this heading">#</a></h2>
+<h3>Continuous<a class="headerlink" href="#continuous" title="Permalink to this heading">#</a></h3>
 <div class="sd-container-fluid sd-sphinx-override sd-mb-4 docutils">
 <div class="sd-row sd-g-3 sd-g-xs-3 sd-g-sm-3 sd-g-md-3 sd-g-lg-3 docutils">
 <div class="sd-col sd-d-flex-row sd-col-6 sd-col-xs-6 sd-col-sm-6 sd-col-md-6 sd-col-lg-6 docutils">
@@ -777,6 +778,7 @@ <h2>Continuous<a class="headerlink" href="#continuous" title="Permalink to this
 </div>
 </div>
 </section>
+</section>
 <section id="cite-us-and-other-relevant-work">
 <h2>Cite us and other relevant work<a class="headerlink" href="#cite-us-and-other-relevant-work" title="Permalink to this heading">#</a></h2>
 <p>If you use <code class="docutils literal notranslate"><span class="pre">poli</span></code>, we encourage you to cite us</p>
@@ -947,9 +949,11 @@ <h2>Contribute problems or solvers<a class="headerlink" href="#contribute-proble
 <li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#proteins">Proteins</a></li>
 </ul>
 </li>
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#black-box-optimization-algorithms">Black-box optimization algorithms</a></li>
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#discrete">Discrete</a></li>
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#continuous">Continuous</a></li>
+<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#black-box-optimization-algorithms">Black-box optimization algorithms</a><ul class="nav section-nav flex-column">
+<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#discrete">Discrete</a></li>
+<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#continuous">Continuous</a></li>
+</ul>
+</li>
 <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#cite-us-and-other-relevant-work">Cite us and other relevant work</a></li>
 <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#contribute-problems-or-solvers">Contribute problems or solvers</a></li>
 </ul>

docs/poli-docs/_build/.jupyter_cache/global.db

@@ -38,7 +38,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 1,
+   "execution_count": 3,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -48,34 +48,9 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 2,
+   "execution_count": 7,
    "metadata": {},
    "outputs": [
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "poli 🧪: creating environment poli__dockstring from dockstring/environment.yml\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "poli 🧪: creating environment poli__dockstring from dockstring/environment.yml\n",
-      "poli 🧪: running registration of dockstring from environment poli__dockstring\n"
-     ]
-    },
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "/Users/sjt972/Projects/poli/src/poli/core/registry.py:258: UserWarning: Environment poli__dockstring already exists. Will not create it.\n",
-      "  warnings.warn(f\"Environment {env_name} already exists. Will not create it.\")\n",
-      "/Users/sjt972/Projects/poli/src/poli/core/registry.py:269: UserWarning: Running the following command: conda run -n poli__dockstring python /Users/sjt972/Projects/poli/src/poli/objective_repository/dockstring/register.py. \n",
-      "  warnings.warn(\"Running the following command: %s. \" % command)\n"
-     ]
-    },
     {
      "name": "stdout",
      "output_type": "stream",
@@ -113,7 +88,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 3,
+   "execution_count": 8,
    "metadata": {},
    "outputs": [
     {
@@ -144,7 +119,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 10,
    "metadata": {},
    "outputs": [
     {
@@ -161,7 +136,7 @@
        "array([[11.9]])"
       ]
      },
-     "execution_count": 4,
+     "execution_count": 10,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -172,7 +147,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 5,
+   "execution_count": 11,
    "metadata": {},
    "outputs": [
     {
@@ -203,7 +178,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 6,
+   "execution_count": 12,
    "metadata": {},
    "outputs": [
     {
@@ -229,7 +204,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 7,
+   "execution_count": 13,
    "metadata": {},
    "outputs": [
     {

docs/poli-docs/_build/html/_sources/index.md

@@ -130,7 +130,7 @@ LaMBO Fluorescence (RFP) by stability and solvent-accessible surface area.
 
 On top of `poli`, we provide `poli-baselines`, a collection of **black-box optimization algorithms** (focusing especially on *discrete* sequences). Examples include
 
-## Discrete
+### Discrete
 
 ::::{grid}
 :gutter: 3
@@ -143,7 +143,7 @@ Optimizing a discrete sequence by performing random mutations
 
 ::::
 
-## Continuous
+### Continuous
 
 ::::{grid}
 :gutter: 3