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@jordibc
jordibc committed Nov 7, 2023
1 parent e1e3b30 commit f92d918
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385 changes: 194 additions & 191 deletions _modules/ete4/smartview/gui/server.html
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4 changes: 2 additions & 2 deletions _modules/ete4/smartview/renderer/faces.html
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Expand Up @@ -418,8 +418,8 @@ <h1>Source code for ete4.smartview.renderer.faces</h1><div class="highlight"><pr
<div class="viewcode-block" id="AttrFace.get_content">
<a class="viewcode-back" href="../../../../reference/reference_smartview.html#ete4.smartview.renderer.faces.AttrFace.get_content">[docs]</a>
<span class="k">def</span> <span class="nf">get_content</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
<span class="n">content</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">node</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_attr</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>\
<span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">node</span><span class="o">.</span><span class="n">props</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_attr</span><span class="p">))</span>
<span class="n">content</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">node</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_attr</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
<span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">node</span><span class="o">.</span><span class="n">props</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_attr</span><span class="p">))</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">formatter</span> <span class="o">%</span> <span class="n">content</span> <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">formatter</span> <span class="k">else</span> <span class="n">content</span>
<span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_content</span></div>
</div>
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2 changes: 0 additions & 2 deletions _modules/ete4/smartview/renderer/treestyle.html
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Expand Up @@ -50,8 +50,6 @@ <h1>Source code for ete4.smartview.renderer.treestyle</h1><div class="highlight"
<span class="bp">self</span><span class="o">.</span><span class="n">aligned_grid</span> <span class="o">=</span> <span class="kc">True</span>
<span class="bp">self</span><span class="o">.</span><span class="n">aligned_grid_dxs</span> <span class="o">=</span> <span class="n">defaultdict</span><span class="p">(</span><span class="k">lambda</span><span class="p">:</span> <span class="mi">0</span><span class="p">)</span>

<span class="bp">self</span><span class="o">.</span><span class="n">ultrametric</span> <span class="o">=</span> <span class="kc">False</span>

<span class="bp">self</span><span class="o">.</span><span class="n">collapse_size</span> <span class="o">=</span> <span class="mi">10</span>

<span class="c1"># Selected face</span>
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50 changes: 26 additions & 24 deletions genindex.html
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Expand Up @@ -69,8 +69,6 @@ <h2 id="_">_</h2>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.faces.AlignLinkFace.__init__">(AlignLinkFace method)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.faces.AlignmentFace.__init__">(AlignmentFace method)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.__init__">(AppTree method)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.faces.ArrowFace.__init__">(ArrowFace method)</a>
</li>
Expand Down Expand Up @@ -191,6 +189,8 @@ <h2 id="_">_</h2>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.faces.TextFace.__init__">(TextFace method)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.__init__">(Tree method)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.__init__">(TreeData method)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.treelayout.TreeLayout.__init__">(TreeLayout method)</a>
</li>
Expand All @@ -206,10 +206,10 @@ <h2 id="A">A</h2>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.activate_clade">activate_clade() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.activate_node">activate_node() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.active">active (AppTree attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.drawer.Active">Active (class in ete4.smartview.renderer.drawer)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.active">active (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.treestyle.TreeStyle.active_face">active_face (TreeStyle property)</a>
</li>
Expand Down Expand Up @@ -238,11 +238,11 @@ <h2 id="A">A</h2>
<li><a href="reference/reference_operations.html#ete4.core.operations.Walker.add_next_branch">add_next_branch() (Walker method)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.add_prop">add_prop() (Tree method)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.add_props">add_props() (Tree method)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="reference/reference_tree.html#ete4.Tree.add_props">add_props() (Tree method)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.add_sister">add_sister() (Tree method)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.add_tree">add_tree() (in module ete4.smartview.gui.server)</a>
Expand Down Expand Up @@ -272,8 +272,6 @@ <h2 id="A">A</h2>
</li>
</ul></li>
<li><a href="reference/reference_parsers.html#ete4.parser.nexus.apply_translations">apply_translations() (in module ete4.parser.nexus)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree">AppTree (class in ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.faces.ArrowFace">ArrowFace (class in ete4.smartview.renderer.faces)</a>
</li>
Expand Down Expand Up @@ -746,7 +744,7 @@ <h2 id="E">E</h2>
</ul></li>
<li><a href="reference/reference_phylo.html#ete4.phylo.EvolEvent">EvolEvent (class in ete4.phylo)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.exclude_props">exclude_props (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.exclude_props">exclude_props (TreeData attribute)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.expand_polytomies">expand_polytomies() (Tree method)</a>
</li>
Expand Down Expand Up @@ -1064,7 +1062,7 @@ <h2 id="I">I</h2>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.drawer.DrawerRect.in_viewport">(DrawerRect method)</a>
</li>
</ul></li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.include_props">include_props (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.include_props">include_props (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.nodestyle.NodeStyle.init">init() (NodeStyle method)</a>
</li>
Expand All @@ -1076,7 +1074,7 @@ <h2 id="I">I</h2>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.initialize_tree_style">initialize_tree_style() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.initialized">initialized (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.initialized">initialized (TreeData attribute)</a>
</li>
<li><a href="reference/reference_operations.html#ete4.core.operations.insert_intermediate">insert_intermediate() (in module ete4.core.operations)</a>
</li>
Expand Down Expand Up @@ -1208,7 +1206,7 @@ <h2 id="L">L</h2>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.layouts.eggnog6_layouts.LayoutProteinName">LayoutProteinName (class in ete4.smartview.renderer.layouts.eggnog6_layouts)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.layouts">layouts (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.layouts">layouts (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.layouts.eggnog6_layouts.LayoutScientificName">LayoutScientificName (class in ete4.smartview.renderer.layouts.eggnog6_layouts)</a>
</li>
Expand Down Expand Up @@ -1347,10 +1345,10 @@ <h2 id="M">M</h2>
<h2 id="N">N</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.name">name (AppTree attribute)</a>
<li><a href="reference/reference_tree.html#ete4.Tree.name">name (Tree attribute)</a>

<ul>
<li><a href="reference/reference_tree.html#ete4.Tree.name">(Tree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.name">(TreeData attribute)</a>
</li>
</ul></li>
<li><a href="reference/reference_phylo.html#ete4.PhyloTree.ncbi_compare">ncbi_compare() (PhyloTree method)</a>
Expand Down Expand Up @@ -1379,7 +1377,7 @@ <h2 id="N">N</h2>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.nodestyle.NodeStyle">NodeStyle (class in ete4.smartview.renderer.nodestyle)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.nodestyles">nodestyles (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.nodestyles">nodestyles (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.drawer.Drawer.NPANELS">NPANELS (Drawer attribute)</a>

Expand Down Expand Up @@ -1529,9 +1527,9 @@ <h2 id="S">S</h2>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.search_to_selection">search_to_selection() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.searches">searches (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.searches">searches (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.selected">selected (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.selected">selected (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.treestyle.TreeStyle.selected_face">selected_face (TreeStyle property)</a>
</li>
Expand Down Expand Up @@ -1657,7 +1655,7 @@ <h2 id="S">S</h2>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.store_selection">store_selection() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.style">style (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.style">style (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.draw_helpers.summary">summary() (in module ete4.smartview.renderer.draw_helpers)</a>
</li>
Expand All @@ -1675,7 +1673,7 @@ <h2 id="T">T</h2>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.faces.TextFace">TextFace (class in ete4.smartview.renderer.faces)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.timer">timer (AppTree attribute)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.timer">timer (TreeData attribute)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.to_str">to_str() (Tree method)</a>
</li>
Expand All @@ -1694,14 +1692,16 @@ <h2 id="T">T</h2>
</li>
</ul></li>
<li><a href="reference/reference_tree.html#ete4.Tree.traverse">traverse() (Tree method)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree">Tree (class in ete4)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.AppTree.tree">tree (AppTree attribute)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree">Tree (class in ete4)</a>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.tree">tree (TreeData attribute)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.drawer.TreeActive">TreeActive (class in ete4.smartview.renderer.drawer)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData">TreeData (class in ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.renderer.treelayout.TreeLayout">TreeLayout (class in ete4.smartview.renderer.treelayout)</a>
</li>
Expand All @@ -1728,6 +1728,8 @@ <h2 id="T">T</h2>
<h2 id="U">U</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.TreeData.ultrametric">ultrametric (TreeData attribute)</a>
</li>
<li><a href="reference/reference_parsers.html#ete4.parser.newick.unquote">unquote() (in module ete4.parser.newick)</a>
</li>
<li><a href="reference/reference_tree.html#ete4.Tree.unroot">unroot() (Tree method)</a>
Expand All @@ -1739,11 +1741,11 @@ <h2 id="U">U</h2>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.update_app_available_layouts">update_app_available_layouts() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.update_layouts">update_layouts() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.update_node_props">update_node_props() (in module ete4.smartview.gui.server)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.update_node_props">update_node_props() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.update_node_style">update_node_style() (in module ete4.smartview.gui.server)</a>
</li>
<li><a href="reference/reference_smartview.html#ete4.smartview.gui.server.update_selection">update_selection() (in module ete4.smartview.gui.server)</a>
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