diff --git a/_images/kqcircuits.util.replace_squids.png b/_images/kqcircuits.util.defaults_helper.png
similarity index 100%
rename from _images/kqcircuits.util.replace_squids.png
rename to _images/kqcircuits.util.defaults_helper.png
diff --git a/_images/kqcircuits.util.replace_junctions.png b/_images/kqcircuits.util.replace_junctions.png
new file mode 100644
index 000000000..3411463cc
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diff --git a/_modules/index.html b/_modules/index.html
index 01adbfd75..fd8786b8c 100644
--- a/_modules/index.html
+++ b/_modules/index.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -559,6 +560,7 @@ <h1>All modules for which code is available</h1>
 <li><a href="kqcircuits/util/count_instances.html">kqcircuits.util.count_instances</a></li>
 <li><a href="kqcircuits/util/coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li><a href="kqcircuits/util/deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li><a href="kqcircuits/util/defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li><a href="kqcircuits/util/dependencies.html">kqcircuits.util.dependencies</a></li>
 <li><a href="kqcircuits/util/edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li><a href="kqcircuits/util/export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -577,7 +579,7 @@ <h1>All modules for which code is available</h1>
 <li><a href="kqcircuits/util/parameters.html">kqcircuits.util.parameters</a></li>
 <li><a href="kqcircuits/util/plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li><a href="kqcircuits/util/refpoints.html">kqcircuits.util.refpoints</a></li>
-<li><a href="kqcircuits/util/replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li><a href="kqcircuits/util/replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li><a href="kqcircuits/util/symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 </ul>
 
diff --git a/_modules/kqcircuits/chips/airbridge_crossings.html b/_modules/kqcircuits/chips/airbridge_crossings.html
index 23109fd3a..2badf1da1 100644
--- a/_modules/kqcircuits/chips/airbridge_crossings.html
+++ b/_modules/kqcircuits/chips/airbridge_crossings.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/airbridge_dc_test.html b/_modules/kqcircuits/chips/airbridge_dc_test.html
index da0ce09c7..5126431b5 100644
--- a/_modules/kqcircuits/chips/airbridge_dc_test.html
+++ b/_modules/kqcircuits/chips/airbridge_dc_test.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/chip.html b/_modules/kqcircuits/chips/chip.html
index e030ab0c7..d17ad5a65 100644
--- a/_modules/kqcircuits/chips/chip.html
+++ b/_modules/kqcircuits/chips/chip.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/crossing_twoface.html b/_modules/kqcircuits/chips/crossing_twoface.html
index 34ae5bfa7..c606535aa 100644
--- a/_modules/kqcircuits/chips/crossing_twoface.html
+++ b/_modules/kqcircuits/chips/crossing_twoface.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/daisy_woven.html b/_modules/kqcircuits/chips/daisy_woven.html
index 19281b082..a0f20b184 100644
--- a/_modules/kqcircuits/chips/daisy_woven.html
+++ b/_modules/kqcircuits/chips/daisy_woven.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/dc_test.html b/_modules/kqcircuits/chips/dc_test.html
index ac47659ce..d9db57a1c 100644
--- a/_modules/kqcircuits/chips/dc_test.html
+++ b/_modules/kqcircuits/chips/dc_test.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/demo.html b/_modules/kqcircuits/chips/demo.html
index 9c3c63209..217a4532e 100644
--- a/_modules/kqcircuits/chips/demo.html
+++ b/_modules/kqcircuits/chips/demo.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/demo_twoface.html b/_modules/kqcircuits/chips/demo_twoface.html
index 4cdcf5b1e..2583a8a86 100644
--- a/_modules/kqcircuits/chips/demo_twoface.html
+++ b/_modules/kqcircuits/chips/demo_twoface.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/empty.html b/_modules/kqcircuits/chips/empty.html
index 94456db51..762ef04a1 100644
--- a/_modules/kqcircuits/chips/empty.html
+++ b/_modules/kqcircuits/chips/empty.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/junction_test.html b/_modules/kqcircuits/chips/junction_test.html
index 869413d25..76d6b2384 100644
--- a/_modules/kqcircuits/chips/junction_test.html
+++ b/_modules/kqcircuits/chips/junction_test.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/junction_test2.html b/_modules/kqcircuits/chips/junction_test2.html
index ced972204..be33428fe 100644
--- a/_modules/kqcircuits/chips/junction_test2.html
+++ b/_modules/kqcircuits/chips/junction_test2.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/launchers.html b/_modules/kqcircuits/chips/launchers.html
index eaf03d088..b072ca6c6 100644
--- a/_modules/kqcircuits/chips/launchers.html
+++ b/_modules/kqcircuits/chips/launchers.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/lithography_test.html b/_modules/kqcircuits/chips/lithography_test.html
index 6884d94fc..0705874d9 100644
--- a/_modules/kqcircuits/chips/lithography_test.html
+++ b/_modules/kqcircuits/chips/lithography_test.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/lithography_test_twoface.html b/_modules/kqcircuits/chips/lithography_test_twoface.html
index 7ad1fc282..38f813d09 100644
--- a/_modules/kqcircuits/chips/lithography_test_twoface.html
+++ b/_modules/kqcircuits/chips/lithography_test_twoface.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/quality_factor.html b/_modules/kqcircuits/chips/quality_factor.html
index ef1e76216..486a65967 100644
--- a/_modules/kqcircuits/chips/quality_factor.html
+++ b/_modules/kqcircuits/chips/quality_factor.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/quality_factor_twoface.html b/_modules/kqcircuits/chips/quality_factor_twoface.html
index a55b7e09d..f29a0445f 100644
--- a/_modules/kqcircuits/chips/quality_factor_twoface.html
+++ b/_modules/kqcircuits/chips/quality_factor_twoface.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/sample_holder_test.html b/_modules/kqcircuits/chips/sample_holder_test.html
index 024f8d88c..5b8cbf416 100644
--- a/_modules/kqcircuits/chips/sample_holder_test.html
+++ b/_modules/kqcircuits/chips/sample_holder_test.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/chips/shaping.html b/_modules/kqcircuits/chips/shaping.html
index 378d76b0d..1fe1e962a 100644
--- a/_modules/kqcircuits/chips/shaping.html
+++ b/_modules/kqcircuits/chips/shaping.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/chips/simple.html b/_modules/kqcircuits/chips/simple.html
index b785bd55b..fc6f402a6 100644
--- a/_modules/kqcircuits/chips/simple.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/chips/single_xmons.html b/_modules/kqcircuits/chips/single_xmons.html
index c85e0b583..39929c225 100644
--- a/_modules/kqcircuits/chips/single_xmons.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/chips/stripes.html b/_modules/kqcircuits/chips/stripes.html
index 8b4c86c73..51a8ad353 100644
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/chips/tsv_test.html b/_modules/kqcircuits/chips/tsv_test.html
index f52ac584f..79c3cd9c3 100644
--- a/_modules/kqcircuits/chips/tsv_test.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/chips/xmons_direct_coupling.html b/_modules/kqcircuits/chips/xmons_direct_coupling.html
index 792164e11..1d62680fb 100644
--- a/_modules/kqcircuits/chips/xmons_direct_coupling.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/elements/airbridge_connection.html b/_modules/kqcircuits/elements/airbridge_connection.html
index 201c56a35..ade62cae7 100644
--- a/_modules/kqcircuits/elements/airbridge_connection.html
+++ b/_modules/kqcircuits/elements/airbridge_connection.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/elements/airbridges/airbridge.html b/_modules/kqcircuits/elements/airbridges/airbridge.html
index d18ed07a8..412779c5a 100644
--- a/_modules/kqcircuits/elements/airbridges/airbridge.html
+++ b/_modules/kqcircuits/elements/airbridges/airbridge.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/elements/airbridges/airbridge_multi_face.html b/_modules/kqcircuits/elements/airbridges/airbridge_multi_face.html
index e7abc0bdf..df42c6a04 100644
--- a/_modules/kqcircuits/elements/airbridges/airbridge_multi_face.html
+++ b/_modules/kqcircuits/elements/airbridges/airbridge_multi_face.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/elements/airbridges/airbridge_rectangular.html b/_modules/kqcircuits/elements/airbridges/airbridge_rectangular.html
index a95fa6b3d..9f3364a40 100644
--- a/_modules/kqcircuits/elements/airbridges/airbridge_rectangular.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
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diff --git a/_modules/kqcircuits/elements/capacitive_x_coupler.html b/_modules/kqcircuits/elements/capacitive_x_coupler.html
index 0c2424f87..1adb327dc 100644
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/_modules/kqcircuits/elements/chip_frame.html b/_modules/kqcircuits/elements/chip_frame.html
index ef167c99e..ce64c6b33 100644
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/_modules/kqcircuits/elements/circular_capacitor.html b/_modules/kqcircuits/elements/circular_capacitor.html
index 1a73cb58f..783581fdf 100644
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+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/_modules/kqcircuits/elements/element.html b/_modules/kqcircuits/elements/element.html
index 8ef3762d5..76cc91c1a 100644
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/_modules/kqcircuits/elements/finger_capacitor_square.html b/_modules/kqcircuits/elements/finger_capacitor_square.html
index 70e14372a..78ea0d9a5 100644
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
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diff --git a/_modules/kqcircuits/elements/finger_capacitor_taper.html b/_modules/kqcircuits/elements/finger_capacitor_taper.html
index 88d7901b3..d9cb1cf2c 100644
--- a/_modules/kqcircuits/elements/finger_capacitor_taper.html
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector.html b/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector.html
index e078c6f33..20086b276 100644
--- a/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_dc.html b/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_dc.html
index 94aebb0c8..0a5254c5f 100644
--- a/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_dc.html
+++ b/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_dc.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_rf.html b/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_rf.html
index a12ee24d2..b1de3ecda 100644
--- a/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_rf.html
+++ b/_modules/kqcircuits/elements/flip_chip_connectors/flip_chip_connector_rf.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -569,10 +570,40 @@ <h1>Source code for kqcircuits.elements.flip_chip_connectors.flip_chip_connector
             <span class="bp">self</span><span class="o">.</span><span class="n">insert_cell</span><span class="p">(</span><span class="n">Launcher</span><span class="p">,</span> <span class="n">trans</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">s</span><span class="o">=</span><span class="n">s</span><span class="p">,</span> <span class="n">l</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">ubm_diameter</span><span class="p">,</span>
                              <span class="n">a_launcher</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_a</span><span class="p">,</span> <span class="n">b_launcher</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_b</span><span class="p">,</span>
                              <span class="n">launcher_frame_gap</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_b</span><span class="p">)</span>
+
+            <span class="c1"># If there are many center bumps and output direction is not colinear with the input direction than a simple</span>
+            <span class="c1"># Launcher won&#39;t do. For arbitrary angles we use two Launcher objects one to cover the parallel part, like</span>
+            <span class="c1"># in the colinear case, but without the tapering part and we add a second short Launcher rotated to the</span>
+            <span class="c1"># right output direction. Additionally, we use the metal addition layer to get rid of the parts where one</span>
+            <span class="c1"># Launcher&#39;s gap overlaps with the others center conductor.</span>
+            <span class="n">add_metal</span> <span class="o">=</span> <span class="kc">False</span>
+            <span class="k">if</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">output_rotation</span><span class="p">)</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">180</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">n_center_bumps</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+                <span class="n">ubm</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">ubm_diameter</span>
+                <span class="n">ibm</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">inter_bump_distance</span>
+                <span class="n">l</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">n_center_bumps</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">ibm</span> <span class="o">/</span> <span class="mi">2</span>
+                <span class="n">pts</span> <span class="o">=</span> <span class="p">[</span>
+                    <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="n">l</span> <span class="o">-</span> <span class="n">ibm</span><span class="p">,</span> <span class="n">ubm</span> <span class="o">/</span> <span class="mi">2</span><span class="p">),</span>
+                    <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="n">l</span><span class="p">,</span> <span class="n">ubm</span> <span class="o">/</span> <span class="mi">2</span><span class="p">),</span>
+                    <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="n">l</span><span class="p">,</span> <span class="o">-</span><span class="n">ubm</span> <span class="o">/</span> <span class="mi">2</span><span class="p">),</span>
+                    <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="n">l</span> <span class="o">-</span> <span class="n">ibm</span><span class="p">,</span> <span class="o">-</span><span class="n">ubm</span> <span class="o">/</span> <span class="mi">2</span><span class="p">),</span>
+                <span class="p">]</span>
+                <span class="bp">self</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">shapes</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">get_layer</span><span class="p">(</span><span class="s2">&quot;base_metal_addition&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DPolygon</span><span class="p">(</span><span class="n">pts</span><span class="p">))</span>
+
+                <span class="n">lc</span> <span class="o">=</span> <span class="n">ubm</span> <span class="o">*</span> <span class="mf">1.5</span>
+                <span class="n">ts</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">DCplxTrans</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">180</span><span class="p">,</span> <span class="kc">False</span><span class="p">,</span> <span class="o">-</span><span class="n">lc</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">insert_cell</span><span class="p">(</span><span class="n">Launcher</span><span class="p">,</span> <span class="n">ts</span> <span class="o">*</span> <span class="n">trans</span><span class="p">,</span> <span class="kc">None</span><span class="p">,</span> <span class="n">s</span><span class="o">=</span><span class="n">s</span><span class="o">-</span><span class="n">lc</span><span class="p">,</span> <span class="n">l</span><span class="o">=</span><span class="n">ubm</span><span class="p">,</span> <span class="n">a_launcher</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_a</span><span class="p">,</span>
+                                 <span class="n">b_launcher</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_b</span><span class="p">,</span> <span class="n">launcher_frame_gap</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_b</span><span class="p">,</span>
+                                 <span class="n">face_ids</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="n">a</span><span class="o">=</span><span class="n">ubm</span><span class="p">,</span> <span class="n">b</span><span class="o">=</span><span class="n">ubm</span><span class="p">)</span>
+                <span class="n">s</span> <span class="o">=</span> <span class="n">ubm</span>
+                <span class="n">trans</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">DCplxTrans</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="kc">False</span><span class="p">,</span> <span class="n">bump_ref</span><span class="p">[</span><span class="s2">&quot;base&quot;</span><span class="p">]</span> <span class="o">+</span> <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="o">-</span><span class="n">ubm</span> <span class="o">-</span> <span class="n">s</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">0</span><span class="p">))</span>
+                <span class="n">tt</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">DCplxTrans</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">output_rotation</span><span class="p">,</span> <span class="kc">False</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">n_center_bumps</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">ibm</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+                <span class="n">add_metal</span> <span class="o">=</span> <span class="kc">True</span>
+
             <span class="bp">self</span><span class="o">.</span><span class="n">insert_cell</span><span class="p">(</span><span class="n">Launcher</span><span class="p">,</span> <span class="n">tt</span> <span class="o">*</span> <span class="n">trans</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="n">s</span><span class="o">=</span><span class="n">s</span><span class="p">,</span> <span class="n">l</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">ubm_diameter</span><span class="p">,</span>
                              <span class="n">a_launcher</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_a</span><span class="p">,</span> <span class="n">b_launcher</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_b</span><span class="p">,</span>
                              <span class="n">launcher_frame_gap</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">connector_b</span><span class="p">,</span> <span class="n">face_ids</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">face_ids</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span>
-                             <span class="n">a</span><span class="o">=</span><span class="n">a2</span><span class="p">,</span> <span class="n">b</span><span class="o">=</span><span class="n">b2</span><span class="p">)</span>
+                             <span class="n">a</span><span class="o">=</span><span class="n">a2</span><span class="p">,</span> <span class="n">b</span><span class="o">=</span><span class="n">b2</span><span class="p">,</span> <span class="n">add_metal</span><span class="o">=</span><span class="n">add_metal</span><span class="p">)</span>
+
 
         <span class="c1"># Insert ground bumps</span>
         <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">connector_type</span> <span class="o">==</span> <span class="s2">&quot;GSG&quot;</span><span class="p">:</span>
diff --git a/_modules/kqcircuits/elements/fluxlines/fluxline.html b/_modules/kqcircuits/elements/fluxlines/fluxline.html
index 299906a9b..d59a7c321 100644
--- a/_modules/kqcircuits/elements/fluxlines/fluxline.html
+++ b/_modules/kqcircuits/elements/fluxlines/fluxline.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/fluxlines/fluxline_standard.html b/_modules/kqcircuits/elements/fluxlines/fluxline_standard.html
index 8d0742aca..5ddd5328d 100644
--- a/_modules/kqcircuits/elements/fluxlines/fluxline_standard.html
+++ b/_modules/kqcircuits/elements/fluxlines/fluxline_standard.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/fluxlines/fluxline_straight.html b/_modules/kqcircuits/elements/fluxlines/fluxline_straight.html
index f9b616296..b2814a546 100644
--- a/_modules/kqcircuits/elements/fluxlines/fluxline_straight.html
+++ b/_modules/kqcircuits/elements/fluxlines/fluxline_straight.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/hanger_resonator.html b/_modules/kqcircuits/elements/hanger_resonator.html
index e446b9be2..fdb60f287 100644
--- a/_modules/kqcircuits/elements/hanger_resonator.html
+++ b/_modules/kqcircuits/elements/hanger_resonator.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/launcher.html b/_modules/kqcircuits/elements/launcher.html
index 1a91dff93..d8dbe2a45 100644
--- a/_modules/kqcircuits/elements/launcher.html
+++ b/_modules/kqcircuits/elements/launcher.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -471,10 +472,12 @@ <h1>Source code for kqcircuits.elements.launcher</h1><div class="highlight"><pre
 
 <span class="kn">from</span> <span class="nn">kqcircuits.elements.element</span> <span class="kn">import</span> <span class="n">Element</span>
 <span class="kn">from</span> <span class="nn">kqcircuits.pya_resolver</span> <span class="kn">import</span> <span class="n">pya</span>
-<span class="kn">from</span> <span class="nn">kqcircuits.util.parameters</span> <span class="kn">import</span> <span class="n">Param</span><span class="p">,</span> <span class="n">pdt</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.util.parameters</span> <span class="kn">import</span> <span class="n">Param</span><span class="p">,</span> <span class="n">pdt</span><span class="p">,</span> <span class="n">add_parameters_from</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.elements.waveguide_coplanar</span> <span class="kn">import</span> <span class="n">WaveguideCoplanar</span>
 
 
-<div class="viewcode-block" id="Launcher"><a class="viewcode-back" href="../../../api/kqcircuits.elements.launcher.html#kqcircuits.elements.launcher.Launcher">[docs]</a><span class="k">class</span> <span class="nc">Launcher</span><span class="p">(</span><span class="n">Element</span><span class="p">):</span>
+<div class="viewcode-block" id="Launcher"><a class="viewcode-back" href="../../../api/kqcircuits.elements.launcher.html#kqcircuits.elements.launcher.Launcher">[docs]</a><span class="nd">@add_parameters_from</span><span class="p">(</span><span class="n">WaveguideCoplanar</span><span class="p">,</span> <span class="s2">&quot;add_metal&quot;</span><span class="p">)</span>
+<span class="k">class</span> <span class="nc">Launcher</span><span class="p">(</span><span class="n">Element</span><span class="p">):</span>
 <span class="w">    </span><span class="sd">&quot;&quot;&quot;The PCell declaration for a launcher for connecting wirebonds.</span>
 
 <span class="sd">    Default wirebond direction to west, waveguide to east. Uses default ratio ``a`` and ``b`` for</span>
@@ -503,6 +506,8 @@ <h1>Source code for kqcircuits.elements.launcher</h1><div class="highlight"><pre
             <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">l</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">a_launcher</span> <span class="o">/</span> <span class="mi">2</span><span class="p">),</span>
             <span class="n">pya</span><span class="o">.</span><span class="n">DPoint</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">a</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">+</span> <span class="mi">0</span><span class="p">)</span>
         <span class="p">]</span>
+        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">add_metal</span><span class="p">:</span>
+            <span class="bp">self</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">shapes</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">get_layer</span><span class="p">(</span><span class="s2">&quot;base_metal_addition&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DPolygon</span><span class="p">(</span><span class="n">pts</span><span class="p">))</span>
 
         <span class="n">shifts</span> <span class="o">=</span> <span class="p">[</span>
             <span class="n">pya</span><span class="o">.</span><span class="n">DVector</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">b</span><span class="p">),</span>
diff --git a/_modules/kqcircuits/elements/launcher_dc.html b/_modules/kqcircuits/elements/launcher_dc.html
index 6c173803b..956bbcdb1 100644
--- a/_modules/kqcircuits/elements/launcher_dc.html
+++ b/_modules/kqcircuits/elements/launcher_dc.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/markers/marker.html b/_modules/kqcircuits/elements/markers/marker.html
index 90cee4deb..6137e9bcc 100644
--- a/_modules/kqcircuits/elements/markers/marker.html
+++ b/_modules/kqcircuits/elements/markers/marker.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/markers/marker_standard.html b/_modules/kqcircuits/elements/markers/marker_standard.html
index da6a25432..ec5ae27be 100644
--- a/_modules/kqcircuits/elements/markers/marker_standard.html
+++ b/_modules/kqcircuits/elements/markers/marker_standard.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/markers/mask_marker_fc.html b/_modules/kqcircuits/elements/markers/mask_marker_fc.html
index d58cfe9d3..7e18aa55f 100644
--- a/_modules/kqcircuits/elements/markers/mask_marker_fc.html
+++ b/_modules/kqcircuits/elements/markers/mask_marker_fc.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/meander.html b/_modules/kqcircuits/elements/meander.html
index eef80e51d..f9c37926b 100644
--- a/_modules/kqcircuits/elements/meander.html
+++ b/_modules/kqcircuits/elements/meander.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/smooth_capacitor.html b/_modules/kqcircuits/elements/smooth_capacitor.html
index 9d39c86d5..80c049954 100644
--- a/_modules/kqcircuits/elements/smooth_capacitor.html
+++ b/_modules/kqcircuits/elements/smooth_capacitor.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/spiral_resonator_polygon.html b/_modules/kqcircuits/elements/spiral_resonator_polygon.html
index 9c416cb16..a91f0e17e 100644
--- a/_modules/kqcircuits/elements/spiral_resonator_polygon.html
+++ b/_modules/kqcircuits/elements/spiral_resonator_polygon.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/elements/tsvs/tsv.html b/_modules/kqcircuits/elements/tsvs/tsv.html
index 4c8c469e4..edd189816 100644
--- a/_modules/kqcircuits/elements/tsvs/tsv.html
+++ b/_modules/kqcircuits/elements/tsvs/tsv.html
@@ -389,6 +389,7 @@
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diff --git a/_modules/kqcircuits/elements/tsvs/tsv_ellipse.html b/_modules/kqcircuits/elements/tsvs/tsv_ellipse.html
index 9ed07762a..22e4c8467 100644
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diff --git a/_modules/kqcircuits/elements/tsvs/tsv_standard.html b/_modules/kqcircuits/elements/tsvs/tsv_standard.html
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diff --git a/_modules/kqcircuits/elements/waveguide_composite.html b/_modules/kqcircuits/elements/waveguide_composite.html
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diff --git a/_modules/kqcircuits/elements/waveguide_coplanar.html b/_modules/kqcircuits/elements/waveguide_coplanar.html
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index b3220d8b4..8b5787e2e 100644
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/_modules/kqcircuits/elements/waveguide_coplanar_splitter.html b/_modules/kqcircuits/elements/waveguide_coplanar_splitter.html
index beb48cd5c..b4265abb9 100644
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
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diff --git a/_modules/kqcircuits/elements/waveguide_coplanar_straight.html b/_modules/kqcircuits/elements/waveguide_coplanar_straight.html
index a88f85447..3d9235e28 100644
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
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diff --git a/_modules/kqcircuits/elements/waveguide_coplanar_taper.html b/_modules/kqcircuits/elements/waveguide_coplanar_taper.html
index 480595cf1..6ae05dc4d 100644
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+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/junctions/junction.html b/_modules/kqcircuits/junctions/junction.html
index 52a53b6b9..3b8ab1673 100644
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
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@@ -407,7 +408,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/junctions/manhattan.html b/_modules/kqcircuits/junctions/manhattan.html
index 425c82ff2..2a6ba778b 100644
--- a/_modules/kqcircuits/junctions/manhattan.html
+++ b/_modules/kqcircuits/junctions/manhattan.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/junctions/manhattan_single_junction.html b/_modules/kqcircuits/junctions/manhattan_single_junction.html
index 98f7862cc..cd04f8b9e 100644
--- a/_modules/kqcircuits/junctions/manhattan_single_junction.html
+++ b/_modules/kqcircuits/junctions/manhattan_single_junction.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/junctions/no_squid.html b/_modules/kqcircuits/junctions/no_squid.html
index a56270ffd..8735869fc 100644
--- a/_modules/kqcircuits/junctions/no_squid.html
+++ b/_modules/kqcircuits/junctions/no_squid.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/junctions/sim.html b/_modules/kqcircuits/junctions/sim.html
index 11b72687e..2f4e1b534 100644
--- a/_modules/kqcircuits/junctions/sim.html
+++ b/_modules/kqcircuits/junctions/sim.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/junctions/squid.html b/_modules/kqcircuits/junctions/squid.html
index 9b5a785b5..892001b1f 100644
--- a/_modules/kqcircuits/junctions/squid.html
+++ b/_modules/kqcircuits/junctions/squid.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/klayout_view.html b/_modules/kqcircuits/klayout_view.html
index a674238a4..8d51c5b99 100644
--- a/_modules/kqcircuits/klayout_view.html
+++ b/_modules/kqcircuits/klayout_view.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/layer_cluster.html b/_modules/kqcircuits/layer_cluster.html
index e3f3e7a0d..e281e38b8 100644
--- a/_modules/kqcircuits/layer_cluster.html
+++ b/_modules/kqcircuits/layer_cluster.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/masks/mask_export.html b/_modules/kqcircuits/masks/mask_export.html
index 9ed35b0bf..8f7f7a3ab 100644
--- a/_modules/kqcircuits/masks/mask_export.html
+++ b/_modules/kqcircuits/masks/mask_export.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -488,6 +489,7 @@ <h1>Source code for kqcircuits.masks.mask_export</h1><div class="highlight"><pre
 <span class="kn">from</span> <span class="nn">kqcircuits.util.geometry_json_encoder</span> <span class="kn">import</span> <span class="n">GeometryJsonEncoder</span>
 <span class="kn">from</span> <span class="nn">kqcircuits.util.netlist_extraction</span> <span class="kn">import</span> <span class="n">export_cell_netlist</span>
 <span class="kn">from</span> <span class="nn">kqcircuits.util.export_helper</span> <span class="kn">import</span> <span class="n">export_drc_report</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.util.replace_junctions</span> <span class="kn">import</span> <span class="n">extract_junctions</span><span class="p">,</span> <span class="n">get_tuned_junction_json</span>
 
 
 <div class="viewcode-block" id="export_mask_set"><a class="viewcode-back" href="../../../api/kqcircuits.masks.mask_export.html#kqcircuits.masks.mask_export.export_mask_set">[docs]</a><span class="k">def</span> <span class="nf">export_mask_set</span><span class="p">(</span><span class="n">mask_set</span><span class="p">,</span> <span class="n">skip_extras</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
@@ -520,6 +522,8 @@ <h1>Source code for kqcircuits.masks.mask_export</h1><div class="highlight"><pre
     <span class="n">dummy_cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">create_cell</span><span class="p">(</span><span class="n">chip_name</span><span class="p">)</span>
     <span class="n">dummy_cell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">chip_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">pya</span><span class="o">.</span><span class="n">DTrans</span><span class="p">()))</span>
     <span class="n">_export_cell</span><span class="p">(</span><span class="n">chip_dir</span> <span class="o">/</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">chip_name</span><span class="si">}</span><span class="s2">_with_pcells.oas&quot;</span><span class="p">,</span> <span class="n">dummy_cell</span><span class="p">,</span> <span class="s2">&quot;all&quot;</span><span class="p">)</span>
+    <span class="k">if</span> <span class="ow">not</span> <span class="n">skip_extras</span><span class="p">:</span>
+        <span class="n">export_junction_parameters</span><span class="p">(</span><span class="n">dummy_cell</span><span class="p">,</span> <span class="n">chip_dir</span> <span class="o">/</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">chip_name</span><span class="si">}</span><span class="s2">_junction_parameters.json&quot;</span><span class="p">)</span>
     <span class="n">dummy_cell</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span>
     <span class="n">static_cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">layout</span><span class="o">.</span><span class="n">convert_cell_to_static</span><span class="p">(</span><span class="n">chip_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">()))</span>
 
@@ -836,6 +840,16 @@ <h1>Source code for kqcircuits.masks.mask_export</h1><div class="highlight"><pre
 
 <div class="viewcode-block" id="get_mask_layout_full_name"><a class="viewcode-back" href="../../../api/kqcircuits.masks.mask_export.html#kqcircuits.masks.mask_export.get_mask_layout_full_name">[docs]</a><span class="k">def</span> <span class="nf">get_mask_layout_full_name</span><span class="p">(</span><span class="n">mask_set</span><span class="p">,</span> <span class="n">mask_layout</span><span class="p">):</span>
     <span class="k">return</span> <span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">mask_set</span><span class="o">.</span><span class="n">name</span><span class="si">}</span><span class="s2">_v</span><span class="si">{</span><span class="n">mask_set</span><span class="o">.</span><span class="n">version</span><span class="si">}</span><span class="s2">-</span><span class="si">{</span><span class="n">mask_layout</span><span class="o">.</span><span class="n">face_id</span><span class="si">}{</span><span class="n">mask_layout</span><span class="o">.</span><span class="n">extra_id</span><span class="si">}</span><span class="s2">&quot;</span></div>
+
+
+<div class="viewcode-block" id="export_junction_parameters"><a class="viewcode-back" href="../../../api/kqcircuits.masks.mask_export.html#kqcircuits.masks.mask_export.export_junction_parameters">[docs]</a><span class="k">def</span> <span class="nf">export_junction_parameters</span><span class="p">(</span><span class="n">cell</span><span class="p">,</span> <span class="n">path</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Exports a json file containing all parameter values for each junction in the given chip (as cell)&quot;&quot;&quot;</span>
+    <span class="n">junctions</span> <span class="o">=</span> <span class="n">extract_junctions</span><span class="p">(</span><span class="n">cell</span><span class="p">,</span> <span class="p">{})</span>
+    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">junctions</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+        <span class="n">params_json</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">get_tuned_junction_json</span><span class="p">(</span><span class="n">junctions</span><span class="p">),</span> <span class="n">indent</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">file</span><span class="p">:</span>
+            <span class="n">file</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">params_json</span><span class="p">)</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Exported tunable junction parameters to </span><span class="si">{</span><span class="n">path</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">)</span></div>
 </pre></div>
 
            </div>
diff --git a/_modules/kqcircuits/masks/mask_layout.html b/_modules/kqcircuits/masks/mask_layout.html
index f3f12da62..82e7dee84 100644
--- a/_modules/kqcircuits/masks/mask_layout.html
+++ b/_modules/kqcircuits/masks/mask_layout.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/masks/mask_set.html b/_modules/kqcircuits/masks/mask_set.html
index 485def802..4b9cacb7d 100644
--- a/_modules/kqcircuits/masks/mask_set.html
+++ b/_modules/kqcircuits/masks/mask_set.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/masks/multi_face_mask_layout.html b/_modules/kqcircuits/masks/multi_face_mask_layout.html
index bca78033a..6e5ae5cf8 100644
--- a/_modules/kqcircuits/masks/multi_face_mask_layout.html
+++ b/_modules/kqcircuits/masks/multi_face_mask_layout.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/pya_resolver.html b/_modules/kqcircuits/pya_resolver.html
index c7e1a45bd..02a3ed855 100644
--- a/_modules/kqcircuits/pya_resolver.html
+++ b/_modules/kqcircuits/pya_resolver.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/qubits/concentric_transmon.html b/_modules/kqcircuits/qubits/concentric_transmon.html
index e6b681b31..a6705f09e 100644
--- a/_modules/kqcircuits/qubits/concentric_transmon.html
+++ b/_modules/kqcircuits/qubits/concentric_transmon.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/qubits/double_pads.html b/_modules/kqcircuits/qubits/double_pads.html
index 1490ae386..9d8ec3891 100644
--- a/_modules/kqcircuits/qubits/double_pads.html
+++ b/_modules/kqcircuits/qubits/double_pads.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/qubits/double_pads_splines.html b/_modules/kqcircuits/qubits/double_pads_splines.html
index 247750821..9e8125cb8 100644
--- a/_modules/kqcircuits/qubits/double_pads_splines.html
+++ b/_modules/kqcircuits/qubits/double_pads_splines.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/qubits/qubit.html b/_modules/kqcircuits/qubits/qubit.html
index 127bcc1fe..3e513acfe 100644
--- a/_modules/kqcircuits/qubits/qubit.html
+++ b/_modules/kqcircuits/qubits/qubit.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
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@@ -537,7 +538,7 @@ <h1>Source code for kqcircuits.simulations.port</h1><div class="highlight"><pre>
 <span class="w">    </span><span class="sd">&quot;&quot;&quot;Data structure for ports at the edge of the simulation area.&quot;&quot;&quot;</span>
     <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">number</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span> <span class="n">signal_location</span><span class="p">:</span> <span class="n">DPoint</span><span class="p">,</span>
                  <span class="n">resistance</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mi">50</span><span class="p">,</span> <span class="n">reactance</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mi">0</span><span class="p">,</span> <span class="n">inductance</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mi">0</span><span class="p">,</span> <span class="n">capacitance</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mi">0</span><span class="p">,</span>
-                 <span class="n">deembed_len</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="kc">None</span><span class="p">,</span> <span class="n">face</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">0</span><span class="p">,</span> <span class="n">junction</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">):</span>
+                 <span class="n">deembed_len</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="kc">None</span><span class="p">,</span> <span class="n">face</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">0</span><span class="p">,</span> <span class="n">junction</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
 <span class="w">        </span><span class="sd">&quot;&quot;&quot;</span>
 <span class="sd">        Args:</span>
 <span class="sd">            number: Port number.</span>
@@ -549,10 +550,13 @@ <h1>Source code for kqcircuits.simulations.port</h1><div class="highlight"><pre>
 <span class="sd">            deembed_len: Port de-embedding length. Given in simulation units, usually microns (:math:`\\text{um}`).</span>
 <span class="sd">            face: Integer-valued face index for the port.</span>
 <span class="sd">            junction: Whether this port models a SQUID/Junction. Used in EPR calculations.</span>
+<span class="sd">            size: Width and height of the port to override Simulation.port_size. Optionally, the size can be set as a</span>
+<span class="sd">                list specifying the extensions from the center of the port to left, right, down and up, respectively.</span>
 <span class="sd">        &quot;&quot;&quot;</span>
         <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__init__</span><span class="p">(</span><span class="n">number</span><span class="p">,</span> <span class="n">resistance</span><span class="p">,</span> <span class="n">reactance</span><span class="p">,</span> <span class="n">inductance</span><span class="p">,</span> <span class="n">capacitance</span><span class="p">,</span> <span class="n">face</span><span class="p">,</span> <span class="n">junction</span><span class="p">)</span>
         <span class="bp">self</span><span class="o">.</span><span class="n">signal_location</span> <span class="o">=</span> <span class="n">signal_location</span>
-        <span class="bp">self</span><span class="o">.</span><span class="n">deembed_len</span> <span class="o">=</span> <span class="n">deembed_len</span></div>
+        <span class="bp">self</span><span class="o">.</span><span class="n">deembed_len</span> <span class="o">=</span> <span class="n">deembed_len</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">size</span> <span class="o">=</span> <span class="n">size</span></div>
 </pre></div>
 
            </div>
diff --git a/_modules/kqcircuits/simulations/simulation.html b/_modules/kqcircuits/simulations/simulation.html
index b994df932..9d94fffec 100644
--- a/_modules/kqcircuits/simulations/simulation.html
+++ b/_modules/kqcircuits/simulations/simulation.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -1312,8 +1313,8 @@ <h1>Source code for kqcircuits.simulations.simulation</h1><div class="highlight"
                 <span class="c1"># Define a 3D polygon for each port</span>
                 <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">port</span><span class="p">,</span> <span class="n">EdgePort</span><span class="p">):</span>
 
-                    <span class="n">ps</span> <span class="o">=</span> <span class="p">(</span><span class="n">simulation</span><span class="o">.</span><span class="n">port_size</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">simulation</span><span class="o">.</span><span class="n">port_size</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span>
-                          <span class="k">else</span> <span class="p">[</span><span class="n">simulation</span><span class="o">.</span><span class="n">port_size</span> <span class="o">/</span> <span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="mi">4</span><span class="p">)</span>
+                    <span class="n">port_size</span> <span class="o">=</span> <span class="n">simulation</span><span class="o">.</span><span class="n">port_size</span> <span class="k">if</span> <span class="n">port</span><span class="o">.</span><span class="n">size</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">port</span><span class="o">.</span><span class="n">size</span>
+                    <span class="n">ps</span> <span class="o">=</span> <span class="n">port_size</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">port_size</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">port_size</span> <span class="o">/</span> <span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="mi">4</span>
 
                     <span class="n">port_z0</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">z</span><span class="p">[</span><span class="n">face_id</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">ps</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span> <span class="n">z</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
                     <span class="n">port_z1</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="n">z</span><span class="p">[</span><span class="n">face_id</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">ps</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span> <span class="n">z</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
diff --git a/_modules/kqcircuits/simulations/single_element_simulation.html b/_modules/kqcircuits/simulations/single_element_simulation.html
index c2a233525..3afa7e394 100644
--- a/_modules/kqcircuits/simulations/single_element_simulation.html
+++ b/_modules/kqcircuits/simulations/single_element_simulation.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/simulations/single_xmons_full_chip_sim.html b/_modules/kqcircuits/simulations/single_xmons_full_chip_sim.html
index f924ed56b..f7826c1ed 100644
--- a/_modules/kqcircuits/simulations/single_xmons_full_chip_sim.html
+++ b/_modules/kqcircuits/simulations/single_xmons_full_chip_sim.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/simulations/waveguides_sim.html b/_modules/kqcircuits/simulations/waveguides_sim.html
index f5c77a35f..5a98ad4c4 100644
--- a/_modules/kqcircuits/simulations/waveguides_sim.html
+++ b/_modules/kqcircuits/simulations/waveguides_sim.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/simulations/xmons_direct_coupling_full_chip_sim.html b/_modules/kqcircuits/simulations/xmons_direct_coupling_full_chip_sim.html
index 775c9c49c..c5f7fb9fc 100644
--- a/_modules/kqcircuits/simulations/xmons_direct_coupling_full_chip_sim.html
+++ b/_modules/kqcircuits/simulations/xmons_direct_coupling_full_chip_sim.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/simulations/xmons_direct_coupling_sim.html b/_modules/kqcircuits/simulations/xmons_direct_coupling_sim.html
index 870509be6..9cd4301ee 100644
--- a/_modules/kqcircuits/simulations/xmons_direct_coupling_sim.html
+++ b/_modules/kqcircuits/simulations/xmons_direct_coupling_sim.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/test_structures/airbridge_dc.html b/_modules/kqcircuits/test_structures/airbridge_dc.html
index 66f1f952a..934248aba 100644
--- a/_modules/kqcircuits/test_structures/airbridge_dc.html
+++ b/_modules/kqcircuits/test_structures/airbridge_dc.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/test_structures/cross_test.html b/_modules/kqcircuits/test_structures/cross_test.html
index d06db23ff..43ac70c80 100644
--- a/_modules/kqcircuits/test_structures/cross_test.html
+++ b/_modules/kqcircuits/test_structures/cross_test.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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diff --git a/_modules/kqcircuits/test_structures/test_structure.html b/_modules/kqcircuits/test_structures/test_structure.html
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diff --git a/_modules/kqcircuits/util/count_instances.html b/_modules/kqcircuits/util/count_instances.html
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diff --git a/_modules/kqcircuits/util/coupler_lib.html b/_modules/kqcircuits/util/coupler_lib.html
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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 </ul>
diff --git a/_modules/kqcircuits/util/deep_delete.html b/_modules/kqcircuits/util/deep_delete.html
index dce513234..8dc527c7b 100644
--- a/_modules/kqcircuits/util/deep_delete.html
+++ b/_modules/kqcircuits/util/deep_delete.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/util/replace_squids.html b/_modules/kqcircuits/util/defaults_helper.html
similarity index 61%
rename from _modules/kqcircuits/util/replace_squids.html
rename to _modules/kqcircuits/util/defaults_helper.html
index 3cf9f3683..d793d4eae 100644
--- a/_modules/kqcircuits/util/replace_squids.html
+++ b/_modules/kqcircuits/util/defaults_helper.html
@@ -3,7 +3,7 @@
 <head>
   <meta charset="utf-8" />
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <title>kqcircuits.util.replace_squids &mdash; KQCircuits  documentation</title>
+  <title>kqcircuits.util.defaults_helper &mdash; KQCircuits  documentation</title>
       <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
       <link rel="stylesheet" href="../../../_static/css/theme.css" type="text/css" />
       <link rel="stylesheet" href="../../../_static/graphviz.css" type="text/css" />
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -441,7 +442,7 @@
   <ul class="wy-breadcrumbs">
       <li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
           <li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
-      <li class="breadcrumb-item active">kqcircuits.util.replace_squids</li>
+      <li class="breadcrumb-item active">kqcircuits.util.defaults_helper</li>
       <li class="wy-breadcrumbs-aside">
       </li>
   </ul>
@@ -450,9 +451,9 @@
           <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
            <div itemprop="articleBody">
              
-  <h1>Source code for kqcircuits.util.replace_squids</h1><div class="highlight"><pre>
+  <h1>Source code for kqcircuits.util.defaults_helper</h1><div class="highlight"><pre>
 <span></span><span class="c1"># This code is part of KQCircuits</span>
-<span class="c1"># Copyright (C) 2021 IQM Finland Oy</span>
+<span class="c1"># Copyright (C) 2024 IQM Finland Oy</span>
 <span class="c1">#</span>
 <span class="c1"># This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public</span>
 <span class="c1"># License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later</span>
@@ -468,174 +469,23 @@ <h1>Source code for kqcircuits.util.replace_squids</h1><div class="highlight"><p
 <span class="c1"># (meetiqm.com/developers/osstmpolicy). IQM welcomes contributions to the code. Please see our contribution agreements</span>
 <span class="c1"># for individuals (meetiqm.com/developers/clas/individual) and organizations (meetiqm.com/developers/clas/organization).</span>
 
-<span class="sd">&quot;&quot;&quot;</span>
-<span class="sd">    Functions to replace SQUIDs in existing design files.</span>
+<span class="kn">import</span> <span class="nn">os</span>
+<span class="kn">from</span> <span class="nn">pathlib</span> <span class="kn">import</span> <span class="n">Path</span>
 
-<span class="sd">    Typical usage in a macro::</span>
 
-<span class="sd">            top_cell = KLayoutView(current=True).active_cell</span>
-<span class="sd">            replace_squids(top_cell, &quot;MySQUID&quot;, &quot;junction_width&quot;, 0.5, 0.1)  # a parameter sweep</span>
-<span class="sd">            replace_squid(top_cell, &quot;QB_2&quot;, &quot;MySQUID&quot;, mirror=True)          # replace an individual SQUID</span>
-<span class="sd">&quot;&quot;&quot;</span>
-
-<span class="kn">from</span> <span class="nn">os</span> <span class="kn">import</span> <span class="n">path</span>
-<span class="kn">import</span> <span class="nn">logging</span>
-<span class="kn">from</span> <span class="nn">kqcircuits.pya_resolver</span> <span class="kn">import</span> <span class="n">pya</span>
-<span class="kn">from</span> <span class="nn">kqcircuits.junctions</span> <span class="kn">import</span> <span class="n">junction_type_choices</span>
-<span class="kn">from</span> <span class="nn">kqcircuits.junctions.junction</span> <span class="kn">import</span> <span class="n">Junction</span>
-<span class="kn">from</span> <span class="nn">kqcircuits.chips.chip</span> <span class="kn">import</span> <span class="n">Chip</span>
-
-
-<div class="viewcode-block" id="replace_squids"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_squids.html#kqcircuits.util.replace_squids.replace_squids">[docs]</a><span class="k">def</span> <span class="nf">replace_squids</span><span class="p">(</span><span class="n">cell</span><span class="p">,</span> <span class="n">junction_type</span><span class="p">,</span> <span class="n">parameter_name</span><span class="p">,</span> <span class="n">parameter_start</span><span class="p">,</span> <span class="n">parameter_step</span><span class="p">,</span> <span class="n">parameter_end</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-<span class="w">    </span><span class="sd">&quot;&quot;&quot;Replaces squids by code generated squids with the given parameter sweep.</span>
-
-<span class="sd">    All squids below top_cell in the cell hierarchy are removed. The number of code</span>
-<span class="sd">    generated squids may be limited by the value of parameter_end.</span>
-
-<span class="sd">    Args:</span>
-<span class="sd">        cell (Cell): The cell where the squids to be replaced are</span>
-<span class="sd">        junction_type: class name of the code generated squid that replaces the other squids</span>
-<span class="sd">        parameter_name (str): Name of the parameter to be swept</span>
-<span class="sd">        parameter_start: Start value of the parameter</span>
-<span class="sd">        parameter_step: Parameter value increment step</span>
-<span class="sd">        parameter_end: End value of the parameter. If None, there is no limit for the parameter value, so that all</span>
-<span class="sd">            squids are replaced</span>
-
-<span class="sd">    &quot;&quot;&quot;</span>
-    <span class="n">layout</span> <span class="o">=</span> <span class="n">cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
-    <span class="n">parameter_value</span> <span class="o">=</span> <span class="n">parameter_start</span>
-    <span class="n">junction_types</span> <span class="o">=</span> <span class="p">[</span><span class="n">choice</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">choice</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">else</span> <span class="n">choice</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">choice</span> <span class="ow">in</span> <span class="n">junction_type_choices</span><span class="p">]</span>
-
-    <span class="n">old_squids</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># list of tuples (squid instance, squid dtrans with respect to cell, old name)</span>
-
-    <span class="k">def</span> <span class="nf">recursive_replace_squids</span><span class="p">(</span><span class="n">top_cell_inst</span><span class="p">,</span> <span class="n">combined_dtrans</span><span class="p">):</span>
-<span class="w">        </span><span class="sd">&quot;&quot;&quot;Appends to old_squids all squids in top_cell_inst or any instance below it in hierarchy.&quot;&quot;&quot;</span>
-        <span class="c1"># cannot use just top_cell_inst.cell due to klayout bug, see</span>
-        <span class="c1"># https://www.klayout.de/forum/discussion/1191/cell-shapes-cannot-call-non-const-method-on-a-const-reference</span>
-        <span class="n">top_cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">top_cell_inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">)</span>
-        <span class="k">for</span> <span class="n">subcell_inst</span> <span class="ow">in</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
-            <span class="n">subcell_name</span> <span class="o">=</span> <span class="n">subcell_inst</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">name</span>
-            <span class="k">if</span> <span class="n">subcell_name</span> <span class="ow">in</span> <span class="n">junction_types</span><span class="p">:</span>
-                <span class="n">old_squids</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">subcell_inst</span><span class="p">,</span> <span class="n">combined_dtrans</span><span class="o">*</span><span class="n">subcell_inst</span><span class="o">.</span><span class="n">dtrans</span><span class="p">,</span> <span class="n">subcell_name</span><span class="p">))</span>
-            <span class="k">else</span><span class="p">:</span>
-                <span class="n">recursive_replace_squids</span><span class="p">(</span><span class="n">subcell_inst</span><span class="p">,</span> <span class="n">combined_dtrans</span><span class="o">*</span><span class="n">subcell_inst</span><span class="o">.</span><span class="n">dtrans</span><span class="p">)</span>
-
-    <span class="k">for</span> <span class="n">inst</span> <span class="ow">in</span> <span class="n">cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
-        <span class="k">if</span> <span class="n">inst</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">name</span> <span class="ow">in</span> <span class="n">junction_types</span><span class="p">:</span>
-            <span class="n">old_squids</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">inst</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">dtrans</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">name</span><span class="p">))</span>
-        <span class="n">recursive_replace_squids</span><span class="p">(</span><span class="n">inst</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">dtrans</span><span class="p">)</span>
-
-    <span class="c1"># sort left-to-right and bottom-to-top</span>
-    <span class="n">old_squids</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">squid</span><span class="p">:</span> <span class="p">(</span><span class="n">squid</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">disp</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">squid</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">disp</span><span class="o">.</span><span class="n">y</span><span class="p">))</span>
-
-    <span class="k">for</span> <span class="p">(</span><span class="n">inst</span><span class="p">,</span> <span class="n">dtrans</span><span class="p">,</span> <span class="n">name</span><span class="p">)</span> <span class="ow">in</span> <span class="n">old_squids</span><span class="p">:</span>
-        <span class="k">if</span> <span class="p">(</span><span class="n">parameter_end</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">parameter_value</span> <span class="o">&lt;=</span> <span class="n">parameter_end</span><span class="p">):</span>
-            <span class="c1"># create new squid at old squid&#39;s position</span>
-            <span class="n">parameters</span> <span class="o">=</span> <span class="p">{</span><span class="n">parameter_name</span><span class="p">:</span> <span class="n">parameter_value</span><span class="p">}</span>
-            <span class="n">squid_cell</span> <span class="o">=</span> <span class="n">Junction</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">layout</span><span class="p">,</span> <span class="n">junction_type</span><span class="o">=</span><span class="n">junction_type</span><span class="p">,</span> <span class="n">face_ids</span><span class="o">=</span><span class="n">inst</span><span class="o">.</span><span class="n">pcell_parameter</span><span class="p">(</span><span class="s2">&quot;face_ids&quot;</span><span class="p">),</span>
-                                      <span class="o">**</span><span class="n">parameters</span><span class="p">)</span>
-            <span class="n">cell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">squid_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">dtrans</span><span class="p">))</span>
-            <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s2">&quot;Replaced squid </span><span class="se">\&quot;</span><span class="si">%s</span><span class="se">\&quot;</span><span class="s2"> with dtrans=</span><span class="si">%s</span><span class="s2"> by a squid </span><span class="se">\&quot;</span><span class="si">%s</span><span class="se">\&quot;</span><span class="s2"> with </span><span class="si">%s</span><span class="s2">=</span><span class="si">%s</span><span class="s2">.&quot;</span><span class="p">,</span>
-                         <span class="n">name</span><span class="p">,</span> <span class="n">dtrans</span><span class="p">,</span> <span class="n">junction_type</span><span class="p">,</span> <span class="n">parameter_name</span><span class="p">,</span> <span class="n">parameter_value</span><span class="p">)</span>
-            <span class="n">parameter_value</span> <span class="o">+=</span> <span class="n">parameter_step</span>
-        <span class="c1"># delete old squid</span>
-        <span class="n">inst</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span></div>
-
-<div class="viewcode-block" id="replace_squid"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_squids.html#kqcircuits.util.replace_squids.replace_squid">[docs]</a><span class="k">def</span> <span class="nf">replace_squid</span><span class="p">(</span><span class="n">top_cell</span><span class="p">,</span> <span class="n">inst_name</span><span class="p">,</span> <span class="n">junction_type</span><span class="p">,</span> <span class="n">mirror</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">squid_index</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">params</span><span class="p">):</span>
-<span class="w">    </span><span class="sd">&quot;&quot;&quot;Replaces a SQUID by the requested alternative in the named instance.</span>
-
-<span class="sd">    Replaces the SQUID(s) in the sub-element(s) named ``inst_name`` with other SQUID(s) of</span>
-<span class="sd">    ``junction_type``. The necessary SQUID parameters are specified in ``params``. If ``inst_name`` is</span>
-<span class="sd">    a Test Structure then ``squid_index`` specifies which SQUID to change.</span>
-
-<span class="sd">    Args:</span>
-<span class="sd">        top_cell: The top cell with SQUIDs to be replaced</span>
-<span class="sd">        inst_name: Instance name of PCell containing the SQUID to be replaced</span>
-<span class="sd">        junction_type: Name of SQUID Class or .gds/.oas file</span>
-<span class="sd">        mirror: Mirror the SQUID along its vertical axis</span>
-<span class="sd">        squid_index: Index of the SQUID to be replaced within a Test Structure</span>
-<span class="sd">        **params: Extra parameters for the new SQUID</span>
+<div class="viewcode-block" id="find_ansys_executable"><a class="viewcode-back" href="../../../api/kqcircuits.util.defaults_helper.html#kqcircuits.util.defaults_helper.find_ansys_executable">[docs]</a><span class="k">def</span> <span class="nf">find_ansys_executable</span><span class="p">(</span><span class="n">default</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Finds latest Ansys Electronics executable from default installation locations. Returns &#39;default&#39; if not found.</span>
 <span class="sd">    &quot;&quot;&quot;</span>
-
-    <span class="k">def</span> <span class="nf">find_cells_with_squids</span><span class="p">(</span><span class="n">chip</span><span class="p">,</span> <span class="n">inst_name</span><span class="p">):</span>
-<span class="w">        </span><span class="sd">&quot;&quot;&quot;Returns the container cells in `chip` called `inst_name`&quot;&quot;&quot;</span>
-        <span class="n">cells</span> <span class="o">=</span> <span class="p">[]</span>
-        <span class="n">layout</span> <span class="o">=</span> <span class="n">chip</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
-        <span class="k">for</span> <span class="n">inst</span> <span class="ow">in</span> <span class="n">chip</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
-            <span class="k">if</span> <span class="n">inst</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s2">&quot;id&quot;</span><span class="p">)</span> <span class="o">==</span> <span class="n">inst_name</span><span class="p">:</span>
-                <span class="n">cells</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">chip</span><span class="p">,</span> <span class="n">inst</span><span class="p">))</span>
-            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">pcell_declaration</span><span class="p">(),</span> <span class="n">Chip</span><span class="p">):</span>  <span class="c1"># recursively look for more chips</span>
-                <span class="n">cells</span> <span class="o">+=</span> <span class="n">find_cells_with_squids</span><span class="p">(</span><span class="n">layout</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">),</span> <span class="n">inst_name</span><span class="p">)</span>
-        <span class="k">return</span> <span class="n">cells</span>
-
-    <span class="n">cells</span> <span class="o">=</span> <span class="n">find_cells_with_squids</span><span class="p">(</span><span class="n">top_cell</span><span class="p">,</span> <span class="n">inst_name</span><span class="p">)</span>
-    <span class="k">if</span> <span class="ow">not</span> <span class="n">cells</span><span class="p">:</span>
-        <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Could not find anything named &#39;</span><span class="si">{</span><span class="n">inst_name</span><span class="si">}</span><span class="s2">&#39;!&quot;</span><span class="p">)</span>
-
-    <span class="n">layout</span> <span class="o">=</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
-    <span class="n">file_cell</span> <span class="o">=</span> <span class="kc">None</span>
-    <span class="k">if</span> <span class="n">junction_type</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s2">&quot;.oas&quot;</span><span class="p">)</span> <span class="ow">or</span> <span class="n">junction_type</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s2">&quot;.gds&quot;</span><span class="p">):</span>  <span class="c1"># try to load from file</span>
-        <span class="k">if</span> <span class="ow">not</span> <span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">junction_type</span><span class="p">):</span>
-            <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;No file found at &#39;</span><span class="si">{</span><span class="n">path</span><span class="o">.</span><span class="n">realpath</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="si">}</span><span class="s2">!&quot;</span><span class="p">)</span>
-            <span class="k">return</span>
-        <span class="n">load_opts</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">LoadLayoutOptions</span><span class="p">()</span>
-        <span class="n">load_opts</span><span class="o">.</span><span class="n">cell_conflict_resolution</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">LoadLayoutOptions</span><span class="o">.</span><span class="n">CellConflictResolution</span><span class="o">.</span><span class="n">RenameCell</span>
-        <span class="n">layout</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">junction_type</span><span class="p">,</span> <span class="n">load_opts</span><span class="p">)</span>
-        <span class="n">file_cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">top_cells</span><span class="p">()[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-        <span class="n">file_cell</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;Junction Library.</span><span class="si">{</span><span class="n">file_cell</span><span class="o">.</span><span class="n">name</span><span class="si">}</span><span class="s2">&quot;</span>
-
-    <span class="k">for</span> <span class="p">(</span><span class="n">chip</span><span class="p">,</span> <span class="n">inst</span><span class="p">)</span> <span class="ow">in</span> <span class="n">cells</span><span class="p">:</span>
-        <span class="n">orig_trans</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">dcplx_trans</span>
-        <span class="n">ccell</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">)</span>
-
-        <span class="k">if</span> <span class="n">ccell</span><span class="o">.</span><span class="n">is_pcell_variant</span><span class="p">():</span>  <span class="c1"># make copy if used elsewhere</span>
-            <span class="n">dup</span> <span class="o">=</span> <span class="n">ccell</span><span class="o">.</span><span class="n">dup</span><span class="p">()</span>
-            <span class="n">dup</span><span class="o">.</span><span class="n">set_property</span><span class="p">(</span><span class="s2">&quot;id&quot;</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s2">&quot;id&quot;</span><span class="p">))</span>
-            <span class="n">inst</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span>
-            <span class="n">chip</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">dup</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">orig_trans</span><span class="p">),</span> <span class="n">dup</span><span class="o">.</span><span class="n">prop_id</span><span class="p">)</span>
-            <span class="n">ccell</span> <span class="o">=</span> <span class="n">dup</span>
-
-        <span class="n">squids</span> <span class="o">=</span> <span class="p">[</span><span class="n">sq</span> <span class="k">for</span> <span class="n">sq</span> <span class="ow">in</span> <span class="n">ccell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">()</span> <span class="k">if</span> <span class="n">sq</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">qname</span><span class="p">()</span><span class="o">.</span><span class="n">find</span><span class="p">(</span><span class="s2">&quot;Junction Library&quot;</span><span class="p">)</span> <span class="o">!=</span> <span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-        <span class="n">squids</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">q</span><span class="p">:</span> <span class="n">q</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s2">&quot;squid_index&quot;</span><span class="p">))</span>
-        <span class="k">if</span> <span class="ow">not</span> <span class="n">squids</span> <span class="ow">or</span> <span class="n">squid_index</span> <span class="o">&gt;=</span> <span class="nb">len</span><span class="p">(</span><span class="n">squids</span><span class="p">)</span> <span class="ow">or</span> <span class="n">squid_index</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-            <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;No SQUID found in &#39;</span><span class="si">{</span><span class="n">inst_name</span><span class="si">}</span><span class="s2">&#39; or squid_index=</span><span class="si">{</span><span class="n">squid_index</span><span class="si">}</span><span class="s2"> is out of range!&quot;</span><span class="p">)</span>
-            <span class="k">continue</span>
-        <span class="n">old_squid</span> <span class="o">=</span> <span class="n">squids</span><span class="p">[</span><span class="n">squid_index</span><span class="p">]</span>
-        <span class="k">if</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">is_pcell</span><span class="p">():</span>
-            <span class="n">params</span> <span class="o">=</span> <span class="p">{</span><span class="s2">&quot;face_ids&quot;</span><span class="p">:</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">pcell_parameter</span><span class="p">(</span><span class="s2">&quot;face_ids&quot;</span><span class="p">),</span> <span class="o">**</span><span class="n">params</span><span class="p">}</span>
-        <span class="n">trans</span> <span class="o">=</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">dcplx_trans</span> <span class="o">*</span> <span class="n">pya</span><span class="o">.</span><span class="n">DCplxTrans</span><span class="o">.</span><span class="n">M90</span> <span class="k">if</span> <span class="n">mirror</span> <span class="k">else</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">dcplx_trans</span>
-        <span class="n">squid_pos</span> <span class="o">=</span> <span class="p">(</span><span class="n">orig_trans</span> <span class="o">*</span> <span class="n">trans</span><span class="p">)</span><span class="o">.</span><span class="n">disp</span>
-        <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Replaced SQUID of &#39;</span><span class="si">{</span><span class="n">inst_name</span><span class="si">}</span><span class="s2">&#39; with </span><span class="si">{</span><span class="n">junction_type</span><span class="si">}</span><span class="s2"> at </span><span class="si">{</span><span class="n">squid_pos</span><span class="si">}</span><span class="s2">.&quot;</span><span class="p">)</span>
-        <span class="n">old_squid</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span>
-        <span class="k">if</span> <span class="n">file_cell</span><span class="p">:</span>
-            <span class="n">new_squid</span> <span class="o">=</span> <span class="n">ccell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">file_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">trans</span><span class="p">))</span>
-        <span class="k">else</span><span class="p">:</span>
-            <span class="n">new_squid</span> <span class="o">=</span> <span class="n">Junction</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">layout</span><span class="p">,</span> <span class="n">junction_type</span><span class="o">=</span><span class="n">junction_type</span><span class="p">,</span> <span class="o">**</span><span class="n">params</span><span class="p">)</span>
-            <span class="n">new_squid</span> <span class="o">=</span> <span class="n">ccell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">new_squid</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">trans</span><span class="p">))</span>
-        <span class="n">new_squid</span><span class="o">.</span><span class="n">set_property</span><span class="p">(</span><span class="s2">&quot;squid_index&quot;</span><span class="p">,</span> <span class="n">squid_index</span><span class="p">)</span></div>
-
-<div class="viewcode-block" id="convert_cells_to_static"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_squids.html#kqcircuits.util.replace_squids.convert_cells_to_static">[docs]</a><span class="k">def</span> <span class="nf">convert_cells_to_static</span><span class="p">(</span><span class="n">layout</span><span class="p">):</span>
-<span class="w">    </span><span class="sd">&quot;&quot;&quot;Converts all cells in the layout to static. &quot;&quot;&quot;</span>
-
-    <span class="n">converted_cells</span> <span class="o">=</span> <span class="p">{}</span>
-
-    <span class="c1"># convert the cells to static</span>
-    <span class="k">for</span> <span class="n">cell</span> <span class="ow">in</span> <span class="n">layout</span><span class="o">.</span><span class="n">each_cell</span><span class="p">():</span>
-        <span class="k">if</span> <span class="n">cell</span><span class="o">.</span><span class="n">is_library_cell</span><span class="p">():</span>
-            <span class="n">cell_idx</span> <span class="o">=</span> <span class="n">cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">()</span>
-            <span class="n">new_cell_idx</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">convert_cell_to_static</span><span class="p">(</span><span class="n">cell_idx</span><span class="p">)</span>
-            <span class="k">if</span> <span class="n">new_cell_idx</span> <span class="o">!=</span> <span class="n">cell_idx</span><span class="p">:</span>
-                <span class="n">converted_cells</span><span class="p">[</span><span class="n">cell_idx</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_cell_idx</span>
-
-    <span class="c1"># translate the instances</span>
-    <span class="k">for</span> <span class="n">cell</span> <span class="ow">in</span> <span class="n">layout</span><span class="o">.</span><span class="n">each_cell</span><span class="p">():</span>
-        <span class="k">for</span> <span class="n">inst</span> <span class="ow">in</span> <span class="n">cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
-            <span class="k">if</span> <span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span> <span class="ow">in</span> <span class="n">converted_cells</span><span class="p">:</span>
-                <span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span> <span class="o">=</span> <span class="n">converted_cells</span><span class="p">[</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">]</span>
-
-    <span class="c1"># delete the PCells</span>
-    <span class="k">for</span> <span class="n">cell_idx</span> <span class="ow">in</span> <span class="n">converted_cells</span><span class="p">:</span>
-        <span class="n">layout</span><span class="o">.</span><span class="n">delete_cell</span><span class="p">(</span><span class="n">cell_idx</span><span class="p">)</span></div>
+    <span class="n">paths</span> <span class="o">=</span> <span class="p">[(</span><span class="n">Path</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">environ</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;ProgramFiles&quot;</span><span class="p">,</span> <span class="sa">r</span><span class="s2">&quot;C:\Program Files&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">joinpath</span><span class="p">(</span><span class="s2">&quot;AnsysEM&quot;</span><span class="p">),</span> <span class="sa">r</span><span class="s2">&quot;Win64\ansysedt.exe&quot;</span><span class="p">),</span>
+             <span class="p">(</span><span class="n">Path</span><span class="p">(</span><span class="s2">&quot;/opt/AnsysEM&quot;</span><span class="p">),</span> <span class="s2">&quot;Linux64/ansysedt&quot;</span><span class="p">)]</span>
+    <span class="k">for</span> <span class="n">root</span><span class="p">,</span> <span class="n">exe</span> <span class="ow">in</span> <span class="n">paths</span><span class="p">:</span>
+        <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">isdir</span><span class="p">(</span><span class="n">root</span><span class="p">):</span>
+            <span class="n">versions</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">([</span><span class="n">f</span> <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">listdir</span><span class="p">(</span><span class="n">root</span><span class="p">)</span> <span class="k">if</span> <span class="n">f</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;v&quot;</span><span class="p">)],</span> <span class="n">reverse</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+            <span class="k">for</span> <span class="n">version</span> <span class="ow">in</span> <span class="n">versions</span><span class="p">:</span>
+                <span class="n">executable</span> <span class="o">=</span> <span class="n">root</span><span class="o">.</span><span class="n">joinpath</span><span class="p">(</span><span class="n">version</span><span class="p">)</span><span class="o">.</span><span class="n">joinpath</span><span class="p">(</span><span class="n">exe</span><span class="p">)</span>
+                <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">isfile</span><span class="p">(</span><span class="n">executable</span><span class="p">):</span>
+                    <span class="k">return</span> <span class="n">executable</span>
+    <span class="k">return</span> <span class="n">default</span></div>
 </pre></div>
 
            </div>
diff --git a/_modules/kqcircuits/util/dependencies.html b/_modules/kqcircuits/util/dependencies.html
index ac101f668..da6084cb0 100644
--- a/_modules/kqcircuits/util/dependencies.html
+++ b/_modules/kqcircuits/util/dependencies.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/util/edit_node_plugin.html b/_modules/kqcircuits/util/edit_node_plugin.html
index 11dce8afd..d4d626551 100644
--- a/_modules/kqcircuits/util/edit_node_plugin.html
+++ b/_modules/kqcircuits/util/edit_node_plugin.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/util/export_helper.html b/_modules/kqcircuits/util/export_helper.html
index b220108d2..d260586dc 100644
--- a/_modules/kqcircuits/util/export_helper.html
+++ b/_modules/kqcircuits/util/export_helper.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/geometry_helper.html b/_modules/kqcircuits/util/geometry_helper.html
index 6fffbba2f..47a03a892 100644
--- a/_modules/kqcircuits/util/geometry_helper.html
+++ b/_modules/kqcircuits/util/geometry_helper.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/geometry_json_encoder.html b/_modules/kqcircuits/util/geometry_json_encoder.html
index 0e159e23a..d71a247b2 100644
--- a/_modules/kqcircuits/util/geometry_json_encoder.html
+++ b/_modules/kqcircuits/util/geometry_json_encoder.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/groundgrid.html b/_modules/kqcircuits/util/groundgrid.html
index 4df6c2c7f..83c1b2443 100644
--- a/_modules/kqcircuits/util/groundgrid.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/gui_helper.html b/_modules/kqcircuits/util/gui_helper.html
index 8016a6f52..2202f9f28 100644
--- a/_modules/kqcircuits/util/gui_helper.html
+++ b/_modules/kqcircuits/util/gui_helper.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/import_helper.html b/_modules/kqcircuits/util/import_helper.html
index 23b52b1e2..0684a9c8e 100644
--- a/_modules/kqcircuits/util/import_helper.html
+++ b/_modules/kqcircuits/util/import_helper.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/util/label.html b/_modules/kqcircuits/util/label.html
index 8825518ec..c42a5f474 100644
--- a/_modules/kqcircuits/util/label.html
+++ b/_modules/kqcircuits/util/label.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/util/layout_to_code.html b/_modules/kqcircuits/util/layout_to_code.html
index 52290ecb7..4515d0cdc 100644
--- a/_modules/kqcircuits/util/layout_to_code.html
+++ b/_modules/kqcircuits/util/layout_to_code.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/util/library_helper.html b/_modules/kqcircuits/util/library_helper.html
index a4b44cbc9..f593c4558 100644
--- a/_modules/kqcircuits/util/library_helper.html
+++ b/_modules/kqcircuits/util/library_helper.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_modules/kqcircuits/util/log_router.html b/_modules/kqcircuits/util/log_router.html
index 2ac8f05cb..d55cde623 100644
--- a/_modules/kqcircuits/util/log_router.html
+++ b/_modules/kqcircuits/util/log_router.html
@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/merge.html b/_modules/kqcircuits/util/merge.html
index 5d3801a47..e27c307d4 100644
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/util/netlist_extraction.html b/_modules/kqcircuits/util/netlist_extraction.html
index 7232386bc..ded275642 100644
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/util/netlist_graph.html b/_modules/kqcircuits/util/netlist_graph.html
index b6843b231..0f0f9fcb8 100644
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/util/parameters.html b/_modules/kqcircuits/util/parameters.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
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diff --git a/_modules/kqcircuits/util/plugin_startup.html b/_modules/kqcircuits/util/plugin_startup.html
index 6072bc785..2a2e5aec6 100644
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -407,7 +408,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/_modules/kqcircuits/util/refpoints.html b/_modules/kqcircuits/util/refpoints.html
index 585aeec81..ace408b8c 100644
--- a/_modules/kqcircuits/util/refpoints.html
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@@ -389,6 +389,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/_modules/kqcircuits/util/replace_junctions.html b/_modules/kqcircuits/util/replace_junctions.html
new file mode 100644
index 000000000..5ef92bf80
--- /dev/null
+++ b/_modules/kqcircuits/util/replace_junctions.html
@@ -0,0 +1,939 @@
+<!DOCTYPE html>
+<html class="writer-html5" lang="en" >
+<head>
+  <meta charset="utf-8" />
+  <meta name="viewport" content="width=device-width, initial-scale=1.0" />
+  <title>kqcircuits.util.replace_junctions &mdash; KQCircuits  documentation</title>
+      <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
+      <link rel="stylesheet" href="../../../_static/css/theme.css" type="text/css" />
+      <link rel="stylesheet" href="../../../_static/graphviz.css" type="text/css" />
+      <link rel="stylesheet" href="../../../_static/css/custom.css" type="text/css" />
+    <link rel="shortcut icon" href="../../../_static/logo.svg"/>
+  <!--[if lt IE 9]>
+    <script src="../../../_static/js/html5shiv.min.js"></script>
+  <![endif]-->
+  
+        <script data-url_root="../../../" id="documentation_options" src="../../../_static/documentation_options.js"></script>
+        <script src="../../../_static/jquery.js"></script>
+        <script src="../../../_static/underscore.js"></script>
+        <script src="../../../_static/doctools.js"></script>
+    <script src="../../../_static/js/theme.js"></script>
+    <link rel="author" title="About these documents" href="../../../about.html" />
+    <link rel="index" title="Index" href="../../../genindex.html" />
+    <link rel="search" title="Search" href="../../../search.html" /> 
+</head>
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+<body class="wy-body-for-nav"> 
+  <div class="wy-grid-for-nav">
+    <nav data-toggle="wy-nav-shift" class="wy-nav-side">
+      <div class="wy-side-scroll">
+        <div class="wy-side-nav-search"  style="background: white" >
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+              <img src="../../../_static/logo-small.png" class="logo" alt="Logo"/>
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+        </div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
+              <ul>
+<li class="toctree-l1"><a class="reference internal" href="../../../installation.html">Installation</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../../installation.html#klayout">KLayout</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../installation.html#known-installation-issues">Known installation issues</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../installation.html#installing-different-python-package-versions-to-klayout-manually">Installing different Python package versions to KLayout manually</a></li>
+</ul>
+</li>
+</ul>
+</li>
+<li class="toctree-l1"><a class="reference internal" href="../../../salt.html">Getting started (Salt package)</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#installing-kqcircuits-salt-package">Installing KQCircuits Salt Package</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#first-look-around">First look around</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#setting-up-a-user-package-directory">Setting up a user package directory</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#defining-a-custom-element">Defining a custom element</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#defining-a-custom-chip">Defining a custom chip</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#upgrading-or-removing-salt-package">Upgrading or Removing Salt Package</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../salt.html#release-notes">Release Notes</a></li>
+</ul>
+</li>
+<li class="toctree-l1"><a class="reference internal" href="../../../user_guide/index.html">User Guide</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/usage.html">Usage</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/gui_features.html">GUI Features</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#useful-hotkeys">Useful hotkeys</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#introduction-to-elements">Introduction to Elements</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#placing-elements">Placing Elements</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#modifying-element-parameters">Modifying Element parameters</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#modifying-waveguides">Modifying waveguides</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#editing-waveguidecomposite-nodes">Editing WaveguideComposite Nodes</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#converting-elements-placed-in-gui-into-code">Converting elements placed in GUI into code</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/gui_features.html#useful-menu-commands">Useful Menu Commands</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/gui_workflow.html">Point-and-click workflow tutorial</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/python_workflow.html">Python workflow tutorial</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#file-system-hierarchy">File system hierarchy</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#structure-of-element-code">Structure of Element code</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#element-class"><code class="xref py py-class docutils literal notranslate"><span class="pre">Element</span></code> class</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#libraries">Libraries</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#parameters">Parameters</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#build">Build</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#example-of-defining-an-element-class">Example of defining an <code class="xref py py-class docutils literal notranslate"><span class="pre">Element</span></code> class</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#example-of-defining-a-chip-and-inserting-elements-into-it">Example of defining a Chip and inserting elements into it</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#defining-sampleholder-types">Defining sampleholder types</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#refpoints">Refpoints</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#kqcircuits-layers">KQCircuits’ Layers</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#faces">Faces</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#layer-configuration-files">Layer configuration files</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/python_workflow.html#adding-a-new-face">Adding a new face</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/python_workflow.html#opening-element-or-chip-from-an-ide">Opening <code class="xref py py-class docutils literal notranslate"><span class="pre">Element</span></code> or <code class="xref py py-class docutils literal notranslate"><span class="pre">Chip</span></code> from an IDE</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/macro_workflow.html">Macro development</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/macro_workflow.html#running-the-first-example">Running the first example</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/macro_workflow.html#interacting-with-the-klayout-application">Interacting with the KLayout application</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/macro_workflow.html#creating-a-new-panel">Creating a new panel</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/macro_workflow.html#accessing-the-currently-active-panel">Accessing the currently active panel</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/macro_workflow.html#using-klayoutview">Using <code class="docutils literal notranslate"><span class="pre">KLayoutView</span></code></a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/macro_workflow.html#debugger">Debugger</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/macro_workflow.html#reloading-libraries">Reloading libraries</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/macro_workflow.html#examples">Examples</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/mask_export.html">Mask export</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/mask_export.html#tutorial">Tutorial</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/mask_export.html#basic-mask-script-and-export">Basic mask script and export</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/mask_export.html#ground-grid">Ground grid</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/mask_export.html#adding-and-modifying-chips">Adding and modifying chips</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/mask_export.html#multi-face-masks">Multi-face masks</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/mask_export.html#composite-mask-maps">Composite mask maps</a></li>
+</ul>
+</li>
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+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/simulations.html">External simulation tools</a><ul>
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+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_objects.html#the-simulation-class">The Simulation class</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_objects.html#simulation-subclass">Simulation subclass</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_objects.html#geometry-sweeps">Geometry sweeps</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/simulation/simulation_scripts.html">Export functions</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_scripts.html#ansys-export">Ansys export</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_scripts.html#elmer-export">Elmer export</a></li>
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+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_features.html#s-parameter-matrix">S-parameter matrix</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_features.html#capacitance-matrix">Capacitance matrix</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_features.html#eigenmode">Eigenmode</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_features.html#energy-integrals-and-participation-ratio">Energy integrals and participation ratio</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_features.html#cross-sectional-simulations">Cross-sectional simulations</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../user_guide/simulation/simulation_features.html#pyepr">pyEPR</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/simulation/gmsh_elmer_export.html">Gmsh/Elmer export</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/simulation/export_and_run.html">Run and export in one line</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/simulation/elmer_remote_workflow.html">Elmer remote simulations workflow</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/file_system_and_utilities.html">General Structure and Miscellaneous Utilities</a><ul>
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+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/xsection.html">Creating cross section images</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/xsection.html#klayout-gui-xsection-tool">KLayout GUI XSection tool</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/xsection.html#xsection-call-in-kqc-code">XSection call in KQC code</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../user_guide/xsection.html#process-files-xs">Process files (.xs)</a></li>
+</ul>
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+<li class="toctree-l2"><a class="reference internal" href="../../../user_guide/terminology.html">Terminology</a></li>
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+<li class="toctree-l1"><a class="reference internal" href="../../../api/kqcircuits.html">API documentation</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../../api/kqcircuits.chips.html">kqcircuits.chips</a><ul>
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+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.airbridge_dc_test.html">kqcircuits.chips.airbridge_dc_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.chip.html">kqcircuits.chips.chip</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.crossing_twoface.html">kqcircuits.chips.crossing_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.daisy_woven.html">kqcircuits.chips.daisy_woven</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.dc_test.html">kqcircuits.chips.dc_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.demo.html">kqcircuits.chips.demo</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.demo_twoface.html">kqcircuits.chips.demo_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.empty.html">kqcircuits.chips.empty</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.junction_test.html">kqcircuits.chips.junction_test</a></li>
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+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.launchers.html">kqcircuits.chips.launchers</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.lithography_test.html">kqcircuits.chips.lithography_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.lithography_test_twoface.html">kqcircuits.chips.lithography_test_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.quality_factor.html">kqcircuits.chips.quality_factor</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.quality_factor_twoface.html">kqcircuits.chips.quality_factor_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.sample_holder_test.html">kqcircuits.chips.sample_holder_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.shaping.html">kqcircuits.chips.shaping</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.simple.html">kqcircuits.chips.simple</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.single_xmons.html">kqcircuits.chips.single_xmons</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.stripes.html">kqcircuits.chips.stripes</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.tsv_test.html">kqcircuits.chips.tsv_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.xmons_direct_coupling.html">kqcircuits.chips.xmons_direct_coupling</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.chips.html#module-kqcircuits.chips">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../../../api/kqcircuits.elements.html">kqcircuits.elements</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.airbridges.html">kqcircuits.elements.airbridges</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.airbridges.airbridge.html">kqcircuits.elements.airbridges.airbridge</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.airbridges.airbridge_multi_face.html">kqcircuits.elements.airbridges.airbridge_multi_face</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.airbridges.airbridge_rectangular.html">kqcircuits.elements.airbridges.airbridge_rectangular</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.airbridges.html#module-kqcircuits.elements.airbridges">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.flip_chip_connectors.html">kqcircuits.elements.flip_chip_connectors</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector.html">kqcircuits.elements.flip_chip_connectors.flip_chip_connector</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc.html">kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf.html">kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.flip_chip_connectors.html#module-kqcircuits.elements.flip_chip_connectors">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.fluxlines.html">kqcircuits.elements.fluxlines</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.fluxlines.fluxline.html">kqcircuits.elements.fluxlines.fluxline</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.fluxlines.fluxline_standard.html">kqcircuits.elements.fluxlines.fluxline_standard</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.fluxlines.fluxline_straight.html">kqcircuits.elements.fluxlines.fluxline_straight</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.fluxlines.html#module-kqcircuits.elements.fluxlines">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.markers.html">kqcircuits.elements.markers</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.markers.marker.html">kqcircuits.elements.markers.marker</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.markers.marker_standard.html">kqcircuits.elements.markers.marker_standard</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.markers.mask_marker_fc.html">kqcircuits.elements.markers.mask_marker_fc</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.markers.html#module-kqcircuits.elements.markers">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.tsvs.html">kqcircuits.elements.tsvs</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.tsvs.tsv.html">kqcircuits.elements.tsvs.tsv</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.tsvs.tsv_ellipse.html">kqcircuits.elements.tsvs.tsv_ellipse</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.tsvs.tsv_standard.html">kqcircuits.elements.tsvs.tsv_standard</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../../../api/kqcircuits.elements.tsvs.html#module-kqcircuits.elements.tsvs">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.airbridge_connection.html">kqcircuits.elements.airbridge_connection</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.capacitive_x_coupler.html">kqcircuits.elements.capacitive_x_coupler</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.chip_frame.html">kqcircuits.elements.chip_frame</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.circular_capacitor.html">kqcircuits.elements.circular_capacitor</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.element.html">kqcircuits.elements.element</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.finger_capacitor_square.html">kqcircuits.elements.finger_capacitor_square</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.finger_capacitor_taper.html">kqcircuits.elements.finger_capacitor_taper</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.hanger_resonator.html">kqcircuits.elements.hanger_resonator</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.launcher.html">kqcircuits.elements.launcher</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.launcher_dc.html">kqcircuits.elements.launcher_dc</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.meander.html">kqcircuits.elements.meander</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.elements.smooth_capacitor.html">kqcircuits.elements.smooth_capacitor</a></li>
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+  <h1>Source code for kqcircuits.util.replace_junctions</h1><div class="highlight"><pre>
+<span></span><span class="c1"># This code is part of KQCircuits</span>
+<span class="c1"># Copyright (C) 2024 IQM Finland Oy</span>
+<span class="c1">#</span>
+<span class="c1"># This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public</span>
+<span class="c1"># License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later</span>
+<span class="c1"># version.</span>
+<span class="c1">#</span>
+<span class="c1"># This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied</span>
+<span class="c1"># warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.</span>
+<span class="c1">#</span>
+<span class="c1"># You should have received a copy of the GNU General Public License along with this program. If not, see</span>
+<span class="c1"># https://www.gnu.org/licenses/gpl-3.0.html.</span>
+<span class="c1">#</span>
+<span class="c1"># The software distribution should follow IQM trademark policy for open-source software</span>
+<span class="c1"># (meetiqm.com/developers/osstmpolicy). IQM welcomes contributions to the code. Please see our contribution agreements</span>
+<span class="c1"># for individuals (meetiqm.com/developers/clas/individual) and organizations (meetiqm.com/developers/clas/organization).</span>
+
+<span class="sd">&quot;&quot;&quot;</span>
+<span class="sd">Functions to tune and replace junctions in existing design files.</span>
+
+<span class="sd">See scripts/macros/export/export_tuned_junctions.lym for a use case of these functions</span>
+<span class="sd">&quot;&quot;&quot;</span>
+
+<span class="kn">from</span> <span class="nn">os</span> <span class="kn">import</span> <span class="n">path</span>
+<span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Dict</span><span class="p">,</span> <span class="n">List</span>
+<span class="kn">import</span> <span class="nn">logging</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.pya_resolver</span> <span class="kn">import</span> <span class="n">pya</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.junctions</span> <span class="kn">import</span> <span class="n">junction_type_choices</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.junctions.junction</span> <span class="kn">import</span> <span class="n">Junction</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.chips.chip</span> <span class="kn">import</span> <span class="n">Chip</span>
+<span class="kn">from</span> <span class="nn">kqcircuits.util.library_helper</span> <span class="kn">import</span> <span class="n">load_libraries</span><span class="p">,</span> <span class="n">to_library_name</span>
+
+
+<div class="viewcode-block" id="JunctionEntry"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.JunctionEntry">[docs]</a><span class="k">class</span> <span class="nc">JunctionEntry</span><span class="p">:</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;All junction properties we want to store when extracting junctions&quot;&quot;&quot;</span>
+    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">class_type</span><span class="p">:</span> <span class="nb">type</span><span class="p">,</span> <span class="n">trans</span><span class="p">:</span> <span class="n">pya</span><span class="o">.</span><span class="n">DCplxTrans</span><span class="p">,</span> <span class="n">parameters</span><span class="p">:</span> <span class="n">Dict</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">name</span><span class="p">:</span> <span class="nb">str</span><span class="p">)</span> <span class="o">-&gt;</span> <span class="kc">None</span><span class="p">:</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">type</span> <span class="o">=</span> <span class="n">class_type</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">trans</span> <span class="o">=</span> <span class="n">trans</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">parameters</span> <span class="o">=</span> <span class="n">parameters</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">parent_name</span> <span class="o">=</span> <span class="n">parent_name</span>
+        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
+    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">__value</span><span class="p">:</span> <span class="nb">object</span><span class="p">)</span> <span class="o">-&gt;</span> <span class="nb">bool</span><span class="p">:</span>
+        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">type</span> <span class="o">==</span> <span class="n">__value</span><span class="o">.</span><span class="n">type</span> <span class="ow">and</span> \
+            <span class="bp">self</span><span class="o">.</span><span class="n">trans</span> <span class="o">==</span> <span class="n">__value</span><span class="o">.</span><span class="n">trans</span> <span class="ow">and</span> \
+            <span class="bp">self</span><span class="o">.</span><span class="n">parameters</span> <span class="o">==</span> <span class="n">__value</span><span class="o">.</span><span class="n">parameters</span> <span class="ow">and</span> \
+            <span class="bp">self</span><span class="o">.</span><span class="n">parent_name</span> <span class="o">==</span> <span class="n">__value</span><span class="o">.</span><span class="n">parent_name</span> <span class="ow">and</span> \
+            <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">==</span> <span class="n">__value</span><span class="o">.</span><span class="n">name</span></div>
+
+<span class="k">def</span> <span class="nf">_check_junction_names_unique</span><span class="p">(</span><span class="n">junctions</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Raises exception if ``junctions`` contains a non-unique (parent_name, name) key-pair&quot;&quot;&quot;</span>
+    <span class="n">unique_names</span> <span class="o">=</span> <span class="nb">set</span><span class="p">()</span>
+    <span class="k">for</span> <span class="n">junction</span> <span class="ow">in</span> <span class="n">junctions</span><span class="p">:</span>
+        <span class="k">if</span> <span class="p">(</span><span class="n">junction</span><span class="o">.</span><span class="n">parent_name</span><span class="p">,</span> <span class="n">junction</span><span class="o">.</span><span class="n">name</span><span class="p">)</span> <span class="ow">in</span> <span class="n">unique_names</span><span class="p">:</span>
+            <span class="n">error_text</span> <span class="o">=</span> <span class="p">(</span><span class="s2">&quot;Following cell parent name and child name is not unique in top cell: &quot;</span>
+                        <span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="p">(</span><span class="n">junction</span><span class="o">.</span><span class="n">parent_name</span><span class="p">,</span><span class="w"> </span><span class="n">junction</span><span class="o">.</span><span class="n">name</span><span class="p">)</span><span class="si">}</span><span class="s2">. &quot;</span>
+                        <span class="s2">&quot;Something seems to be wrong with KQC generated cell&quot;</span><span class="p">)</span>
+            <span class="n">error</span> <span class="o">=</span> <span class="ne">ValueError</span><span class="p">(</span><span class="n">error_text</span><span class="p">)</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="n">error_text</span><span class="p">,</span> <span class="n">exc_info</span><span class="o">=</span><span class="n">error</span><span class="p">)</span>
+            <span class="k">raise</span> <span class="n">error</span>
+        <span class="n">unique_names</span><span class="o">.</span><span class="n">add</span><span class="p">((</span><span class="n">junction</span><span class="o">.</span><span class="n">parent_name</span><span class="p">,</span> <span class="n">junction</span><span class="o">.</span><span class="n">name</span><span class="p">))</span>
+
+<span class="k">def</span> <span class="nf">_check_missing_junction_parameters</span><span class="p">(</span><span class="n">junction_class_name</span><span class="p">,</span> <span class="n">junction_schema_errors</span><span class="p">,</span>
+                                       <span class="n">params</span><span class="p">,</span> <span class="n">tuned_params</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Run for every found junction to compare junction library schema (`params`)</span>
+<span class="sd">    and schema as given in json file (`tuned_params`).</span>
+
+<span class="sd">    If some parameter keys are missing in `tuned_params`, stores missing keys in mutable `junction_schema_errors`.</span>
+<span class="sd">    `junction_schema_errors` is a dict that has junction class as keys, and as values</span>
+<span class="sd">    a tuple &quot;missing_fields&quot; with set of missing parameter keys and a list for junction names.</span>
+
+<span class="sd">    Note that some parameter keys are ignored.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="n">ignore_param_keys</span> <span class="o">=</span> <span class="p">{</span><span class="s2">&quot;_junction_parameters&quot;</span><span class="p">,</span> <span class="s2">&quot;junction_parameters&quot;</span><span class="p">,</span> <span class="s2">&quot;display_name&quot;</span><span class="p">}</span>
+    <span class="k">if</span> <span class="n">junction_class_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">junction_schema_errors</span><span class="p">:</span>
+        <span class="n">junction_schema_errors</span><span class="p">[</span><span class="n">junction_class_name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
+            <span class="s2">&quot;missing_fields&quot;</span><span class="p">:</span> <span class="p">(</span><span class="nb">set</span><span class="p">(),</span> <span class="p">[]),</span> <span class="s2">&quot;surplus_fields&quot;</span><span class="p">:</span> <span class="p">(</span><span class="nb">set</span><span class="p">(),</span> <span class="p">[])</span>
+        <span class="p">}</span>
+    <span class="n">missing_fields</span> <span class="o">=</span> <span class="nb">set</span><span class="p">(</span><span class="n">params</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="o">.</span><span class="n">difference</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">tuned_params</span><span class="o">.</span><span class="n">keys</span><span class="p">()))</span><span class="o">.</span><span class="n">difference</span><span class="p">(</span><span class="n">ignore_param_keys</span><span class="p">)</span>
+    <span class="n">junction_schema_errors</span><span class="p">[</span><span class="n">junction_class_name</span><span class="p">][</span><span class="s2">&quot;missing_fields&quot;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">update</span><span class="p">(</span><span class="n">missing_fields</span><span class="p">)</span>
+    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">missing_fields</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+        <span class="n">junction_schema_errors</span><span class="p">[</span><span class="n">junction_class_name</span><span class="p">][</span><span class="s2">&quot;missing_fields&quot;</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
+
+<span class="k">def</span> <span class="nf">_check_surplus_junction_parameters</span><span class="p">(</span><span class="n">junction_class_name</span><span class="p">,</span> <span class="n">junction_schema_errors</span><span class="p">,</span>
+                                       <span class="n">params</span><span class="p">,</span> <span class="n">tuned_params</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Run for every found junction to compare junction library schema (`params`)</span>
+<span class="sd">    and schema as given in json file (`tuned_params`).</span>
+
+<span class="sd">    If some parameter keys are in `tuned_params` but not in `params`,</span>
+<span class="sd">    stores missing keys in mutable `junction_schema_errors`.</span>
+<span class="sd">    `junction_schema_errors` is a dict that has junction class as keys, and as values</span>
+<span class="sd">    a tuple &quot;surplus_fields&quot; with set of surplus parameter keys and a list for junction names.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="k">if</span> <span class="n">junction_class_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">junction_schema_errors</span><span class="p">:</span>
+        <span class="n">junction_schema_errors</span><span class="p">[</span><span class="n">junction_class_name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
+            <span class="s2">&quot;missing_fields&quot;</span><span class="p">:</span> <span class="p">(</span><span class="nb">set</span><span class="p">(),</span> <span class="p">[]),</span> <span class="s2">&quot;surplus_fields&quot;</span><span class="p">:</span> <span class="p">(</span><span class="nb">set</span><span class="p">(),</span> <span class="p">[])</span>
+        <span class="p">}</span>
+    <span class="n">surplus_fields</span> <span class="o">=</span> <span class="nb">set</span><span class="p">(</span><span class="n">tuned_params</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="o">.</span><span class="n">difference</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">params</span><span class="o">.</span><span class="n">keys</span><span class="p">()))</span>
+    <span class="n">junction_schema_errors</span><span class="p">[</span><span class="n">junction_class_name</span><span class="p">][</span><span class="s2">&quot;surplus_fields&quot;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">update</span><span class="p">(</span><span class="n">surplus_fields</span><span class="p">)</span>
+    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">surplus_fields</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+        <span class="n">junction_schema_errors</span><span class="p">[</span><span class="n">junction_class_name</span><span class="p">][</span><span class="s2">&quot;surplus_fields&quot;</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
+
+<span class="k">def</span> <span class="nf">_print_surplus_junction_parameters</span><span class="p">(</span><span class="n">junction_schema_errors</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Logs as warning the content of &quot;surplus_fields&quot; in `junction_schema_errors`</span>
+<span class="sd">    junction parameters that were attempted to be tuned,</span>
+<span class="sd">    yet were not defined for the given junction types.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="k">for</span> <span class="n">k</span><span class="p">,</span><span class="n">v</span> <span class="ow">in</span> <span class="n">junction_schema_errors</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+        <span class="n">surplus_fields</span><span class="p">,</span> <span class="n">junctions</span> <span class="o">=</span> <span class="n">v</span><span class="p">[</span><span class="s2">&quot;surplus_fields&quot;</span><span class="p">]</span>
+        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">surplus_fields</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">((</span><span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">k</span><span class="si">}</span><span class="s2"> class junction attempted to be tuned with parameters &quot;</span>
+                             <span class="sa">f</span><span class="s2">&quot;that are not part of the class: </span><span class="si">{</span><span class="n">surplus_fields</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">))</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;for </span><span class="si">{</span><span class="n">junctions</span><span class="p">[:</span><span class="mi">5</span><span class="p">]</span><span class="si">}</span><span class="se">\n</span><span class="s2">&quot;</span><span class="p">)</span>
+
+<span class="k">def</span> <span class="nf">_halt_if_missing_junction_parameters</span><span class="p">(</span><span class="n">junction_schema_errors</span><span class="p">,</span> <span class="n">is_pcell</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Raises exception if &quot;missing_fields&quot; for some entry in `junction_schema_errors` is not empty,</span>
+<span class="sd">    formats an error message to show all missing parameter keys detected for each junction type</span>
+<span class="sd">    and names the affected junctions.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="n">error_text</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+    <span class="k">for</span> <span class="n">k</span><span class="p">,</span><span class="n">v</span> <span class="ow">in</span> <span class="n">junction_schema_errors</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+        <span class="n">missing_fields</span><span class="p">,</span> <span class="n">junctions</span> <span class="o">=</span> <span class="n">v</span><span class="p">[</span><span class="s2">&quot;missing_fields&quot;</span><span class="p">]</span>
+        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">missing_fields</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+            <span class="n">error_text</span> <span class="o">=</span> <span class="p">(</span><span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">error_text</span><span class="si">}</span><span class="s2">&quot;</span>
+                          <span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">k</span><span class="si">}</span><span class="s2"> class junction parameters missing </span><span class="si">{</span><span class="n">missing_fields</span><span class="si">}</span><span class="se">\n</span><span class="s2">&quot;</span>
+                          <span class="sa">f</span><span class="s2">&quot;missing for </span><span class="si">{</span><span class="n">junctions</span><span class="p">[:</span><span class="mi">5</span><span class="p">]</span><span class="si">}</span><span class="se">\n\n</span><span class="s2">&quot;</span><span class="p">)</span>
+    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">error_text</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+        <span class="k">if</span> <span class="n">is_pcell</span><span class="p">:</span>
+            <span class="n">error_text</span> <span class="o">=</span> <span class="p">(</span><span class="s2">&quot;Since junction type was changed for some junctions, &quot;</span>
+                        <span class="s2">&quot;the tuned junction json should give value at least for parameters &quot;</span>
+                        <span class="s2">&quot;that are in new junction type but not in old junction type.</span><span class="se">\n</span><span class="s2">&quot;</span>
+                        <span class="sa">f</span><span class="s2">&quot;Following junction parameters missing:</span><span class="se">\n\n</span><span class="si">{</span><span class="n">error_text</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">)</span>
+        <span class="k">else</span><span class="p">:</span>
+            <span class="n">error_text</span> <span class="o">=</span> <span class="p">(</span><span class="s2">&quot;Since the cell doesn&#39;t contain pre-existing PCell parameter data, &quot;</span>
+                        <span class="s2">&quot;the tuned junction json should be exhaustive.</span><span class="se">\n</span><span class="s2">&quot;</span>
+                        <span class="sa">f</span><span class="s2">&quot;Following junction parameters missing:</span><span class="se">\n\n</span><span class="si">{</span><span class="n">error_text</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">)</span>
+        <span class="n">error</span> <span class="o">=</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;Some junction parameters were missing in the tuning json, see log for details&quot;</span><span class="p">)</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="n">error_text</span><span class="p">,</span> <span class="n">exc_info</span><span class="o">=</span><span class="n">error</span><span class="p">)</span>
+        <span class="k">raise</span> <span class="n">error</span>
+
+<div class="viewcode-block" id="extract_junctions"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.extract_junctions">[docs]</a><span class="k">def</span> <span class="nf">extract_junctions</span><span class="p">(</span><span class="n">top_cell</span><span class="p">:</span> <span class="n">pya</span><span class="o">.</span><span class="n">Cell</span><span class="p">,</span> <span class="n">tuned_junction_parameters</span><span class="p">:</span> <span class="n">Dict</span><span class="p">)</span> <span class="o">-&gt;</span> <span class="n">List</span><span class="p">[</span><span class="n">JunctionEntry</span><span class="p">]:</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Extracts all junction elements placed in the `top_cell`.</span>
+<span class="sd">    Junction parameters are tuned according to `tuned_junction_parameters` dict.</span>
+
+<span class="sd">    `tuned_junction_parameters` is a dict with junction&#39;s parent cell name as key,</span>
+<span class="sd">    where parent cell is an element that contains the junction, e.g. &quot;QB1&quot;, &quot;testarray_nw&quot; etc.</span>
+<span class="sd">    The value is also a dict, with junction cell&#39;s name as key, e.g &quot;squid&quot;, &quot;squid_0&quot;, &quot;squid_3&quot; etc.</span>
+<span class="sd">    For example testarray cells may have multiple junction cells.</span>
+<span class="sd">    Then `tuned_junction_parameters[parent_name][name]` is a dict of junction parameters.</span>
+
+<span class="sd">    If `top_cell` has pcell data, the parameter values that are missing in `tuned_junction_parameters`</span>
+<span class="sd">    can be inferred from the Junction PCell&#39;s values. So `tuned_junction_parameters` may only contain</span>
+<span class="sd">    parameter values that are different from how junctions were defined in `top_cell`.</span>
+
+<span class="sd">    If `top_cell` has no pcell data, `tuned_junction_parameters` must include all parameter keys</span>
+<span class="sd">    of the junction parameter schema for each junction contained in the `top_cell`,</span>
+<span class="sd">    even if the parameter values are the same as were used to construct `top_cell`.</span>
+<span class="sd">    If that is not the case, `extract_junctions` will raise an exception.</span>
+
+<span class="sd">    Returns a list of `JunctionEntry` objects that can be used to place the extracted junctions</span>
+<span class="sd">    into another cell that has tuned parameters but is otherwise identical in shape, placement and orientation.</span>
+
+<span class="sd">    Junction type may also be changed, if `junction_type` is tuned to have some other junction class name.</span>
+<span class="sd">    For every junction that has its `junction_type` changed, even if the cell contains PCell data,</span>
+<span class="sd">    `tuned_junction_parameters` should have at least all parameters present that are in the new junction type</span>
+<span class="sd">    but not in the old junction type.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="n">junction_schema_errors</span> <span class="o">=</span> <span class="p">{}</span>
+    <span class="n">found_junctions</span> <span class="o">=</span> <span class="p">[]</span>
+    <span class="n">library_layout</span> <span class="o">=</span> <span class="p">(</span><span class="n">load_libraries</span><span class="p">(</span><span class="n">path</span><span class="o">=</span><span class="n">Junction</span><span class="o">.</span><span class="n">LIBRARY_PATH</span><span class="p">)[</span><span class="n">Junction</span><span class="o">.</span><span class="n">LIBRARY_NAME</span><span class="p">])</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+    <span class="n">layout</span> <span class="o">=</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+    <span class="n">is_pcell</span> <span class="o">=</span> <span class="kc">False</span>
+    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+        <span class="k">if</span> <span class="n">i</span><span class="o">.</span><span class="n">pcell_declaration</span><span class="p">()</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+            <span class="n">is_pcell</span> <span class="o">=</span> <span class="kc">True</span>
+            <span class="k">break</span>
+    <span class="k">if</span> <span class="ow">not</span> <span class="n">is_pcell</span><span class="p">:</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="s2">&quot;Top cell doesn&#39;t contain PCell parameter data&quot;</span><span class="p">)</span>
+
+    <span class="k">def</span> <span class="nf">recursive_junction_search</span><span class="p">(</span><span class="n">inst</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">prev_trans</span><span class="p">):</span>
+        <span class="n">cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">)</span>
+        <span class="n">name</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s1">&#39;id&#39;</span><span class="p">)</span>
+        <span class="n">trans</span> <span class="o">=</span> <span class="n">prev_trans</span> <span class="o">*</span> <span class="n">inst</span><span class="o">.</span><span class="n">dcplx_trans</span>
+        <span class="n">tuned_params</span> <span class="o">=</span> <span class="n">tuned_junction_parameters</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">parent_name</span><span class="p">,</span> <span class="p">{})</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="p">{})</span>
+        <span class="k">if</span> <span class="n">is_pcell</span><span class="p">:</span>
+            <span class="n">pcell</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">pcell_declaration</span><span class="p">()</span>
+            <span class="n">is_junction</span> <span class="o">=</span> <span class="p">(</span><span class="n">pcell</span> <span class="ow">and</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">pcell</span><span class="p">,</span> <span class="n">Junction</span><span class="p">))</span>
+        <span class="k">else</span><span class="p">:</span>
+            <span class="n">cell_class_from_name</span> <span class="o">=</span> <span class="n">cell</span><span class="o">.</span><span class="n">name</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;$&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;*&#39;</span><span class="p">,</span> <span class="s1">&#39; &#39;</span><span class="p">)</span>
+            <span class="n">pcell</span> <span class="o">=</span> <span class="n">library_layout</span><span class="o">.</span><span class="n">pcell_declaration</span><span class="p">(</span><span class="n">cell_class_from_name</span><span class="p">)</span>
+            <span class="n">is_junction</span> <span class="o">=</span> <span class="n">cell_class_from_name</span> <span class="ow">in</span> <span class="n">junction_type_choices</span>
+        <span class="k">if</span> <span class="n">is_junction</span><span class="p">:</span>
+            <span class="k">if</span> <span class="n">is_pcell</span><span class="p">:</span>
+                <span class="c1"># Parameter values present in PCell data can be reused</span>
+                <span class="n">pcell_param_values</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">pcell_parameters_by_name</span><span class="p">()</span>
+            <span class="n">junction_type</span> <span class="o">=</span> <span class="n">tuned_params</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;junction_type&quot;</span><span class="p">)</span>
+            <span class="k">if</span> <span class="n">junction_type</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">junction_type_choices</span> <span class="ow">and</span> <span class="ow">not</span> <span class="p">(</span><span class="n">is_pcell</span> <span class="ow">and</span> <span class="s2">&quot;junction_type&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">tuned_params</span><span class="p">):</span>
+                <span class="n">error_text</span> <span class="o">=</span> <span class="p">(</span><span class="sa">f</span><span class="s2">&quot;&#39;junction_type&#39; value </span><span class="si">{</span><span class="n">junction_type</span><span class="si">}</span><span class="s2"> for junction &quot;</span>
+                              <span class="sa">f</span><span class="s2">&quot;(</span><span class="si">{</span><span class="n">parent_name</span><span class="si">}</span><span class="s2">, </span><span class="si">{</span><span class="n">name</span><span class="si">}</span><span class="s2">) is not part of junction_type_choices&quot;</span><span class="p">)</span>
+                <span class="n">error</span> <span class="o">=</span> <span class="ne">ValueError</span><span class="p">(</span><span class="n">error_text</span><span class="p">)</span>
+                <span class="n">logging</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="n">error_text</span><span class="p">,</span> <span class="n">exc_info</span><span class="o">=</span><span class="n">error</span><span class="p">)</span>
+                <span class="k">raise</span> <span class="n">error</span>
+            <span class="k">if</span> <span class="ow">not</span> <span class="n">junction_type</span> <span class="ow">and</span> <span class="n">is_pcell</span><span class="p">:</span>
+                <span class="n">junction_type</span> <span class="o">=</span> <span class="n">pcell_param_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;junction_type&quot;</span><span class="p">)</span>
+            <span class="n">junction_type</span> <span class="o">=</span> <span class="n">library_layout</span><span class="o">.</span><span class="n">pcell_declaration</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span>
+            <span class="n">params</span> <span class="o">=</span> <span class="p">{</span>
+                <span class="c1"># If PCell is available, get PCell parameter values that are available</span>
+                <span class="n">k</span><span class="p">:</span> <span class="n">v</span><span class="o">.</span><span class="n">default</span> <span class="k">if</span> <span class="ow">not</span> <span class="n">is_pcell</span> <span class="k">else</span> <span class="n">pcell_param_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">k</span><span class="p">,</span> <span class="n">v</span><span class="o">.</span><span class="n">default</span><span class="p">)</span>
+                <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="nb">type</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="o">.</span><span class="n">get_schema</span><span class="p">()</span><span class="o">.</span><span class="n">items</span><span class="p">()</span>
+            <span class="p">}</span>
+            <span class="n">params</span><span class="o">.</span><span class="n">update</span><span class="p">(</span><span class="n">tuned_params</span><span class="p">)</span>
+            <span class="c1"># Not PCell, need to be strict that tuned junction params json includes all params</span>
+            <span class="k">if</span> <span class="ow">not</span> <span class="n">is_pcell</span><span class="p">:</span>
+                <span class="n">_check_missing_junction_parameters</span><span class="p">(</span><span class="nb">type</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="o">.</span><span class="vm">__name__</span><span class="p">,</span>
+                                                   <span class="n">junction_schema_errors</span><span class="p">,</span>
+                                                   <span class="n">params</span><span class="p">,</span> <span class="n">tuned_params</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">)</span>
+            <span class="c1"># Is PCell, and junction type is being changed. Need to make sure params exclusive to new type are tuned</span>
+            <span class="k">elif</span> <span class="n">junction_type</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="n">junction_type</span> <span class="o">!=</span> <span class="n">pcell</span><span class="p">:</span>
+                <span class="n">exclusive_params</span> <span class="o">=</span> <span class="p">{</span><span class="n">k</span><span class="p">:</span><span class="n">v</span> <span class="k">for</span> <span class="n">k</span><span class="p">,</span><span class="n">v</span> <span class="ow">in</span> <span class="n">params</span><span class="o">.</span><span class="n">items</span><span class="p">()</span> <span class="k">if</span> <span class="n">k</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">pcell_param_values</span><span class="p">}</span>
+                <span class="n">_check_missing_junction_parameters</span><span class="p">(</span><span class="nb">type</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="o">.</span><span class="vm">__name__</span><span class="p">,</span>
+                                                   <span class="n">junction_schema_errors</span><span class="p">,</span>
+                                                   <span class="n">exclusive_params</span><span class="p">,</span> <span class="n">tuned_params</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">)</span>
+            <span class="n">_check_surplus_junction_parameters</span><span class="p">(</span><span class="nb">type</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="o">.</span><span class="vm">__name__</span><span class="p">,</span> <span class="n">junction_schema_errors</span><span class="p">,</span>
+                                               <span class="nb">type</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="o">.</span><span class="n">get_schema</span><span class="p">(),</span> <span class="n">tuned_params</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">)</span>
+            <span class="n">found_junctions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">JunctionEntry</span><span class="p">(</span><span class="nb">type</span><span class="p">(</span><span class="n">junction_type</span><span class="p">),</span> <span class="n">trans</span><span class="p">,</span> <span class="n">params</span><span class="p">,</span> <span class="n">parent_name</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
+        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+            <span class="c1"># For pcell oas, accumulate transformation starting from root</span>
+            <span class="c1"># For static oas, only use parent.dcplx_trans * this.dcplx_trans</span>
+            <span class="n">recursive_junction_search</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">trans</span> <span class="k">if</span> <span class="n">is_pcell</span> <span class="k">else</span> <span class="n">prev_trans</span><span class="p">)</span>
+
+    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+        <span class="n">recursive_junction_search</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="kc">None</span><span class="p">,</span> <span class="n">i</span><span class="o">.</span><span class="n">dcplx_trans</span><span class="p">)</span>
+    <span class="n">_check_junction_names_unique</span><span class="p">(</span><span class="n">found_junctions</span><span class="p">)</span>
+    <span class="n">_print_surplus_junction_parameters</span><span class="p">(</span><span class="n">junction_schema_errors</span><span class="p">)</span>
+    <span class="n">_halt_if_missing_junction_parameters</span><span class="p">(</span><span class="n">junction_schema_errors</span><span class="p">,</span> <span class="n">is_pcell</span><span class="p">)</span>
+    <span class="k">return</span> <span class="n">found_junctions</span></div>
+
+<div class="viewcode-block" id="place_junctions"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.place_junctions">[docs]</a><span class="k">def</span> <span class="nf">place_junctions</span><span class="p">(</span><span class="n">top_cell</span><span class="p">:</span> <span class="n">pya</span><span class="o">.</span><span class="n">Cell</span><span class="p">,</span> <span class="n">junctions</span><span class="p">:</span> <span class="n">List</span><span class="p">[</span><span class="n">JunctionEntry</span><span class="p">])</span> <span class="o">-&gt;</span> <span class="kc">None</span><span class="p">:</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Places `junctions` to `top_cell` in the same location and orientation as in</span>
+<span class="sd">    the cell they were extracted from, but with possibly tuned parameters.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="n">layout</span> <span class="o">=</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+    <span class="k">for</span> <span class="n">junction</span> <span class="ow">in</span> <span class="n">junctions</span><span class="p">:</span>
+        <span class="k">if</span> <span class="s1">&#39;junction_type&#39;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">junction</span><span class="o">.</span><span class="n">parameters</span><span class="p">:</span>
+            <span class="n">junction</span><span class="o">.</span><span class="n">parameters</span><span class="p">[</span><span class="s1">&#39;junction_type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">to_library_name</span><span class="p">(</span><span class="n">junction</span><span class="o">.</span><span class="n">type</span><span class="o">.</span><span class="vm">__name__</span><span class="p">)</span>
+        <span class="k">if</span> <span class="n">to_library_name</span><span class="p">(</span><span class="n">junction</span><span class="o">.</span><span class="n">type</span><span class="o">.</span><span class="vm">__name__</span><span class="p">)</span> <span class="o">!=</span> <span class="n">junction</span><span class="o">.</span><span class="n">parameters</span><span class="p">[</span><span class="s1">&#39;junction_type&#39;</span><span class="p">]:</span>
+            <span class="n">error_text</span> <span class="o">=</span> <span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Exported junction of class &#39;</span><span class="si">{</span><span class="n">to_library_name</span><span class="p">(</span><span class="n">junction</span><span class="o">.</span><span class="n">type</span><span class="o">.</span><span class="vm">__name__</span><span class="p">)</span><span class="si">}</span><span class="s2">&#39;, &quot;</span>
+                          <span class="sa">f</span><span class="s2">&quot;but &#39;junction_type&#39; parameter was set to </span><span class="si">{</span><span class="n">junction</span><span class="o">.</span><span class="n">parameters</span><span class="p">[</span><span class="s1">&#39;junction_type&#39;</span><span class="p">]</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">)</span>
+            <span class="n">error</span> <span class="o">=</span> <span class="ne">ValueError</span><span class="p">(</span><span class="n">error_text</span><span class="p">)</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="n">error_text</span><span class="p">,</span> <span class="n">exc_info</span><span class="o">=</span><span class="n">error</span><span class="p">)</span>
+            <span class="k">raise</span> <span class="n">error</span>
+        <span class="n">junction_cell</span> <span class="o">=</span> <span class="n">Junction</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">layout</span><span class="p">,</span> <span class="o">**</span><span class="n">junction</span><span class="o">.</span><span class="n">parameters</span><span class="p">)</span>
+        <span class="n">top_cell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">junction_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">junction</span><span class="o">.</span><span class="n">trans</span><span class="p">))</span></div>
+
+<div class="viewcode-block" id="get_tuned_junction_json"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.get_tuned_junction_json">[docs]</a><span class="k">def</span> <span class="nf">get_tuned_junction_json</span><span class="p">(</span><span class="n">junctions</span><span class="p">:</span> <span class="n">List</span><span class="p">[</span><span class="n">JunctionEntry</span><span class="p">])</span> <span class="o">-&gt;</span> <span class="n">Dict</span><span class="p">:</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Returns a jsonable dict of all junction parameters for each junction entry in `junctions`.</span>
+
+<span class="sd">    If junctions were extracted from a cell with pcell data, the json can be extracted to</span>
+<span class="sd">    have an exhaustive list of all junction parameters so that junctions can then be tuned</span>
+<span class="sd">    using a cell with no pcell data, which is faster to read.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
+    <span class="k">for</span> <span class="n">junction</span> <span class="ow">in</span> <span class="n">junctions</span><span class="p">:</span>
+        <span class="k">if</span> <span class="n">junction</span><span class="o">.</span><span class="n">parent_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">result</span><span class="p">:</span>
+            <span class="n">result</span><span class="p">[</span><span class="n">junction</span><span class="o">.</span><span class="n">parent_name</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+        <span class="n">result</span><span class="p">[</span><span class="n">junction</span><span class="o">.</span><span class="n">parent_name</span><span class="p">][</span><span class="n">junction</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">junction</span><span class="o">.</span><span class="n">parameters</span>
+    <span class="k">return</span> <span class="n">result</span></div>
+
+<div class="viewcode-block" id="copy_one_layer_of_cell"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.copy_one_layer_of_cell">[docs]</a><span class="k">def</span> <span class="nf">copy_one_layer_of_cell</span><span class="p">(</span><span class="n">write_path</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">top_cell</span><span class="p">:</span> <span class="n">pya</span><span class="o">.</span><span class="n">Cell</span><span class="p">,</span> <span class="n">junctions</span><span class="p">:</span> <span class="n">List</span><span class="p">[</span><span class="n">JunctionEntry</span><span class="p">],</span> <span class="n">layer_string</span><span class="p">:</span> <span class="nb">str</span>
+                           <span class="p">)</span> <span class="o">-&gt;</span> <span class="kc">None</span><span class="p">:</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;Extracts all geometry in `top_cell` at layer `layer_string`</span>
+<span class="sd">    and saves the geometry into a new file at `write_path`.</span>
+<span class="sd">    The face of the layer is determined from `junctions` parameters.</span>
+
+<span class="sd">    This can be used to extract geometry of alignment markers as well as other geometry</span>
+<span class="sd">    to visualize junctions within a context of surrounding elements.</span>
+<span class="sd">    The file at `write_path` may be loaded later and junctions may be placed using</span>
+<span class="sd">    `place_junctions` into the top cell of the file, then saved again.</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="c1"># TODO: Assuming face of the junction determined by first element of &#39;face_ids&#39;.</span>
+    <span class="c1"># Reconsider once multiface junctions are introduced.</span>
+    <span class="n">faces_set</span> <span class="o">=</span> <span class="p">{</span><span class="n">j</span><span class="o">.</span><span class="n">parameters</span><span class="p">[</span><span class="s2">&quot;face_ids&quot;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="n">junctions</span><span class="p">}</span>
+    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">faces_set</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+        <span class="n">error_text</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;Detected inconsistent junction face assignments </span><span class="si">{</span><span class="n">faces_set</span><span class="si">}</span><span class="s2">&quot;</span>
+        <span class="n">error</span> <span class="o">=</span> <span class="ne">ValueError</span><span class="p">(</span><span class="n">error_text</span><span class="p">)</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="n">error_text</span><span class="p">,</span> <span class="n">exc_info</span><span class="o">=</span><span class="n">error</span><span class="p">)</span>
+        <span class="k">raise</span> <span class="n">error</span>
+    <span class="n">face</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">faces_set</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+    <span class="n">layout</span> <span class="o">=</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+    <span class="n">layers</span> <span class="o">=</span> <span class="p">[</span><span class="n">l</span> <span class="k">for</span> <span class="n">l</span> <span class="ow">in</span> <span class="n">layout</span><span class="o">.</span><span class="n">layer_infos</span><span class="p">()</span> <span class="k">if</span> <span class="n">l</span><span class="o">.</span><span class="n">name</span> <span class="o">==</span> <span class="p">(</span><span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">face</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">layer_string</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">)]</span>
+    <span class="k">if</span> <span class="ow">not</span> <span class="n">layers</span><span class="p">:</span>
+        <span class="n">error_text</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;Layer not found &#39;</span><span class="si">{</span><span class="n">face</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">layer_string</span><span class="si">}</span><span class="s2">&#39;&quot;</span>
+        <span class="n">error</span> <span class="o">=</span> <span class="ne">ValueError</span><span class="p">(</span><span class="n">error_text</span><span class="p">)</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="n">error_text</span><span class="p">,</span> <span class="n">exc_info</span><span class="o">=</span><span class="n">error</span><span class="p">)</span>
+        <span class="k">raise</span> <span class="n">error</span>
+    <span class="n">layer</span> <span class="o">=</span> <span class="n">layers</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+
+    <span class="n">svopt</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">SaveLayoutOptions</span><span class="p">()</span>
+    <span class="n">svopt</span><span class="o">.</span><span class="n">set_format_from_filename</span><span class="p">(</span><span class="n">write_path</span><span class="p">)</span>
+    <span class="n">svopt</span><span class="o">.</span><span class="n">deselect_all_layers</span><span class="p">()</span>
+    <span class="n">svopt</span><span class="o">.</span><span class="n">clear_cells</span><span class="p">()</span>
+    <span class="n">svopt</span><span class="o">.</span><span class="n">add_cell</span><span class="p">(</span><span class="n">top_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">())</span>
+    <span class="n">svopt</span><span class="o">.</span><span class="n">add_layer</span><span class="p">(</span><span class="n">layout</span><span class="o">.</span><span class="n">layer</span><span class="p">(</span><span class="n">layer</span><span class="p">),</span> <span class="n">layer</span><span class="p">)</span>
+    <span class="n">svopt</span><span class="o">.</span><span class="n">write_context_info</span> <span class="o">=</span> <span class="kc">False</span>
+    <span class="n">layout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">write_path</span><span class="p">,</span> <span class="n">svopt</span><span class="p">)</span></div>
+
+<div class="viewcode-block" id="replace_squids"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.replace_squids">[docs]</a><span class="k">def</span> <span class="nf">replace_squids</span><span class="p">(</span><span class="n">cell</span><span class="p">,</span> <span class="n">junction_type</span><span class="p">,</span> <span class="n">parameter_name</span><span class="p">,</span> <span class="n">parameter_start</span><span class="p">,</span> <span class="n">parameter_step</span><span class="p">,</span> <span class="n">parameter_end</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;DEPRECATED! Replaces squids by code generated squids with the given parameter sweep.</span>
+
+<span class="sd">    All squids below top_cell in the cell hierarchy are removed. The number of code</span>
+<span class="sd">    generated squids may be limited by the value of parameter_end.</span>
+
+<span class="sd">    Args:</span>
+<span class="sd">        cell (Cell): The cell where the squids to be replaced are</span>
+<span class="sd">        junction_type: class name of the code generated squid that replaces the other squids</span>
+<span class="sd">        parameter_name (str): Name of the parameter to be swept</span>
+<span class="sd">        parameter_start: Start value of the parameter</span>
+<span class="sd">        parameter_step: Parameter value increment step</span>
+<span class="sd">        parameter_end: End value of the parameter. If None, there is no limit for the parameter value, so that all</span>
+<span class="sd">            squids are replaced</span>
+
+<span class="sd">    &quot;&quot;&quot;</span>
+    <span class="n">layout</span> <span class="o">=</span> <span class="n">cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+    <span class="n">parameter_value</span> <span class="o">=</span> <span class="n">parameter_start</span>
+    <span class="n">junction_types</span> <span class="o">=</span> <span class="p">[</span><span class="n">choice</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">choice</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">else</span> <span class="n">choice</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">choice</span> <span class="ow">in</span> <span class="n">junction_type_choices</span><span class="p">]</span>
+
+    <span class="n">old_squids</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># list of tuples (squid instance, squid dtrans with respect to cell, old name)</span>
+
+    <span class="k">def</span> <span class="nf">recursive_replace_squids</span><span class="p">(</span><span class="n">top_cell_inst</span><span class="p">,</span> <span class="n">combined_dtrans</span><span class="p">):</span>
+<span class="w">        </span><span class="sd">&quot;&quot;&quot;Appends to old_squids all squids in top_cell_inst or any instance below it in hierarchy.&quot;&quot;&quot;</span>
+        <span class="c1"># cannot use just top_cell_inst.cell due to klayout bug, see</span>
+        <span class="c1"># https://www.klayout.de/forum/discussion/1191/cell-shapes-cannot-call-non-const-method-on-a-const-reference</span>
+        <span class="n">top_cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">top_cell_inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">)</span>
+        <span class="k">for</span> <span class="n">subcell_inst</span> <span class="ow">in</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+            <span class="n">subcell_name</span> <span class="o">=</span> <span class="n">subcell_inst</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">name</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;$&quot;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+            <span class="k">if</span> <span class="n">subcell_name</span> <span class="ow">in</span> <span class="n">junction_types</span><span class="p">:</span>
+                <span class="n">old_squids</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">subcell_inst</span><span class="p">,</span> <span class="n">combined_dtrans</span><span class="o">*</span><span class="n">subcell_inst</span><span class="o">.</span><span class="n">dcplx_trans</span><span class="p">,</span> <span class="n">subcell_name</span><span class="p">))</span>
+            <span class="k">else</span><span class="p">:</span>
+                <span class="n">recursive_replace_squids</span><span class="p">(</span><span class="n">subcell_inst</span><span class="p">,</span> <span class="n">combined_dtrans</span><span class="o">*</span><span class="n">subcell_inst</span><span class="o">.</span><span class="n">dcplx_trans</span><span class="p">)</span>
+
+    <span class="k">for</span> <span class="n">inst</span> <span class="ow">in</span> <span class="n">cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+        <span class="k">if</span> <span class="n">inst</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">name</span> <span class="ow">in</span> <span class="n">junction_types</span><span class="p">:</span>
+            <span class="n">old_squids</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">inst</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">dcplx_trans</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">name</span><span class="p">))</span>
+        <span class="n">recursive_replace_squids</span><span class="p">(</span><span class="n">inst</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">dcplx_trans</span><span class="p">)</span>
+
+    <span class="c1"># sort left-to-right and bottom-to-top</span>
+    <span class="n">old_squids</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">squid</span><span class="p">:</span> <span class="p">(</span><span class="n">squid</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">disp</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">squid</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">disp</span><span class="o">.</span><span class="n">y</span><span class="p">))</span>
+
+    <span class="k">for</span> <span class="p">(</span><span class="n">inst</span><span class="p">,</span> <span class="n">dtrans</span><span class="p">,</span> <span class="n">name</span><span class="p">)</span> <span class="ow">in</span> <span class="n">old_squids</span><span class="p">:</span>
+        <span class="k">if</span> <span class="p">(</span><span class="n">parameter_end</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">parameter_value</span> <span class="o">&lt;=</span> <span class="n">parameter_end</span><span class="p">):</span>
+            <span class="c1"># create new squid at old squid&#39;s position</span>
+            <span class="n">parameters</span> <span class="o">=</span> <span class="p">{</span><span class="n">parameter_name</span><span class="p">:</span> <span class="n">parameter_value</span><span class="p">}</span>
+            <span class="n">squid_cell</span> <span class="o">=</span> <span class="n">Junction</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">layout</span><span class="p">,</span> <span class="n">junction_type</span><span class="o">=</span><span class="n">junction_type</span><span class="p">,</span> <span class="n">face_ids</span><span class="o">=</span><span class="n">inst</span><span class="o">.</span><span class="n">pcell_parameter</span><span class="p">(</span><span class="s2">&quot;face_ids&quot;</span><span class="p">),</span>
+                                      <span class="o">**</span><span class="n">parameters</span><span class="p">)</span>
+            <span class="n">cell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">squid_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">dtrans</span><span class="p">))</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s2">&quot;Replaced squid </span><span class="se">\&quot;</span><span class="si">%s</span><span class="se">\&quot;</span><span class="s2"> with dtrans=</span><span class="si">%s</span><span class="s2"> by a squid </span><span class="se">\&quot;</span><span class="si">%s</span><span class="se">\&quot;</span><span class="s2"> with </span><span class="si">%s</span><span class="s2">=</span><span class="si">%s</span><span class="s2">.&quot;</span><span class="p">,</span>
+                         <span class="n">name</span><span class="p">,</span> <span class="n">dtrans</span><span class="p">,</span> <span class="n">junction_type</span><span class="p">,</span> <span class="n">parameter_name</span><span class="p">,</span> <span class="n">parameter_value</span><span class="p">)</span>
+            <span class="n">parameter_value</span> <span class="o">+=</span> <span class="n">parameter_step</span>
+        <span class="c1"># delete old squid</span>
+        <span class="n">inst</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span></div>
+
+<div class="viewcode-block" id="replace_squid"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.replace_squid">[docs]</a><span class="k">def</span> <span class="nf">replace_squid</span><span class="p">(</span><span class="n">top_cell</span><span class="p">,</span> <span class="n">inst_name</span><span class="p">,</span> <span class="n">junction_type</span><span class="p">,</span> <span class="n">mirror</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">squid_index</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">params</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;DEPRECATED! Replaces a SQUID by the requested alternative in the named instance.</span>
+
+<span class="sd">    Replaces the SQUID(s) in the sub-element(s) named ``inst_name`` with other SQUID(s) of</span>
+<span class="sd">    ``junction_type``. The necessary SQUID parameters are specified in ``params``. If ``inst_name`` is</span>
+<span class="sd">    a Test Structure then ``squid_index`` specifies which SQUID to change.</span>
+
+<span class="sd">    Args:</span>
+<span class="sd">        top_cell: The top cell with SQUIDs to be replaced</span>
+<span class="sd">        inst_name: Instance name of PCell containing the SQUID to be replaced</span>
+<span class="sd">        junction_type: Name of SQUID Class or .gds/.oas file</span>
+<span class="sd">        mirror: Mirror the SQUID along its vertical axis</span>
+<span class="sd">        squid_index: Index of the SQUID to be replaced within a Test Structure</span>
+<span class="sd">        **params: Extra parameters for the new SQUID</span>
+<span class="sd">    &quot;&quot;&quot;</span>
+
+    <span class="k">def</span> <span class="nf">find_cells_with_squids</span><span class="p">(</span><span class="n">chip</span><span class="p">,</span> <span class="n">inst_name</span><span class="p">):</span>
+<span class="w">        </span><span class="sd">&quot;&quot;&quot;Returns the container cells in `chip` called `inst_name`&quot;&quot;&quot;</span>
+        <span class="n">cells</span> <span class="o">=</span> <span class="p">[]</span>
+        <span class="n">layout</span> <span class="o">=</span> <span class="n">chip</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+        <span class="k">for</span> <span class="n">inst</span> <span class="ow">in</span> <span class="n">chip</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+            <span class="k">if</span> <span class="n">inst</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s2">&quot;id&quot;</span><span class="p">)</span> <span class="o">==</span> <span class="n">inst_name</span><span class="p">:</span>
+                <span class="n">cells</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">chip</span><span class="p">,</span> <span class="n">inst</span><span class="p">))</span>
+            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">pcell_declaration</span><span class="p">(),</span> <span class="n">Chip</span><span class="p">):</span>  <span class="c1"># recursively look for more chips</span>
+                <span class="n">cells</span> <span class="o">+=</span> <span class="n">find_cells_with_squids</span><span class="p">(</span><span class="n">layout</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">),</span> <span class="n">inst_name</span><span class="p">)</span>
+        <span class="k">return</span> <span class="n">cells</span>
+
+    <span class="n">cells</span> <span class="o">=</span> <span class="n">find_cells_with_squids</span><span class="p">(</span><span class="n">top_cell</span><span class="p">,</span> <span class="n">inst_name</span><span class="p">)</span>
+    <span class="k">if</span> <span class="ow">not</span> <span class="n">cells</span><span class="p">:</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Could not find anything named &#39;</span><span class="si">{</span><span class="n">inst_name</span><span class="si">}</span><span class="s2">&#39;!&quot;</span><span class="p">)</span>
+
+    <span class="n">layout</span> <span class="o">=</span> <span class="n">top_cell</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span>
+    <span class="n">file_cell</span> <span class="o">=</span> <span class="kc">None</span>
+    <span class="k">if</span> <span class="n">junction_type</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s2">&quot;.oas&quot;</span><span class="p">)</span> <span class="ow">or</span> <span class="n">junction_type</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s2">&quot;.gds&quot;</span><span class="p">):</span>  <span class="c1"># try to load from file</span>
+        <span class="k">if</span> <span class="ow">not</span> <span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">junction_type</span><span class="p">):</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;No file found at &#39;</span><span class="si">{</span><span class="n">path</span><span class="o">.</span><span class="n">realpath</span><span class="p">(</span><span class="n">junction_type</span><span class="p">)</span><span class="si">}</span><span class="s2">!&quot;</span><span class="p">)</span>
+            <span class="k">return</span>
+        <span class="n">load_opts</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">LoadLayoutOptions</span><span class="p">()</span>
+        <span class="n">load_opts</span><span class="o">.</span><span class="n">cell_conflict_resolution</span> <span class="o">=</span> <span class="n">pya</span><span class="o">.</span><span class="n">LoadLayoutOptions</span><span class="o">.</span><span class="n">CellConflictResolution</span><span class="o">.</span><span class="n">RenameCell</span>
+        <span class="n">layout</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">junction_type</span><span class="p">,</span> <span class="n">load_opts</span><span class="p">)</span>
+        <span class="n">file_cell</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">top_cells</span><span class="p">()[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+        <span class="n">file_cell</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">&quot;Junction Library.</span><span class="si">{</span><span class="n">file_cell</span><span class="o">.</span><span class="n">name</span><span class="si">}</span><span class="s2">&quot;</span>
+
+    <span class="k">for</span> <span class="p">(</span><span class="n">chip</span><span class="p">,</span> <span class="n">inst</span><span class="p">)</span> <span class="ow">in</span> <span class="n">cells</span><span class="p">:</span>
+        <span class="n">orig_trans</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">dcplx_trans</span>
+        <span class="n">ccell</span> <span class="o">=</span> <span class="n">inst</span><span class="o">.</span><span class="n">layout</span><span class="p">()</span><span class="o">.</span><span class="n">cell</span><span class="p">(</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">)</span>
+
+        <span class="k">if</span> <span class="n">ccell</span><span class="o">.</span><span class="n">is_pcell_variant</span><span class="p">():</span>  <span class="c1"># make copy if used elsewhere</span>
+            <span class="n">dup</span> <span class="o">=</span> <span class="n">ccell</span><span class="o">.</span><span class="n">dup</span><span class="p">()</span>
+            <span class="n">dup</span><span class="o">.</span><span class="n">set_property</span><span class="p">(</span><span class="s2">&quot;id&quot;</span><span class="p">,</span> <span class="n">inst</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s2">&quot;id&quot;</span><span class="p">))</span>
+            <span class="n">inst</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span>
+            <span class="n">chip</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">dup</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">orig_trans</span><span class="p">),</span> <span class="n">dup</span><span class="o">.</span><span class="n">prop_id</span><span class="p">)</span>
+            <span class="n">ccell</span> <span class="o">=</span> <span class="n">dup</span>
+
+        <span class="n">squids</span> <span class="o">=</span> <span class="p">[</span><span class="n">sq</span> <span class="k">for</span> <span class="n">sq</span> <span class="ow">in</span> <span class="n">ccell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">()</span> <span class="k">if</span> <span class="n">sq</span><span class="o">.</span><span class="n">cell</span><span class="o">.</span><span class="n">qname</span><span class="p">()</span><span class="o">.</span><span class="n">find</span><span class="p">(</span><span class="s2">&quot;Junction Library&quot;</span><span class="p">)</span> <span class="o">!=</span> <span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+        <span class="n">squids</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">q</span><span class="p">:</span> <span class="n">q</span><span class="o">.</span><span class="n">property</span><span class="p">(</span><span class="s2">&quot;squid_index&quot;</span><span class="p">))</span>
+        <span class="k">if</span> <span class="ow">not</span> <span class="n">squids</span> <span class="ow">or</span> <span class="n">squid_index</span> <span class="o">&gt;=</span> <span class="nb">len</span><span class="p">(</span><span class="n">squids</span><span class="p">)</span> <span class="ow">or</span> <span class="n">squid_index</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+            <span class="n">logging</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;No SQUID found in &#39;</span><span class="si">{</span><span class="n">inst_name</span><span class="si">}</span><span class="s2">&#39; or squid_index=</span><span class="si">{</span><span class="n">squid_index</span><span class="si">}</span><span class="s2"> is out of range!&quot;</span><span class="p">)</span>
+            <span class="k">continue</span>
+        <span class="n">old_squid</span> <span class="o">=</span> <span class="n">squids</span><span class="p">[</span><span class="n">squid_index</span><span class="p">]</span>
+        <span class="k">if</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">is_pcell</span><span class="p">():</span>
+            <span class="n">params</span> <span class="o">=</span> <span class="p">{</span><span class="s2">&quot;face_ids&quot;</span><span class="p">:</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">pcell_parameter</span><span class="p">(</span><span class="s2">&quot;face_ids&quot;</span><span class="p">),</span> <span class="o">**</span><span class="n">params</span><span class="p">}</span>
+        <span class="n">trans</span> <span class="o">=</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">dcplx_trans</span> <span class="o">*</span> <span class="n">pya</span><span class="o">.</span><span class="n">DCplxTrans</span><span class="o">.</span><span class="n">M90</span> <span class="k">if</span> <span class="n">mirror</span> <span class="k">else</span> <span class="n">old_squid</span><span class="o">.</span><span class="n">dcplx_trans</span>
+        <span class="n">squid_pos</span> <span class="o">=</span> <span class="p">(</span><span class="n">orig_trans</span> <span class="o">*</span> <span class="n">trans</span><span class="p">)</span><span class="o">.</span><span class="n">disp</span>
+        <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Replaced SQUID of &#39;</span><span class="si">{</span><span class="n">inst_name</span><span class="si">}</span><span class="s2">&#39; with </span><span class="si">{</span><span class="n">junction_type</span><span class="si">}</span><span class="s2"> at </span><span class="si">{</span><span class="n">squid_pos</span><span class="si">}</span><span class="s2">.&quot;</span><span class="p">)</span>
+        <span class="n">old_squid</span><span class="o">.</span><span class="n">delete</span><span class="p">()</span>
+        <span class="k">if</span> <span class="n">file_cell</span><span class="p">:</span>
+            <span class="n">new_squid</span> <span class="o">=</span> <span class="n">ccell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">file_cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">trans</span><span class="p">))</span>
+        <span class="k">else</span><span class="p">:</span>
+            <span class="n">new_squid</span> <span class="o">=</span> <span class="n">Junction</span><span class="o">.</span><span class="n">create</span><span class="p">(</span><span class="n">layout</span><span class="p">,</span> <span class="n">junction_type</span><span class="o">=</span><span class="n">junction_type</span><span class="p">,</span> <span class="o">**</span><span class="n">params</span><span class="p">)</span>
+            <span class="n">new_squid</span> <span class="o">=</span> <span class="n">ccell</span><span class="o">.</span><span class="n">insert</span><span class="p">(</span><span class="n">pya</span><span class="o">.</span><span class="n">DCellInstArray</span><span class="p">(</span><span class="n">new_squid</span><span class="o">.</span><span class="n">cell_index</span><span class="p">(),</span> <span class="n">trans</span><span class="p">))</span>
+        <span class="n">new_squid</span><span class="o">.</span><span class="n">set_property</span><span class="p">(</span><span class="s2">&quot;squid_index&quot;</span><span class="p">,</span> <span class="n">squid_index</span><span class="p">)</span></div>
+
+<div class="viewcode-block" id="convert_cells_to_static"><a class="viewcode-back" href="../../../api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.convert_cells_to_static">[docs]</a><span class="k">def</span> <span class="nf">convert_cells_to_static</span><span class="p">(</span><span class="n">layout</span><span class="p">):</span>
+<span class="w">    </span><span class="sd">&quot;&quot;&quot;DEPRECATED! Converts all cells in the layout to static. &quot;&quot;&quot;</span>
+
+    <span class="n">converted_cells</span> <span class="o">=</span> <span class="p">{}</span>
+
+    <span class="c1"># convert the cells to static</span>
+    <span class="k">for</span> <span class="n">cell</span> <span class="ow">in</span> <span class="n">layout</span><span class="o">.</span><span class="n">each_cell</span><span class="p">():</span>
+        <span class="k">if</span> <span class="n">cell</span><span class="o">.</span><span class="n">is_library_cell</span><span class="p">():</span>
+            <span class="n">cell_idx</span> <span class="o">=</span> <span class="n">cell</span><span class="o">.</span><span class="n">cell_index</span><span class="p">()</span>
+            <span class="n">new_cell_idx</span> <span class="o">=</span> <span class="n">layout</span><span class="o">.</span><span class="n">convert_cell_to_static</span><span class="p">(</span><span class="n">cell_idx</span><span class="p">)</span>
+            <span class="k">if</span> <span class="n">new_cell_idx</span> <span class="o">!=</span> <span class="n">cell_idx</span><span class="p">:</span>
+                <span class="n">converted_cells</span><span class="p">[</span><span class="n">cell_idx</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_cell_idx</span>
+
+    <span class="c1"># translate the instances</span>
+    <span class="k">for</span> <span class="n">cell</span> <span class="ow">in</span> <span class="n">layout</span><span class="o">.</span><span class="n">each_cell</span><span class="p">():</span>
+        <span class="k">for</span> <span class="n">inst</span> <span class="ow">in</span> <span class="n">cell</span><span class="o">.</span><span class="n">each_inst</span><span class="p">():</span>
+            <span class="k">if</span> <span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span> <span class="ow">in</span> <span class="n">converted_cells</span><span class="p">:</span>
+                <span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span> <span class="o">=</span> <span class="n">converted_cells</span><span class="p">[</span><span class="n">inst</span><span class="o">.</span><span class="n">cell_index</span><span class="p">]</span>
+
+    <span class="c1"># delete the PCells</span>
+    <span class="k">for</span> <span class="n">cell_idx</span> <span class="ow">in</span> <span class="n">converted_cells</span><span class="p">:</span>
+        <span class="n">layout</span><span class="o">.</span><span class="n">delete_cell</span><span class="p">(</span><span class="n">cell_idx</span><span class="p">)</span></div>
+</pre></div>
+
+           </div>
+          </div>
+          <footer>
+
+  <hr/>
+
+  <div role="contentinfo">
+    <p>&#169; Copyright 2021-2024, IQM.</p>
+  </div>
+
+  Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
+    <a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
+    provided by <a href="https://readthedocs.org">Read the Docs</a>.
+   
+
+</footer>
+        </div>
+      </div>
+    </section>
+  </div>
+  <script>
+      jQuery(function () {
+          SphinxRtdTheme.Navigation.enable(true);
+      });
+  </script> 
+
+</body>
+</html>
\ No newline at end of file
diff --git a/_modules/kqcircuits/util/symmetric_polygons.html b/_modules/kqcircuits/util/symmetric_polygons.html
index fbe8cfb83..45e5f4357 100644
--- a/_modules/kqcircuits/util/symmetric_polygons.html
+++ b/_modules/kqcircuits/util/symmetric_polygons.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/_sources/api/kqcircuits.util.defaults_helper.rst.txt b/_sources/api/kqcircuits.util.defaults_helper.rst.txt
new file mode 100644
index 000000000..0bb8191ee
--- /dev/null
+++ b/_sources/api/kqcircuits.util.defaults_helper.rst.txt
@@ -0,0 +1,10 @@
+kqcircuits.util.defaults\_helper
+================================
+
+.. automodule:: kqcircuits.util.defaults_helper
+   :members:
+   :undoc-members:
+   :show-inheritance:
+
+.. kqc_elem_params:: kqcircuits.util.defaults_helper
+.. image:: ../pcell_images/kqcircuits.util.defaults_helper.png
\ No newline at end of file
diff --git a/_sources/api/kqcircuits.util.replace_junctions.rst.txt b/_sources/api/kqcircuits.util.replace_junctions.rst.txt
new file mode 100644
index 000000000..1fb924bf6
--- /dev/null
+++ b/_sources/api/kqcircuits.util.replace_junctions.rst.txt
@@ -0,0 +1,10 @@
+kqcircuits.util.replace\_junctions
+==================================
+
+.. automodule:: kqcircuits.util.replace_junctions
+   :members:
+   :undoc-members:
+   :show-inheritance:
+
+.. kqc_elem_params:: kqcircuits.util.replace_junctions
+.. image:: ../pcell_images/kqcircuits.util.replace_junctions.png
\ No newline at end of file
diff --git a/_sources/api/kqcircuits.util.replace_squids.rst.txt b/_sources/api/kqcircuits.util.replace_squids.rst.txt
deleted file mode 100644
index 73c30bb1c..000000000
--- a/_sources/api/kqcircuits.util.replace_squids.rst.txt
+++ /dev/null
@@ -1,10 +0,0 @@
-kqcircuits.util.replace\_squids
-===============================
-
-.. automodule:: kqcircuits.util.replace_squids
-   :members:
-   :undoc-members:
-   :show-inheritance:
-
-.. kqc_elem_params:: kqcircuits.util.replace_squids
-.. image:: ../pcell_images/kqcircuits.util.replace_squids.png
\ No newline at end of file
diff --git a/_sources/api/kqcircuits.util.rst.txt b/_sources/api/kqcircuits.util.rst.txt
index 380a5be1c..8efba0fad 100644
--- a/_sources/api/kqcircuits.util.rst.txt
+++ b/_sources/api/kqcircuits.util.rst.txt
@@ -8,6 +8,7 @@ kqcircuits.util
    kqcircuits.util.count_instances
    kqcircuits.util.coupler_lib
    kqcircuits.util.deep_delete
+   kqcircuits.util.defaults_helper
    kqcircuits.util.dependencies
    kqcircuits.util.edit_node_plugin
    kqcircuits.util.export_helper
@@ -26,7 +27,7 @@ kqcircuits.util
    kqcircuits.util.parameters
    kqcircuits.util.plugin_startup
    kqcircuits.util.refpoints
-   kqcircuits.util.replace_squids
+   kqcircuits.util.replace_junctions
    kqcircuits.util.symmetric_polygons
 
 Module contents
diff --git a/about.html b/about.html
index 3ae81378a..0aefe0fec 100644
--- a/about.html
+++ b/about.html
@@ -391,6 +391,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -409,7 +410,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.airbridge_crossings.html b/api/kqcircuits.chips.airbridge_crossings.html
index 1e419090c..749487682 100644
--- a/api/kqcircuits.chips.airbridge_crossings.html
+++ b/api/kqcircuits.chips.airbridge_crossings.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.airbridge_dc_test.html b/api/kqcircuits.chips.airbridge_dc_test.html
index a3dc19c06..696451f20 100644
--- a/api/kqcircuits.chips.airbridge_dc_test.html
+++ b/api/kqcircuits.chips.airbridge_dc_test.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.chip.html b/api/kqcircuits.chips.chip.html
index 8e6d4a814..f23b5fd1c 100644
--- a/api/kqcircuits.chips.chip.html
+++ b/api/kqcircuits.chips.chip.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.crossing_twoface.html b/api/kqcircuits.chips.crossing_twoface.html
index f0394dbb5..6533dcfc6 100644
--- a/api/kqcircuits.chips.crossing_twoface.html
+++ b/api/kqcircuits.chips.crossing_twoface.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.daisy_woven.html b/api/kqcircuits.chips.daisy_woven.html
index 4504214ab..6a0f79ea5 100644
--- a/api/kqcircuits.chips.daisy_woven.html
+++ b/api/kqcircuits.chips.daisy_woven.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.dc_test.html b/api/kqcircuits.chips.dc_test.html
index ba2d7805a..b536c1d62 100644
--- a/api/kqcircuits.chips.dc_test.html
+++ b/api/kqcircuits.chips.dc_test.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.demo.html b/api/kqcircuits.chips.demo.html
index 41a7b4f6d..eea78b696 100644
--- a/api/kqcircuits.chips.demo.html
+++ b/api/kqcircuits.chips.demo.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.demo_twoface.html b/api/kqcircuits.chips.demo_twoface.html
index adb9050bb..36a9bdd55 100644
--- a/api/kqcircuits.chips.demo_twoface.html
+++ b/api/kqcircuits.chips.demo_twoface.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.empty.html b/api/kqcircuits.chips.empty.html
index 3ddad520a..d8f1ee962 100644
--- a/api/kqcircuits.chips.empty.html
+++ b/api/kqcircuits.chips.empty.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.html b/api/kqcircuits.chips.html
index 38c9f4190..e4fe08848 100644
--- a/api/kqcircuits.chips.html
+++ b/api/kqcircuits.chips.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.junction_test.html b/api/kqcircuits.chips.junction_test.html
index 0ebf1e079..f47ae23ce 100644
--- a/api/kqcircuits.chips.junction_test.html
+++ b/api/kqcircuits.chips.junction_test.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.junction_test2.html b/api/kqcircuits.chips.junction_test2.html
index 14e3bd4b9..b5d385be2 100644
--- a/api/kqcircuits.chips.junction_test2.html
+++ b/api/kqcircuits.chips.junction_test2.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.launchers.html b/api/kqcircuits.chips.launchers.html
index 90380a634..f62a3bc4a 100644
--- a/api/kqcircuits.chips.launchers.html
+++ b/api/kqcircuits.chips.launchers.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.lithography_test.html b/api/kqcircuits.chips.lithography_test.html
index 83336f4a3..481e35d98 100644
--- a/api/kqcircuits.chips.lithography_test.html
+++ b/api/kqcircuits.chips.lithography_test.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.lithography_test_twoface.html b/api/kqcircuits.chips.lithography_test_twoface.html
index f80df94e9..57cc7e1f0 100644
--- a/api/kqcircuits.chips.lithography_test_twoface.html
+++ b/api/kqcircuits.chips.lithography_test_twoface.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.quality_factor.html b/api/kqcircuits.chips.quality_factor.html
index c48d9fd43..7be1f12b4 100644
--- a/api/kqcircuits.chips.quality_factor.html
+++ b/api/kqcircuits.chips.quality_factor.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.quality_factor_twoface.html b/api/kqcircuits.chips.quality_factor_twoface.html
index 2521cd2d5..32cf501ee 100644
--- a/api/kqcircuits.chips.quality_factor_twoface.html
+++ b/api/kqcircuits.chips.quality_factor_twoface.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.sample_holder_test.html b/api/kqcircuits.chips.sample_holder_test.html
index 7ebfcf826..48e75864c 100644
--- a/api/kqcircuits.chips.sample_holder_test.html
+++ b/api/kqcircuits.chips.sample_holder_test.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.shaping.html b/api/kqcircuits.chips.shaping.html
index 21ffc270a..e7e972689 100644
--- a/api/kqcircuits.chips.shaping.html
+++ b/api/kqcircuits.chips.shaping.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.simple.html b/api/kqcircuits.chips.simple.html
index 071c76921..4ef6876e3 100644
--- a/api/kqcircuits.chips.simple.html
+++ b/api/kqcircuits.chips.simple.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.single_xmons.html b/api/kqcircuits.chips.single_xmons.html
index 8bb34dae8..d970e19bb 100644
--- a/api/kqcircuits.chips.single_xmons.html
+++ b/api/kqcircuits.chips.single_xmons.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.stripes.html b/api/kqcircuits.chips.stripes.html
index b84ebcc79..e30a0ee1f 100644
--- a/api/kqcircuits.chips.stripes.html
+++ b/api/kqcircuits.chips.stripes.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.tsv_test.html b/api/kqcircuits.chips.tsv_test.html
index 227f6d4db..2c9770164 100644
--- a/api/kqcircuits.chips.tsv_test.html
+++ b/api/kqcircuits.chips.tsv_test.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.chips.xmons_direct_coupling.html b/api/kqcircuits.chips.xmons_direct_coupling.html
index 22ba92afa..a347dc90e 100644
--- a/api/kqcircuits.chips.xmons_direct_coupling.html
+++ b/api/kqcircuits.chips.xmons_direct_coupling.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.defaults.html b/api/kqcircuits.defaults.html
index 7b8767e88..7617daaef 100644
--- a/api/kqcircuits.defaults.html
+++ b/api/kqcircuits.defaults.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.airbridge_connection.html b/api/kqcircuits.elements.airbridge_connection.html
index 142ede7d8..ebe832e14 100644
--- a/api/kqcircuits.elements.airbridge_connection.html
+++ b/api/kqcircuits.elements.airbridge_connection.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.airbridges.airbridge.html b/api/kqcircuits.elements.airbridges.airbridge.html
index 13cf1f659..c40453b5f 100644
--- a/api/kqcircuits.elements.airbridges.airbridge.html
+++ b/api/kqcircuits.elements.airbridges.airbridge.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.airbridges.airbridge_multi_face.html b/api/kqcircuits.elements.airbridges.airbridge_multi_face.html
index 7ea3ca3ba..662b1f396 100644
--- a/api/kqcircuits.elements.airbridges.airbridge_multi_face.html
+++ b/api/kqcircuits.elements.airbridges.airbridge_multi_face.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.airbridges.airbridge_rectangular.html b/api/kqcircuits.elements.airbridges.airbridge_rectangular.html
index 8f5947f56..68fc7d7b5 100644
--- a/api/kqcircuits.elements.airbridges.airbridge_rectangular.html
+++ b/api/kqcircuits.elements.airbridges.airbridge_rectangular.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.airbridges.html b/api/kqcircuits.elements.airbridges.html
index 9860f7a72..661111c30 100644
--- a/api/kqcircuits.elements.airbridges.html
+++ b/api/kqcircuits.elements.airbridges.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.capacitive_x_coupler.html b/api/kqcircuits.elements.capacitive_x_coupler.html
index 263676c27..30603adac 100644
--- a/api/kqcircuits.elements.capacitive_x_coupler.html
+++ b/api/kqcircuits.elements.capacitive_x_coupler.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.chip_frame.html b/api/kqcircuits.elements.chip_frame.html
index bc8fa7480..d97bbc969 100644
--- a/api/kqcircuits.elements.chip_frame.html
+++ b/api/kqcircuits.elements.chip_frame.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.circular_capacitor.html b/api/kqcircuits.elements.circular_capacitor.html
index dbcab3f5a..75668e9d7 100644
--- a/api/kqcircuits.elements.circular_capacitor.html
+++ b/api/kqcircuits.elements.circular_capacitor.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.element.html b/api/kqcircuits.elements.element.html
index 40062f2ba..3d5976d57 100644
--- a/api/kqcircuits.elements.element.html
+++ b/api/kqcircuits.elements.element.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.finger_capacitor_square.html b/api/kqcircuits.elements.finger_capacitor_square.html
index 73351cb69..86c86a9e1 100644
--- a/api/kqcircuits.elements.finger_capacitor_square.html
+++ b/api/kqcircuits.elements.finger_capacitor_square.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.finger_capacitor_taper.html b/api/kqcircuits.elements.finger_capacitor_taper.html
index c9095742a..758021fac 100644
--- a/api/kqcircuits.elements.finger_capacitor_taper.html
+++ b/api/kqcircuits.elements.finger_capacitor_taper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector.html b/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector.html
index 6b4ad6d90..341d85801 100644
--- a/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector.html
+++ b/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc.html b/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc.html
index f1e7f1dcd..4f89955fa 100644
--- a/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc.html
+++ b/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf.html b/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf.html
index 4cd52fd67..96a9d76d9 100644
--- a/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf.html
+++ b/api/kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.flip_chip_connectors.html b/api/kqcircuits.elements.flip_chip_connectors.html
index 3c43b4a21..4bcf701f7 100644
--- a/api/kqcircuits.elements.flip_chip_connectors.html
+++ b/api/kqcircuits.elements.flip_chip_connectors.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.fluxlines.fluxline.html b/api/kqcircuits.elements.fluxlines.fluxline.html
index bcdce87c4..880c324c3 100644
--- a/api/kqcircuits.elements.fluxlines.fluxline.html
+++ b/api/kqcircuits.elements.fluxlines.fluxline.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.fluxlines.fluxline_standard.html b/api/kqcircuits.elements.fluxlines.fluxline_standard.html
index df5c450f1..a8540c7d1 100644
--- a/api/kqcircuits.elements.fluxlines.fluxline_standard.html
+++ b/api/kqcircuits.elements.fluxlines.fluxline_standard.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.fluxlines.fluxline_straight.html b/api/kqcircuits.elements.fluxlines.fluxline_straight.html
index c793ab7b5..d85d95789 100644
--- a/api/kqcircuits.elements.fluxlines.fluxline_straight.html
+++ b/api/kqcircuits.elements.fluxlines.fluxline_straight.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.fluxlines.html b/api/kqcircuits.elements.fluxlines.html
index 8e94d46f6..2a6abf74c 100644
--- a/api/kqcircuits.elements.fluxlines.html
+++ b/api/kqcircuits.elements.fluxlines.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.hanger_resonator.html b/api/kqcircuits.elements.hanger_resonator.html
index 59cd32de3..968d61d69 100644
--- a/api/kqcircuits.elements.hanger_resonator.html
+++ b/api/kqcircuits.elements.hanger_resonator.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.html b/api/kqcircuits.elements.html
index 506a9d5fa..6744722b0 100644
--- a/api/kqcircuits.elements.html
+++ b/api/kqcircuits.elements.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.launcher.html b/api/kqcircuits.elements.launcher.html
index 8b6797b02..d9e607387 100644
--- a/api/kqcircuits.elements.launcher.html
+++ b/api/kqcircuits.elements.launcher.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -483,6 +484,7 @@
 <li><p><strong>a_launcher</strong><em> (Double)</em><span> - Outer trace width</span><em>, default=</em><code class="docutils literal notranslate"><span class="pre">240</span></code><em>, unit=</em><code class="docutils literal notranslate"><span class="pre">μm</span></code></p></li>
 <li><p><strong>b_launcher</strong><em> (Double)</em><span> - Outer gap width</span><em>, default=</em><code class="docutils literal notranslate"><span class="pre">144</span></code><em>, unit=</em><code class="docutils literal notranslate"><span class="pre">μm</span></code></p></li>
 <li><p><strong>launcher_frame_gap</strong><em> (Double)</em><span> - Gap at chip frame</span><em>, default=</em><code class="docutils literal notranslate"><span class="pre">144</span></code><em>, unit=</em><code class="docutils literal notranslate"><span class="pre">μm</span></code></p></li>
+<li><p><strong>add_metal</strong><em> (Boolean)</em><span> - Add trace in base metal addition too</span><em>, default=</em><code class="docutils literal notranslate"><span class="pre">False</span></code></p></li>
 </ul>
 <img alt="../_images/kqcircuits.elements.launcher.png" src="../_images/kqcircuits.elements.launcher.png" />
 </section>
diff --git a/api/kqcircuits.elements.launcher_dc.html b/api/kqcircuits.elements.launcher_dc.html
index 965ae6887..d43eea7bb 100644
--- a/api/kqcircuits.elements.launcher_dc.html
+++ b/api/kqcircuits.elements.launcher_dc.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.markers.html b/api/kqcircuits.elements.markers.html
index 99d1f4a13..6f40c31bc 100644
--- a/api/kqcircuits.elements.markers.html
+++ b/api/kqcircuits.elements.markers.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.markers.marker.html b/api/kqcircuits.elements.markers.marker.html
index d3eecd522..06cdca604 100644
--- a/api/kqcircuits.elements.markers.marker.html
+++ b/api/kqcircuits.elements.markers.marker.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.markers.marker_standard.html b/api/kqcircuits.elements.markers.marker_standard.html
index 972aadc19..733a39db1 100644
--- a/api/kqcircuits.elements.markers.marker_standard.html
+++ b/api/kqcircuits.elements.markers.marker_standard.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.markers.mask_marker_fc.html b/api/kqcircuits.elements.markers.mask_marker_fc.html
index 954b3043b..50e372590 100644
--- a/api/kqcircuits.elements.markers.mask_marker_fc.html
+++ b/api/kqcircuits.elements.markers.mask_marker_fc.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.meander.html b/api/kqcircuits.elements.meander.html
index 58f09ae46..86af9217b 100644
--- a/api/kqcircuits.elements.meander.html
+++ b/api/kqcircuits.elements.meander.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.smooth_capacitor.html b/api/kqcircuits.elements.smooth_capacitor.html
index 7fa2bf786..26bc53ae2 100644
--- a/api/kqcircuits.elements.smooth_capacitor.html
+++ b/api/kqcircuits.elements.smooth_capacitor.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.spiral_resonator_polygon.html b/api/kqcircuits.elements.spiral_resonator_polygon.html
index 7891dfbb0..ac0531d09 100644
--- a/api/kqcircuits.elements.spiral_resonator_polygon.html
+++ b/api/kqcircuits.elements.spiral_resonator_polygon.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.tsvs.html b/api/kqcircuits.elements.tsvs.html
index 9836d8329..72e196918 100644
--- a/api/kqcircuits.elements.tsvs.html
+++ b/api/kqcircuits.elements.tsvs.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.tsvs.tsv.html b/api/kqcircuits.elements.tsvs.tsv.html
index d6acc5928..a760c308f 100644
--- a/api/kqcircuits.elements.tsvs.tsv.html
+++ b/api/kqcircuits.elements.tsvs.tsv.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.tsvs.tsv_ellipse.html b/api/kqcircuits.elements.tsvs.tsv_ellipse.html
index 0fc437864..e2abb2797 100644
--- a/api/kqcircuits.elements.tsvs.tsv_ellipse.html
+++ b/api/kqcircuits.elements.tsvs.tsv_ellipse.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.tsvs.tsv_standard.html b/api/kqcircuits.elements.tsvs.tsv_standard.html
index 842e8189f..26d10f6b3 100644
--- a/api/kqcircuits.elements.tsvs.tsv_standard.html
+++ b/api/kqcircuits.elements.tsvs.tsv_standard.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.waveguide_composite.html b/api/kqcircuits.elements.waveguide_composite.html
index 9ab3cce00..4c47dce05 100644
--- a/api/kqcircuits.elements.waveguide_composite.html
+++ b/api/kqcircuits.elements.waveguide_composite.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.waveguide_coplanar.html b/api/kqcircuits.elements.waveguide_coplanar.html
index 012f19133..d89c03aef 100644
--- a/api/kqcircuits.elements.waveguide_coplanar.html
+++ b/api/kqcircuits.elements.waveguide_coplanar.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.waveguide_coplanar_curved.html b/api/kqcircuits.elements.waveguide_coplanar_curved.html
index 43f0de37f..2637faec2 100644
--- a/api/kqcircuits.elements.waveguide_coplanar_curved.html
+++ b/api/kqcircuits.elements.waveguide_coplanar_curved.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.waveguide_coplanar_splitter.html b/api/kqcircuits.elements.waveguide_coplanar_splitter.html
index 21df8692d..944c7037a 100644
--- a/api/kqcircuits.elements.waveguide_coplanar_splitter.html
+++ b/api/kqcircuits.elements.waveguide_coplanar_splitter.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.waveguide_coplanar_straight.html b/api/kqcircuits.elements.waveguide_coplanar_straight.html
index 277e1636a..6b874cfaa 100644
--- a/api/kqcircuits.elements.waveguide_coplanar_straight.html
+++ b/api/kqcircuits.elements.waveguide_coplanar_straight.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.elements.waveguide_coplanar_taper.html b/api/kqcircuits.elements.waveguide_coplanar_taper.html
index 85088f5de..c3bd2db99 100644
--- a/api/kqcircuits.elements.waveguide_coplanar_taper.html
+++ b/api/kqcircuits.elements.waveguide_coplanar_taper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.html b/api/kqcircuits.html
index 126018c2d..063367029 100644
--- a/api/kqcircuits.html
+++ b/api/kqcircuits.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -641,6 +642,7 @@ <h1>API documentation<a class="headerlink" href="#api-documentation" title="Perm
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -659,7 +661,7 @@ <h1>API documentation<a class="headerlink" href="#api-documentation" title="Perm
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l2"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.html b/api/kqcircuits.junctions.html
index e2bf3e5e1..0f4337f9e 100644
--- a/api/kqcircuits.junctions.html
+++ b/api/kqcircuits.junctions.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.junction.html b/api/kqcircuits.junctions.junction.html
index bb7b060d4..34bfd2cf4 100644
--- a/api/kqcircuits.junctions.junction.html
+++ b/api/kqcircuits.junctions.junction.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.manhattan.html b/api/kqcircuits.junctions.manhattan.html
index cb7727b40..237644118 100644
--- a/api/kqcircuits.junctions.manhattan.html
+++ b/api/kqcircuits.junctions.manhattan.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.manhattan_single_junction.html b/api/kqcircuits.junctions.manhattan_single_junction.html
index 7ae5fbb57..03ca4450f 100644
--- a/api/kqcircuits.junctions.manhattan_single_junction.html
+++ b/api/kqcircuits.junctions.manhattan_single_junction.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.no_squid.html b/api/kqcircuits.junctions.no_squid.html
index 624e42a09..62343cc0f 100644
--- a/api/kqcircuits.junctions.no_squid.html
+++ b/api/kqcircuits.junctions.no_squid.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.sim.html b/api/kqcircuits.junctions.sim.html
index fabc60b17..3aa8c8b49 100644
--- a/api/kqcircuits.junctions.sim.html
+++ b/api/kqcircuits.junctions.sim.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.junctions.squid.html b/api/kqcircuits.junctions.squid.html
index 0571c7f6f..83477706b 100644
--- a/api/kqcircuits.junctions.squid.html
+++ b/api/kqcircuits.junctions.squid.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.klayout_view.html b/api/kqcircuits.klayout_view.html
index 272dd155a..355bb72e0 100644
--- a/api/kqcircuits.klayout_view.html
+++ b/api/kqcircuits.klayout_view.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.layer_cluster.html b/api/kqcircuits.layer_cluster.html
index 5debb998b..cfb0060ed 100644
--- a/api/kqcircuits.layer_cluster.html
+++ b/api/kqcircuits.layer_cluster.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.layer_config.default_layer_config.html b/api/kqcircuits.layer_config.default_layer_config.html
index 3707354f4..d7cbbcc92 100644
--- a/api/kqcircuits.layer_config.default_layer_config.html
+++ b/api/kqcircuits.layer_config.default_layer_config.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.layer_config.example_layer_config.html b/api/kqcircuits.layer_config.example_layer_config.html
index a99c9d9fd..b60ff9a99 100644
--- a/api/kqcircuits.layer_config.example_layer_config.html
+++ b/api/kqcircuits.layer_config.example_layer_config.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.layer_config.html b/api/kqcircuits.layer_config.html
index a7b01be64..9692d3c5a 100644
--- a/api/kqcircuits.layer_config.html
+++ b/api/kqcircuits.layer_config.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.masks.html b/api/kqcircuits.masks.html
index 3f6377495..1d937dcc2 100644
--- a/api/kqcircuits.masks.html
+++ b/api/kqcircuits.masks.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.masks.mask_export.html b/api/kqcircuits.masks.mask_export.html
index 50286c487..9a0f1460e 100644
--- a/api/kqcircuits.masks.mask_export.html
+++ b/api/kqcircuits.masks.mask_export.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -526,6 +527,12 @@
 <span class="sig-prename descclassname"><span class="pre">kqcircuits.masks.mask_export.</span></span><span class="sig-name descname"><span class="pre">get_mask_layout_full_name</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">mask_set</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">mask_layout</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/masks/mask_export.html#get_mask_layout_full_name"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.masks.mask_export.get_mask_layout_full_name" title="Permalink to this definition"></a></dt>
 <dd></dd></dl>
 
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.masks.mask_export.export_junction_parameters">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.masks.mask_export.</span></span><span class="sig-name descname"><span class="pre">export_junction_parameters</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">path</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/masks/mask_export.html#export_junction_parameters"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.masks.mask_export.export_junction_parameters" title="Permalink to this definition"></a></dt>
+<dd><p>Exports a json file containing all parameter values for each junction in the given chip (as cell)</p>
+</dd></dl>
+
 <img alt="../_images/kqcircuits.masks.mask_export.png" src="../_images/kqcircuits.masks.mask_export.png" />
 </section>
 
diff --git a/api/kqcircuits.masks.mask_layout.html b/api/kqcircuits.masks.mask_layout.html
index 91b2b4774..17443a2b8 100644
--- a/api/kqcircuits.masks.mask_layout.html
+++ b/api/kqcircuits.masks.mask_layout.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.masks.mask_set.html b/api/kqcircuits.masks.mask_set.html
index 0b6000fbb..75a270c3a 100644
--- a/api/kqcircuits.masks.mask_set.html
+++ b/api/kqcircuits.masks.mask_set.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.masks.multi_face_mask_layout.html b/api/kqcircuits.masks.multi_face_mask_layout.html
index 41a66f8cf..e5ae13e14 100644
--- a/api/kqcircuits.masks.multi_face_mask_layout.html
+++ b/api/kqcircuits.masks.multi_face_mask_layout.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.pya_resolver.html b/api/kqcircuits.pya_resolver.html
index 58aff6240..958d79488 100644
--- a/api/kqcircuits.pya_resolver.html
+++ b/api/kqcircuits.pya_resolver.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.qubits.concentric_transmon.html b/api/kqcircuits.qubits.concentric_transmon.html
index 3d6b4016f..52cce85e5 100644
--- a/api/kqcircuits.qubits.concentric_transmon.html
+++ b/api/kqcircuits.qubits.concentric_transmon.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.qubits.double_pads.html b/api/kqcircuits.qubits.double_pads.html
index ead13f8fb..b1d32c8a8 100644
--- a/api/kqcircuits.qubits.double_pads.html
+++ b/api/kqcircuits.qubits.double_pads.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.qubits.double_pads_splines.html b/api/kqcircuits.qubits.double_pads_splines.html
index 75c94aebf..b0f890fb1 100644
--- a/api/kqcircuits.qubits.double_pads_splines.html
+++ b/api/kqcircuits.qubits.double_pads_splines.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.qubits.html b/api/kqcircuits.qubits.html
index 0938978bf..4d2215e52 100644
--- a/api/kqcircuits.qubits.html
+++ b/api/kqcircuits.qubits.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.qubits.qubit.html b/api/kqcircuits.qubits.qubit.html
index 355b563c1..6dc01e423 100644
--- a/api/kqcircuits.qubits.qubit.html
+++ b/api/kqcircuits.qubits.qubit.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.qubits.swissmon.html b/api/kqcircuits.qubits.swissmon.html
index f347568e0..a8fc908e4 100644
--- a/api/kqcircuits.qubits.swissmon.html
+++ b/api/kqcircuits.qubits.swissmon.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.run.html b/api/kqcircuits.run.html
index 72bcf505c..d21269f5c 100644
--- a/api/kqcircuits.run.html
+++ b/api/kqcircuits.run.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.airbridges_sim.html b/api/kqcircuits.simulations.airbridges_sim.html
index a4fa06b8d..3f6bdcb14 100644
--- a/api/kqcircuits.simulations.airbridges_sim.html
+++ b/api/kqcircuits.simulations.airbridges_sim.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.cross_section_simulation.html b/api/kqcircuits.simulations.cross_section_simulation.html
index bb6b41d75..3bf2b69b4 100644
--- a/api/kqcircuits.simulations.cross_section_simulation.html
+++ b/api/kqcircuits.simulations.cross_section_simulation.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.empty_simulation.html b/api/kqcircuits.simulations.empty_simulation.html
index 92c0e443b..7c3cee2c5 100644
--- a/api/kqcircuits.simulations.empty_simulation.html
+++ b/api/kqcircuits.simulations.empty_simulation.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.ansys.ansys_export.html b/api/kqcircuits.simulations.export.ansys.ansys_export.html
index 426730b61..f48c95c43 100644
--- a/api/kqcircuits.simulations.export.ansys.ansys_export.html
+++ b/api/kqcircuits.simulations.export.ansys.ansys_export.html
@@ -393,6 +393,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -411,7 +412,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.ansys.html b/api/kqcircuits.simulations.export.ansys.html
index a2eaaa97d..33891cf91 100644
--- a/api/kqcircuits.simulations.export.ansys.html
+++ b/api/kqcircuits.simulations.export.ansys.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.elmer.elmer_export.html b/api/kqcircuits.simulations.export.elmer.elmer_export.html
index ff231e349..9186d96ec 100644
--- a/api/kqcircuits.simulations.export.elmer.elmer_export.html
+++ b/api/kqcircuits.simulations.export.elmer.elmer_export.html
@@ -393,6 +393,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -411,7 +412,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.elmer.html b/api/kqcircuits.simulations.export.elmer.html
index 2cda71b7d..182d370ce 100644
--- a/api/kqcircuits.simulations.export.elmer.html
+++ b/api/kqcircuits.simulations.export.elmer.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.export_and_run.html b/api/kqcircuits.simulations.export.export_and_run.html
index 39777eecb..1f3d35810 100644
--- a/api/kqcircuits.simulations.export.export_and_run.html
+++ b/api/kqcircuits.simulations.export.export_and_run.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.export_singularity.html b/api/kqcircuits.simulations.export.export_singularity.html
index 951f2eaaf..e88cc34b0 100644
--- a/api/kqcircuits.simulations.export.export_singularity.html
+++ b/api/kqcircuits.simulations.export.export_singularity.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.html b/api/kqcircuits.simulations.export.html
index c5c92dc31..55fd1abc6 100644
--- a/api/kqcircuits.simulations.export.html
+++ b/api/kqcircuits.simulations.export.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.remote_export_and_run.html b/api/kqcircuits.simulations.export.remote_export_and_run.html
index c0703fc8b..54ab4f521 100644
--- a/api/kqcircuits.simulations.export.remote_export_and_run.html
+++ b/api/kqcircuits.simulations.export.remote_export_and_run.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.simulation_export.html b/api/kqcircuits.simulations.export.simulation_export.html
index 15dc5b25d..364c537a3 100644
--- a/api/kqcircuits.simulations.export.simulation_export.html
+++ b/api/kqcircuits.simulations.export.simulation_export.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.sonnet.html b/api/kqcircuits.simulations.export.sonnet.html
index b2c70c51f..d3b529a8f 100644
--- a/api/kqcircuits.simulations.export.sonnet.html
+++ b/api/kqcircuits.simulations.export.sonnet.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.sonnet.parser.html b/api/kqcircuits.simulations.export.sonnet.parser.html
index 48518326f..53f58760a 100644
--- a/api/kqcircuits.simulations.export.sonnet.parser.html
+++ b/api/kqcircuits.simulations.export.sonnet.parser.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.sonnet.sonnet_export.html b/api/kqcircuits.simulations.export.sonnet.sonnet_export.html
index 0366048cf..9b84cabc1 100644
--- a/api/kqcircuits.simulations.export.sonnet.sonnet_export.html
+++ b/api/kqcircuits.simulations.export.sonnet.sonnet_export.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.util.html b/api/kqcircuits.simulations.export.util.html
index ede9f234e..56c3b7121 100644
--- a/api/kqcircuits.simulations.export.util.html
+++ b/api/kqcircuits.simulations.export.util.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.xsection.html b/api/kqcircuits.simulations.export.xsection.html
index d550bb6e3..6ce458643 100644
--- a/api/kqcircuits.simulations.export.xsection.html
+++ b/api/kqcircuits.simulations.export.xsection.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.export.xsection.xsection_export.html b/api/kqcircuits.simulations.export.xsection.xsection_export.html
index 611a3a8cd..1de10b2a7 100644
--- a/api/kqcircuits.simulations.export.xsection.xsection_export.html
+++ b/api/kqcircuits.simulations.export.xsection.xsection_export.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.html b/api/kqcircuits.simulations.html
index 720998ffe..eec49295a 100644
--- a/api/kqcircuits.simulations.html
+++ b/api/kqcircuits.simulations.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.partition_region.html b/api/kqcircuits.simulations.partition_region.html
index f0095c81f..a3fa3bc2a 100644
--- a/api/kqcircuits.simulations.partition_region.html
+++ b/api/kqcircuits.simulations.partition_region.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.port.html b/api/kqcircuits.simulations.port.html
index 14e5c0819..2e0ff3151 100644
--- a/api/kqcircuits.simulations.port.html
+++ b/api/kqcircuits.simulations.port.html
@@ -393,6 +393,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -411,7 +412,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -512,7 +513,7 @@
 
 <dl class="py class">
 <dt class="sig sig-object py" id="kqcircuits.simulations.port.EdgePort">
-<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">kqcircuits.simulations.port.</span></span><span class="sig-name descname"><span class="pre">EdgePort</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">number</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">int</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">signal_location</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">klayout.dbcore.DPoint</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">resistance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">50</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">reactance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">inductance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">capacitance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">deembed_len</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">Optional</span><span class="p"><span class="pre">[</span></span><span class="pre">float</span><span class="p"><span class="pre">]</span></span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">face</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">int</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junction</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">bool</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">False</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/simulations/port.html#EdgePort"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.simulations.port.EdgePort" title="Permalink to this definition"></a></dt>
+<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">kqcircuits.simulations.port.</span></span><span class="sig-name descname"><span class="pre">EdgePort</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">number</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">int</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">signal_location</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">klayout.dbcore.DPoint</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">resistance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">50</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">reactance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">inductance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">capacitance</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">deembed_len</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">Optional</span><span class="p"><span class="pre">[</span></span><span class="pre">float</span><span class="p"><span class="pre">]</span></span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">face</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">int</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junction</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">bool</span></span><span class="w"> </span><span class="o"><span class="pre">=</span></span><span class="w"> </span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">size</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/simulations/port.html#EdgePort"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.simulations.port.EdgePort" title="Permalink to this definition"></a></dt>
 <dd><p>Bases: <a class="reference internal" href="#kqcircuits.simulations.port.Port" title="kqcircuits.simulations.port.Port"><code class="xref py py-class docutils literal notranslate"><span class="pre">kqcircuits.simulations.port.Port</span></code></a></p>
 <p>Data structure for ports at the edge of the simulation area.</p>
 <dl class="field-list simple">
@@ -527,6 +528,8 @@
 <li><p><strong>deembed_len</strong> – Port de-embedding length. Given in simulation units, usually microns (<span class="math notranslate nohighlight">\(\text{um}\)</span>).</p></li>
 <li><p><strong>face</strong> – Integer-valued face index for the port.</p></li>
 <li><p><strong>junction</strong> – Whether this port models a SQUID/Junction. Used in EPR calculations.</p></li>
+<li><p><strong>size</strong> – Width and height of the port to override Simulation.port_size. Optionally, the size can be set as a
+list specifying the extensions from the center of the port to left, right, down and up, respectively.</p></li>
 </ul>
 </dd>
 </dl>
diff --git a/api/kqcircuits.simulations.simulation.html b/api/kqcircuits.simulations.simulation.html
index 5c5216c3d..b6e650868 100644
--- a/api/kqcircuits.simulations.simulation.html
+++ b/api/kqcircuits.simulations.simulation.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.single_element_simulation.html b/api/kqcircuits.simulations.single_element_simulation.html
index adbb0fb9a..d9f505b6a 100644
--- a/api/kqcircuits.simulations.single_element_simulation.html
+++ b/api/kqcircuits.simulations.single_element_simulation.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.single_xmons_full_chip_sim.html b/api/kqcircuits.simulations.single_xmons_full_chip_sim.html
index f4985ff8b..551ce5b34 100644
--- a/api/kqcircuits.simulations.single_xmons_full_chip_sim.html
+++ b/api/kqcircuits.simulations.single_xmons_full_chip_sim.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.waveguides_sim.html b/api/kqcircuits.simulations.waveguides_sim.html
index f4a5e2031..e7aa628ac 100644
--- a/api/kqcircuits.simulations.waveguides_sim.html
+++ b/api/kqcircuits.simulations.waveguides_sim.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/api/kqcircuits.simulations.xmons_direct_coupling_full_chip_sim.html b/api/kqcircuits.simulations.xmons_direct_coupling_full_chip_sim.html
index 610044126..d6703e094 100644
--- a/api/kqcircuits.simulations.xmons_direct_coupling_full_chip_sim.html
+++ b/api/kqcircuits.simulations.xmons_direct_coupling_full_chip_sim.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.simulations.xmons_direct_coupling_sim.html b/api/kqcircuits.simulations.xmons_direct_coupling_sim.html
index 73dad0cc0..f224234aa 100644
--- a/api/kqcircuits.simulations.xmons_direct_coupling_sim.html
+++ b/api/kqcircuits.simulations.xmons_direct_coupling_sim.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.test_structures.airbridge_dc.html b/api/kqcircuits.test_structures.airbridge_dc.html
index a1b1605ff..4dc8ad8e5 100644
--- a/api/kqcircuits.test_structures.airbridge_dc.html
+++ b/api/kqcircuits.test_structures.airbridge_dc.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.test_structures.cross_test.html b/api/kqcircuits.test_structures.cross_test.html
index 721f8eef7..d3910ded0 100644
--- a/api/kqcircuits.test_structures.cross_test.html
+++ b/api/kqcircuits.test_structures.cross_test.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.test_structures.html b/api/kqcircuits.test_structures.html
index 59d5ec3a6..d66c9d08e 100644
--- a/api/kqcircuits.test_structures.html
+++ b/api/kqcircuits.test_structures.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.test_structures.junction_test_pads.html b/api/kqcircuits.test_structures.junction_test_pads.html
index 9e78d804a..5206c302c 100644
--- a/api/kqcircuits.test_structures.junction_test_pads.html
+++ b/api/kqcircuits.test_structures.junction_test_pads.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads.html b/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads.html
index faddcfd55..77c951668 100644
--- a/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads.html
+++ b/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads_simple.html b/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads_simple.html
index bd8002c25..8c059d28a 100644
--- a/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads_simple.html
+++ b/api/kqcircuits.test_structures.junction_test_pads.junction_test_pads_simple.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/api/kqcircuits.test_structures.stripes_test.html b/api/kqcircuits.test_structures.stripes_test.html
index b7e81b7d3..b18b7462b 100644
--- a/api/kqcircuits.test_structures.stripes_test.html
+++ b/api/kqcircuits.test_structures.stripes_test.html
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/api/kqcircuits.test_structures.stripes_test_increasing_width.html b/api/kqcircuits.test_structures.stripes_test_increasing_width.html
index 06dead69e..16c0c4ab7 100644
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+++ b/api/kqcircuits.test_structures.stripes_test_increasing_width.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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 </ul>
diff --git a/api/kqcircuits.test_structures.test_structure.html b/api/kqcircuits.test_structures.test_structure.html
index 5dd67f8ce..ef57feadb 100644
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
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@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/api/kqcircuits.test_structures.tsv_test_pattern.html b/api/kqcircuits.test_structures.tsv_test_pattern.html
index d95d0754e..f7a1e558d 100644
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@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/api/kqcircuits.util.area.html b/api/kqcircuits.util.area.html
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+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -411,7 +412,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/api/kqcircuits.util.count_instances.html b/api/kqcircuits.util.count_instances.html
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@@ -392,6 +392,7 @@
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+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
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@@ -410,7 +411,7 @@
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diff --git a/api/kqcircuits.util.coupler_lib.html b/api/kqcircuits.util.coupler_lib.html
index 384bd7c2d..6e41f3f6d 100644
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@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
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diff --git a/api/kqcircuits.util.deep_delete.html b/api/kqcircuits.util.deep_delete.html
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-    <link rel="next" title="kqcircuits.util.dependencies" href="kqcircuits.util.dependencies.html" />
+    <link rel="next" title="kqcircuits.util.defaults_helper" href="kqcircuits.util.defaults_helper.html" />
     <link rel="prev" title="kqcircuits.util.coupler_lib" href="kqcircuits.util.coupler_lib.html" /> 
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@@ -392,6 +392,7 @@
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@@ -410,7 +411,7 @@
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-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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-        <a href="kqcircuits.util.dependencies.html" class="btn btn-neutral float-right" title="kqcircuits.util.dependencies" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
+        <a href="kqcircuits.util.defaults_helper.html" class="btn btn-neutral float-right" title="kqcircuits.util.defaults_helper" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
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diff --git a/api/kqcircuits.util.replace_squids.html b/api/kqcircuits.util.defaults_helper.html
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rename to api/kqcircuits.util.defaults_helper.html
index 9fb03d07b..2ffaef8ae 100644
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+  <title>kqcircuits.util.defaults_helper &mdash; KQCircuits  documentation</title>
       <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
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+    <link rel="next" title="kqcircuits.util.dependencies" href="kqcircuits.util.dependencies.html" />
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@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -445,9 +446,9 @@
       <li><a href="../index.html" class="icon icon-home" aria-label="Home"></a></li>
           <li class="breadcrumb-item"><a href="kqcircuits.html">API documentation</a></li>
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-      <li class="breadcrumb-item active">kqcircuits.util.replace_squids</li>
+      <li class="breadcrumb-item active">kqcircuits.util.defaults_helper</li>
       <li class="wy-breadcrumbs-aside">
-              <a href="https://github.com/iqm-finland/KQCircuits/blob/main/docs/api/kqcircuits.util.replace_squids.rst" class="fa fa-github"> Edit on GitHub</a>
+              <a href="https://github.com/iqm-finland/KQCircuits/blob/main/docs/api/kqcircuits.util.defaults_helper.rst" class="fa fa-github"> Edit on GitHub</a>
       </li>
   </ul>
   <hr/>
@@ -455,72 +456,23 @@
           <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
            <div itemprop="articleBody">
              
-  <section id="module-kqcircuits.util.replace_squids">
-<span id="kqcircuits-util-replace-squids"></span><h1>kqcircuits.util.replace_squids<a class="headerlink" href="#module-kqcircuits.util.replace_squids" title="Permalink to this headline"></a></h1>
-<p>Functions to replace SQUIDs in existing design files.</p>
-<p>Typical usage in a macro:</p>
-<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">top_cell</span> <span class="o">=</span> <span class="n">KLayoutView</span><span class="p">(</span><span class="n">current</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span><span class="o">.</span><span class="n">active_cell</span>
-<span class="n">replace_squids</span><span class="p">(</span><span class="n">top_cell</span><span class="p">,</span> <span class="s2">&quot;MySQUID&quot;</span><span class="p">,</span> <span class="s2">&quot;junction_width&quot;</span><span class="p">,</span> <span class="mf">0.5</span><span class="p">,</span> <span class="mf">0.1</span><span class="p">)</span>  <span class="c1"># a parameter sweep</span>
-<span class="n">replace_squid</span><span class="p">(</span><span class="n">top_cell</span><span class="p">,</span> <span class="s2">&quot;QB_2&quot;</span><span class="p">,</span> <span class="s2">&quot;MySQUID&quot;</span><span class="p">,</span> <span class="n">mirror</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>          <span class="c1"># replace an individual SQUID</span>
-</pre></div>
-</div>
-<dl class="py function">
-<dt class="sig sig-object py" id="kqcircuits.util.replace_squids.replace_squids">
-<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_squids.</span></span><span class="sig-name descname"><span class="pre">replace_squids</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junction_type</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_name</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_start</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_step</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_end</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_squids.html#replace_squids"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_squids.replace_squids" title="Permalink to this definition"></a></dt>
-<dd><p>Replaces squids by code generated squids with the given parameter sweep.</p>
-<p>All squids below top_cell in the cell hierarchy are removed. The number of code
-generated squids may be limited by the value of parameter_end.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters</dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>cell</strong> (<em>Cell</em>) – The cell where the squids to be replaced are</p></li>
-<li><p><strong>junction_type</strong> – class name of the code generated squid that replaces the other squids</p></li>
-<li><p><strong>parameter_name</strong> (<em>str</em>) – Name of the parameter to be swept</p></li>
-<li><p><strong>parameter_start</strong> – Start value of the parameter</p></li>
-<li><p><strong>parameter_step</strong> – Parameter value increment step</p></li>
-<li><p><strong>parameter_end</strong> – End value of the parameter. If None, there is no limit for the parameter value, so that all
-squids are replaced</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
-<dl class="py function">
-<dt class="sig sig-object py" id="kqcircuits.util.replace_squids.replace_squid">
-<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_squids.</span></span><span class="sig-name descname"><span class="pre">replace_squid</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">top_cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">inst_name</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junction_type</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">mirror</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">squid_index</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">params</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_squids.html#replace_squid"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_squids.replace_squid" title="Permalink to this definition"></a></dt>
-<dd><p>Replaces a SQUID by the requested alternative in the named instance.</p>
-<p>Replaces the SQUID(s) in the sub-element(s) named <code class="docutils literal notranslate"><span class="pre">inst_name</span></code> with other SQUID(s) of
-<code class="docutils literal notranslate"><span class="pre">junction_type</span></code>. The necessary SQUID parameters are specified in <code class="docutils literal notranslate"><span class="pre">params</span></code>. If <code class="docutils literal notranslate"><span class="pre">inst_name</span></code> is
-a Test Structure then <code class="docutils literal notranslate"><span class="pre">squid_index</span></code> specifies which SQUID to change.</p>
-<dl class="field-list simple">
-<dt class="field-odd">Parameters</dt>
-<dd class="field-odd"><ul class="simple">
-<li><p><strong>top_cell</strong> – The top cell with SQUIDs to be replaced</p></li>
-<li><p><strong>inst_name</strong> – Instance name of PCell containing the SQUID to be replaced</p></li>
-<li><p><strong>junction_type</strong> – Name of SQUID Class or .gds/.oas file</p></li>
-<li><p><strong>mirror</strong> – Mirror the SQUID along its vertical axis</p></li>
-<li><p><strong>squid_index</strong> – Index of the SQUID to be replaced within a Test Structure</p></li>
-<li><p><strong>**params</strong> – Extra parameters for the new SQUID</p></li>
-</ul>
-</dd>
-</dl>
-</dd></dl>
-
+  <section id="module-kqcircuits.util.defaults_helper">
+<span id="kqcircuits-util-defaults-helper"></span><h1>kqcircuits.util.defaults_helper<a class="headerlink" href="#module-kqcircuits.util.defaults_helper" title="Permalink to this headline"></a></h1>
 <dl class="py function">
-<dt class="sig sig-object py" id="kqcircuits.util.replace_squids.convert_cells_to_static">
-<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_squids.</span></span><span class="sig-name descname"><span class="pre">convert_cells_to_static</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">layout</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_squids.html#convert_cells_to_static"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_squids.convert_cells_to_static" title="Permalink to this definition"></a></dt>
-<dd><p>Converts all cells in the layout to static.</p>
+<dt class="sig sig-object py" id="kqcircuits.util.defaults_helper.find_ansys_executable">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.defaults_helper.</span></span><span class="sig-name descname"><span class="pre">find_ansys_executable</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">default</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/defaults_helper.html#find_ansys_executable"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.defaults_helper.find_ansys_executable" title="Permalink to this definition"></a></dt>
+<dd><p>Finds latest Ansys Electronics executable from default installation locations. Returns ‘default’ if not found.</p>
 </dd></dl>
 
-<img alt="../_images/kqcircuits.util.replace_squids.png" src="../_images/kqcircuits.util.replace_squids.png" />
+<img alt="../_images/kqcircuits.util.defaults_helper.png" src="../_images/kqcircuits.util.defaults_helper.png" />
 </section>
 
 
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           <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
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+        <a href="kqcircuits.util.deep_delete.html" class="btn btn-neutral float-left" title="kqcircuits.util.deep_delete" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
+        <a href="kqcircuits.util.dependencies.html" class="btn btn-neutral float-right" title="kqcircuits.util.dependencies" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
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diff --git a/api/kqcircuits.util.dependencies.html b/api/kqcircuits.util.dependencies.html
index f0f02a4cc..ab76d68c0 100644
--- a/api/kqcircuits.util.dependencies.html
+++ b/api/kqcircuits.util.dependencies.html
@@ -23,7 +23,7 @@
     <link rel="index" title="Index" href="../genindex.html" />
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     <link rel="next" title="kqcircuits.util.edit_node_plugin" href="kqcircuits.util.edit_node_plugin.html" />
-    <link rel="prev" title="kqcircuits.util.deep_delete" href="kqcircuits.util.deep_delete.html" /> 
+    <link rel="prev" title="kqcircuits.util.defaults_helper" href="kqcircuits.util.defaults_helper.html" /> 
 </head>
 
 <body class="wy-body-for-nav"> 
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -472,7 +473,7 @@
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           <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
-        <a href="kqcircuits.util.deep_delete.html" class="btn btn-neutral float-left" title="kqcircuits.util.deep_delete" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
+        <a href="kqcircuits.util.defaults_helper.html" class="btn btn-neutral float-left" title="kqcircuits.util.defaults_helper" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
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diff --git a/api/kqcircuits.util.edit_node_plugin.html b/api/kqcircuits.util.edit_node_plugin.html
index 721de7f92..e1a846f24 100644
--- a/api/kqcircuits.util.edit_node_plugin.html
+++ b/api/kqcircuits.util.edit_node_plugin.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.export_helper.html b/api/kqcircuits.util.export_helper.html
index 55dbe0d37..4a38c1eba 100644
--- a/api/kqcircuits.util.export_helper.html
+++ b/api/kqcircuits.util.export_helper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.geometry_helper.html b/api/kqcircuits.util.geometry_helper.html
index bf1ab6764..8dd07e05d 100644
--- a/api/kqcircuits.util.geometry_helper.html
+++ b/api/kqcircuits.util.geometry_helper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.geometry_json_encoder.html b/api/kqcircuits.util.geometry_json_encoder.html
index c4bd58435..c5ce11806 100644
--- a/api/kqcircuits.util.geometry_json_encoder.html
+++ b/api/kqcircuits.util.geometry_json_encoder.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.groundgrid.html b/api/kqcircuits.util.groundgrid.html
index bea936ff5..7b2510066 100644
--- a/api/kqcircuits.util.groundgrid.html
+++ b/api/kqcircuits.util.groundgrid.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.gui_helper.html b/api/kqcircuits.util.gui_helper.html
index 96d1403f7..70efe4a1c 100644
--- a/api/kqcircuits.util.gui_helper.html
+++ b/api/kqcircuits.util.gui_helper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.html b/api/kqcircuits.util.html
index 69d9f3a4e..167f56a1e 100644
--- a/api/kqcircuits.util.html
+++ b/api/kqcircuits.util.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -462,6 +463,7 @@ <h1>kqcircuits.util<a class="headerlink" href="#kqcircuits-util" title="Permalin
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -480,7 +482,7 @@ <h1>kqcircuits.util<a class="headerlink" href="#kqcircuits-util" title="Permalin
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l1"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 </ul>
 </div>
diff --git a/api/kqcircuits.util.import_helper.html b/api/kqcircuits.util.import_helper.html
index 75dd4cbe7..af8e5348a 100644
--- a/api/kqcircuits.util.import_helper.html
+++ b/api/kqcircuits.util.import_helper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.label.html b/api/kqcircuits.util.label.html
index e4cd0571f..c1181164a 100644
--- a/api/kqcircuits.util.label.html
+++ b/api/kqcircuits.util.label.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.layout_to_code.html b/api/kqcircuits.util.layout_to_code.html
index b4fa6a596..65276c9d9 100644
--- a/api/kqcircuits.util.layout_to_code.html
+++ b/api/kqcircuits.util.layout_to_code.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.library_helper.html b/api/kqcircuits.util.library_helper.html
index 08c728765..66627f64d 100644
--- a/api/kqcircuits.util.library_helper.html
+++ b/api/kqcircuits.util.library_helper.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.log_router.html b/api/kqcircuits.util.log_router.html
index fb67fc453..ba87d66e9 100644
--- a/api/kqcircuits.util.log_router.html
+++ b/api/kqcircuits.util.log_router.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
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diff --git a/api/kqcircuits.util.merge.html b/api/kqcircuits.util.merge.html
index c4440baee..83f46ffcd 100644
--- a/api/kqcircuits.util.merge.html
+++ b/api/kqcircuits.util.merge.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.netlist_extraction.html b/api/kqcircuits.util.netlist_extraction.html
index 52efe649c..c51acca07 100644
--- a/api/kqcircuits.util.netlist_extraction.html
+++ b/api/kqcircuits.util.netlist_extraction.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.netlist_graph.html b/api/kqcircuits.util.netlist_graph.html
index 620ef8901..d3b5b3f9b 100644
--- a/api/kqcircuits.util.netlist_graph.html
+++ b/api/kqcircuits.util.netlist_graph.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.parameters.html b/api/kqcircuits.util.parameters.html
index 0c0fa0cd9..67710f5d9 100644
--- a/api/kqcircuits.util.parameters.html
+++ b/api/kqcircuits.util.parameters.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/api/kqcircuits.util.plugin_startup.html b/api/kqcircuits.util.plugin_startup.html
index fbacd0ad9..b4fb0a985 100644
--- a/api/kqcircuits.util.plugin_startup.html
+++ b/api/kqcircuits.util.plugin_startup.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
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diff --git a/api/kqcircuits.util.refpoints.html b/api/kqcircuits.util.refpoints.html
index 062bb482a..c93950029 100644
--- a/api/kqcircuits.util.refpoints.html
+++ b/api/kqcircuits.util.refpoints.html
@@ -22,7 +22,7 @@
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     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="kqcircuits.util.replace_squids" href="kqcircuits.util.replace_squids.html" />
+    <link rel="next" title="kqcircuits.util.replace_junctions" href="kqcircuits.util.replace_junctions.html" />
     <link rel="prev" title="kqcircuits.util.plugin_startup" href="kqcircuits.util.plugin_startup.html" /> 
 </head>
 
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -674,7 +675,7 @@
           </div>
           <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
         <a href="kqcircuits.util.plugin_startup.html" class="btn btn-neutral float-left" title="kqcircuits.util.plugin_startup" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
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+        <a href="kqcircuits.util.replace_junctions.html" class="btn btn-neutral float-right" title="kqcircuits.util.replace_junctions" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
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   <hr/>
diff --git a/api/kqcircuits.util.replace_junctions.html b/api/kqcircuits.util.replace_junctions.html
new file mode 100644
index 000000000..a2eda5254
--- /dev/null
+++ b/api/kqcircuits.util.replace_junctions.html
@@ -0,0 +1,605 @@
+<!DOCTYPE html>
+<html class="writer-html5" lang="en" >
+<head>
+  <meta charset="utf-8" /><meta name="generator" content="Docutils 0.17.1: http://docutils.sourceforge.net/" />
+
+  <meta name="viewport" content="width=device-width, initial-scale=1.0" />
+  <title>kqcircuits.util.replace_junctions &mdash; KQCircuits  documentation</title>
+      <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
+      <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
+      <link rel="stylesheet" href="../_static/graphviz.css" type="text/css" />
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+    <link rel="index" title="Index" href="../genindex.html" />
+    <link rel="search" title="Search" href="../search.html" />
+    <link rel="next" title="kqcircuits.util.symmetric_polygons" href="kqcircuits.util.symmetric_polygons.html" />
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+<li class="toctree-l2"><a class="reference internal" href="../installation.html#known-installation-issues">Known installation issues</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../installation.html#installing-different-python-package-versions-to-klayout-manually">Installing different Python package versions to KLayout manually</a></li>
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+<li class="toctree-l1"><a class="reference internal" href="../salt.html">Getting started (Salt package)</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="../salt.html#installing-kqcircuits-salt-package">Installing KQCircuits Salt Package</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../salt.html#first-look-around">First look around</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../salt.html#setting-up-a-user-package-directory">Setting up a user package directory</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../salt.html#defining-a-custom-element">Defining a custom element</a></li>
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+<li class="toctree-l2"><a class="reference internal" href="../salt.html#upgrading-or-removing-salt-package">Upgrading or Removing Salt Package</a></li>
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+</ul>
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+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#useful-hotkeys">Useful hotkeys</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#introduction-to-elements">Introduction to Elements</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#placing-elements">Placing Elements</a></li>
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+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#modifying-waveguides">Modifying waveguides</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#editing-waveguidecomposite-nodes">Editing WaveguideComposite Nodes</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#converting-elements-placed-in-gui-into-code">Converting elements placed in GUI into code</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/gui_features.html#useful-menu-commands">Useful Menu Commands</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/gui_workflow.html">Point-and-click workflow tutorial</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/python_workflow.html">Python workflow tutorial</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#file-system-hierarchy">File system hierarchy</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#structure-of-element-code">Structure of Element code</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#element-class"><code class="xref py py-class docutils literal notranslate"><span class="pre">Element</span></code> class</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#libraries">Libraries</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#parameters">Parameters</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#build">Build</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#example-of-defining-an-element-class">Example of defining an <code class="xref py py-class docutils literal notranslate"><span class="pre">Element</span></code> class</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#example-of-defining-a-chip-and-inserting-elements-into-it">Example of defining a Chip and inserting elements into it</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#defining-sampleholder-types">Defining sampleholder types</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#refpoints">Refpoints</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#kqcircuits-layers">KQCircuits’ Layers</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#faces">Faces</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#layer-configuration-files">Layer configuration files</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/python_workflow.html#adding-a-new-face">Adding a new face</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/python_workflow.html#opening-element-or-chip-from-an-ide">Opening <code class="xref py py-class docutils literal notranslate"><span class="pre">Element</span></code> or <code class="xref py py-class docutils literal notranslate"><span class="pre">Chip</span></code> from an IDE</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/macro_workflow.html">Macro development</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/macro_workflow.html#running-the-first-example">Running the first example</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/macro_workflow.html#interacting-with-the-klayout-application">Interacting with the KLayout application</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/macro_workflow.html#creating-a-new-panel">Creating a new panel</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/macro_workflow.html#accessing-the-currently-active-panel">Accessing the currently active panel</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/macro_workflow.html#using-klayoutview">Using <code class="docutils literal notranslate"><span class="pre">KLayoutView</span></code></a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/macro_workflow.html#debugger">Debugger</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/macro_workflow.html#reloading-libraries">Reloading libraries</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/macro_workflow.html#examples">Examples</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/mask_export.html">Mask export</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/mask_export.html#tutorial">Tutorial</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/mask_export.html#basic-mask-script-and-export">Basic mask script and export</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/mask_export.html#ground-grid">Ground grid</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/mask_export.html#adding-and-modifying-chips">Adding and modifying chips</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/mask_export.html#multi-face-masks">Multi-face masks</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/mask_export.html#composite-mask-maps">Composite mask maps</a></li>
+</ul>
+</li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/simulations.html">External simulation tools</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/simulation/simulation_objects.html">Simulation objects</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_objects.html#the-simulation-class">The Simulation class</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_objects.html#simulation-subclass">Simulation subclass</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_objects.html#geometry-sweeps">Geometry sweeps</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/simulation/simulation_scripts.html">Export functions</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_scripts.html#ansys-export">Ansys export</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_scripts.html#elmer-export">Elmer export</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_scripts.html#geometry-from-klayout-gui">Geometry from Klayout GUI</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/simulation/simulation_features.html">Simulation features</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_features.html#s-parameter-matrix">S-parameter matrix</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_features.html#capacitance-matrix">Capacitance matrix</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_features.html#eigenmode">Eigenmode</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_features.html#energy-integrals-and-participation-ratio">Energy integrals and participation ratio</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_features.html#cross-sectional-simulations">Cross-sectional simulations</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../user_guide/simulation/simulation_features.html#pyepr">pyEPR</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/simulation/gmsh_elmer_export.html">Gmsh/Elmer export</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/simulation/export_and_run.html">Run and export in one line</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/simulation/elmer_remote_workflow.html">Elmer remote simulations workflow</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/file_system_and_utilities.html">General Structure and Miscellaneous Utilities</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/file_system_and_utilities.html#file-system-hierarchy">File system hierarchy</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/file_system_and_utilities.html#miscellaneous-utilities">Miscellaneous Utilities</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/xsection.html">Creating cross section images</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/xsection.html#klayout-gui-xsection-tool">KLayout GUI XSection tool</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/xsection.html#xsection-call-in-kqc-code">XSection call in KQC code</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../user_guide/xsection.html#process-files-xs">Process files (.xs)</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../user_guide/terminology.html">Terminology</a></li>
+</ul>
+</li>
+<li class="toctree-l1"><a class="reference internal" href="../developer/index.html">Developer Guide</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="../developer/setup.html">Developer Setup</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#prerequisites">Prerequisites</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../developer/setup.html#python">Python</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#sources">Sources</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#install">Install</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#unlinking">Unlinking</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#update">Update</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#secondary-install">Secondary install</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/setup.html#manual-installation">Manual installation</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../developer/setup.html#linux-or-macos">Linux or MacOS</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../developer/setup.html#windows">Windows</a></li>
+</ul>
+</li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../developer/standalone.html">KLayout Standalone Usage</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../developer/standalone.html#prerequisites">Prerequisites</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/standalone.html#installation">Installation</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="../developer/standalone.html#standard-not-secure-installation">Standard, Not Secure Installation</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../developer/standalone.html#reproducible-secure-installation">Reproducible, Secure Installation</a></li>
+<li class="toctree-l4"><a class="reference internal" href="../developer/standalone.html#pypi-installation">PyPI Installation</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/standalone.html#usage">Usage</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/standalone.html#jupyter-notebook-usage">Jupyter notebook usage</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/standalone.html#updating-the-required-dependencies">Updating the required dependencies</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../developer/containers.html">Containers</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../developer/containers.html#cli-usage">CLI usage</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/containers.html#docker-ci-usage">Docker CI usage</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/containers.html#singularity-usage">Singularity usage</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../developer/architecture.html">Architecture</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../developer/architecture.html#elements">Elements</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/architecture.html#pcell-parameters">PCell parameters</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/architecture.html#libraries">Libraries</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../developer/architecture.html#pya-resolver">pya resolver</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../developer/testing.html">Testing</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../developer/testing.html#unit-tests">Unit tests</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../developer/coding_style.html">Coding Style</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../developer/documentation.html">Documentation</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../contributing.html">Contributing</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="../contributing.html#versioning">Versioning</a></li>
+</ul>
+</li>
+</ul>
+</li>
+<li class="toctree-l1 current"><a class="reference internal" href="kqcircuits.html">API documentation</a><ul class="current">
+<li class="toctree-l2"><a class="reference internal" href="kqcircuits.chips.html">kqcircuits.chips</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.airbridge_crossings.html">kqcircuits.chips.airbridge_crossings</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.airbridge_dc_test.html">kqcircuits.chips.airbridge_dc_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.chip.html">kqcircuits.chips.chip</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.crossing_twoface.html">kqcircuits.chips.crossing_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.daisy_woven.html">kqcircuits.chips.daisy_woven</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.dc_test.html">kqcircuits.chips.dc_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.demo.html">kqcircuits.chips.demo</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.demo_twoface.html">kqcircuits.chips.demo_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.empty.html">kqcircuits.chips.empty</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.junction_test.html">kqcircuits.chips.junction_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.junction_test2.html">kqcircuits.chips.junction_test2</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.launchers.html">kqcircuits.chips.launchers</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.lithography_test.html">kqcircuits.chips.lithography_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.lithography_test_twoface.html">kqcircuits.chips.lithography_test_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.quality_factor.html">kqcircuits.chips.quality_factor</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.quality_factor_twoface.html">kqcircuits.chips.quality_factor_twoface</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.sample_holder_test.html">kqcircuits.chips.sample_holder_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.shaping.html">kqcircuits.chips.shaping</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.simple.html">kqcircuits.chips.simple</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.single_xmons.html">kqcircuits.chips.single_xmons</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.stripes.html">kqcircuits.chips.stripes</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.tsv_test.html">kqcircuits.chips.tsv_test</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.xmons_direct_coupling.html">kqcircuits.chips.xmons_direct_coupling</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.chips.html#module-kqcircuits.chips">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="kqcircuits.elements.html">kqcircuits.elements</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.airbridges.html">kqcircuits.elements.airbridges</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.airbridges.airbridge.html">kqcircuits.elements.airbridges.airbridge</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.airbridges.airbridge_multi_face.html">kqcircuits.elements.airbridges.airbridge_multi_face</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.airbridges.airbridge_rectangular.html">kqcircuits.elements.airbridges.airbridge_rectangular</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.airbridges.html#module-kqcircuits.elements.airbridges">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.flip_chip_connectors.html">kqcircuits.elements.flip_chip_connectors</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.flip_chip_connectors.flip_chip_connector.html">kqcircuits.elements.flip_chip_connectors.flip_chip_connector</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc.html">kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf.html">kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.flip_chip_connectors.html#module-kqcircuits.elements.flip_chip_connectors">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.fluxlines.html">kqcircuits.elements.fluxlines</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.fluxlines.fluxline.html">kqcircuits.elements.fluxlines.fluxline</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.fluxlines.fluxline_standard.html">kqcircuits.elements.fluxlines.fluxline_standard</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.fluxlines.fluxline_straight.html">kqcircuits.elements.fluxlines.fluxline_straight</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.fluxlines.html#module-kqcircuits.elements.fluxlines">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.markers.html">kqcircuits.elements.markers</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.markers.marker.html">kqcircuits.elements.markers.marker</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.markers.marker_standard.html">kqcircuits.elements.markers.marker_standard</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.markers.mask_marker_fc.html">kqcircuits.elements.markers.mask_marker_fc</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.markers.html#module-kqcircuits.elements.markers">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.tsvs.html">kqcircuits.elements.tsvs</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.tsvs.tsv.html">kqcircuits.elements.tsvs.tsv</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.tsvs.tsv_ellipse.html">kqcircuits.elements.tsvs.tsv_ellipse</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.tsvs.tsv_standard.html">kqcircuits.elements.tsvs.tsv_standard</a></li>
+<li class="toctree-l4"><a class="reference internal" href="kqcircuits.elements.tsvs.html#module-kqcircuits.elements.tsvs">Module contents</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.airbridge_connection.html">kqcircuits.elements.airbridge_connection</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.capacitive_x_coupler.html">kqcircuits.elements.capacitive_x_coupler</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.chip_frame.html">kqcircuits.elements.chip_frame</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.circular_capacitor.html">kqcircuits.elements.circular_capacitor</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.element.html">kqcircuits.elements.element</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.finger_capacitor_square.html">kqcircuits.elements.finger_capacitor_square</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.finger_capacitor_taper.html">kqcircuits.elements.finger_capacitor_taper</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.hanger_resonator.html">kqcircuits.elements.hanger_resonator</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.launcher.html">kqcircuits.elements.launcher</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.launcher_dc.html">kqcircuits.elements.launcher_dc</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.meander.html">kqcircuits.elements.meander</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.smooth_capacitor.html">kqcircuits.elements.smooth_capacitor</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.spiral_resonator_polygon.html">kqcircuits.elements.spiral_resonator_polygon</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.elements.waveguide_composite.html">kqcircuits.elements.waveguide_composite</a></li>
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+  <section id="module-kqcircuits.util.replace_junctions">
+<span id="kqcircuits-util-replace-junctions"></span><h1>kqcircuits.util.replace_junctions<a class="headerlink" href="#module-kqcircuits.util.replace_junctions" title="Permalink to this headline"></a></h1>
+<p>Functions to tune and replace junctions in existing design files.</p>
+<p>See scripts/macros/export/export_tuned_junctions.lym for a use case of these functions</p>
+<dl class="py class">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.JunctionEntry">
+<em class="property"><span class="pre">class</span><span class="w"> </span></em><span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">JunctionEntry</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">class_type</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">type</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">trans</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">klayout.dbcore.DCplxTrans</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameters</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">Dict</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parent_name</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">str</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">name</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">str</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#JunctionEntry"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.JunctionEntry" title="Permalink to this definition"></a></dt>
+<dd><p>Bases: <code class="xref py py-class docutils literal notranslate"><span class="pre">object</span></code></p>
+<p>All junction properties we want to store when extracting junctions</p>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.extract_junctions">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">extract_junctions</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">top_cell</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">klayout.dbcore.Cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">tuned_junction_parameters</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">Dict</span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">List</span><span class="p"><span class="pre">[</span></span><a class="reference internal" href="#kqcircuits.util.replace_junctions.JunctionEntry" title="kqcircuits.util.replace_junctions.JunctionEntry"><span class="pre">kqcircuits.util.replace_junctions.JunctionEntry</span></a><span class="p"><span class="pre">]</span></span></span></span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#extract_junctions"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.extract_junctions" title="Permalink to this definition"></a></dt>
+<dd><p>Extracts all junction elements placed in the <cite>top_cell</cite>.
+Junction parameters are tuned according to <cite>tuned_junction_parameters</cite> dict.</p>
+<p><cite>tuned_junction_parameters</cite> is a dict with junction’s parent cell name as key,
+where parent cell is an element that contains the junction, e.g. “QB1”, “testarray_nw” etc.
+The value is also a dict, with junction cell’s name as key, e.g “squid”, “squid_0”, “squid_3” etc.
+For example testarray cells may have multiple junction cells.
+Then <cite>tuned_junction_parameters[parent_name][name]</cite> is a dict of junction parameters.</p>
+<p>If <cite>top_cell</cite> has pcell data, the parameter values that are missing in <cite>tuned_junction_parameters</cite>
+can be inferred from the Junction PCell’s values. So <cite>tuned_junction_parameters</cite> may only contain
+parameter values that are different from how junctions were defined in <cite>top_cell</cite>.</p>
+<p>If <cite>top_cell</cite> has no pcell data, <cite>tuned_junction_parameters</cite> must include all parameter keys
+of the junction parameter schema for each junction contained in the <cite>top_cell</cite>,
+even if the parameter values are the same as were used to construct <cite>top_cell</cite>.
+If that is not the case, <cite>extract_junctions</cite> will raise an exception.</p>
+<p>Returns a list of <cite>JunctionEntry</cite> objects that can be used to place the extracted junctions
+into another cell that has tuned parameters but is otherwise identical in shape, placement and orientation.</p>
+<p>Junction type may also be changed, if <cite>junction_type</cite> is tuned to have some other junction class name.
+For every junction that has its <cite>junction_type</cite> changed, even if the cell contains PCell data,
+<cite>tuned_junction_parameters</cite> should have at least all parameters present that are in the new junction type
+but not in the old junction type.</p>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.place_junctions">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">place_junctions</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">top_cell</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">klayout.dbcore.Cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junctions</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">List</span><span class="p"><span class="pre">[</span></span><a class="reference internal" href="#kqcircuits.util.replace_junctions.JunctionEntry" title="kqcircuits.util.replace_junctions.JunctionEntry"><span class="pre">kqcircuits.util.replace_junctions.JunctionEntry</span></a><span class="p"><span class="pre">]</span></span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">None</span></span></span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#place_junctions"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.place_junctions" title="Permalink to this definition"></a></dt>
+<dd><p>Places <cite>junctions</cite> to <cite>top_cell</cite> in the same location and orientation as in
+the cell they were extracted from, but with possibly tuned parameters.</p>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.get_tuned_junction_json">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">get_tuned_junction_json</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">junctions</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">List</span><span class="p"><span class="pre">[</span></span><a class="reference internal" href="#kqcircuits.util.replace_junctions.JunctionEntry" title="kqcircuits.util.replace_junctions.JunctionEntry"><span class="pre">kqcircuits.util.replace_junctions.JunctionEntry</span></a><span class="p"><span class="pre">]</span></span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">Dict</span></span></span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#get_tuned_junction_json"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.get_tuned_junction_json" title="Permalink to this definition"></a></dt>
+<dd><p>Returns a jsonable dict of all junction parameters for each junction entry in <cite>junctions</cite>.</p>
+<p>If junctions were extracted from a cell with pcell data, the json can be extracted to
+have an exhaustive list of all junction parameters so that junctions can then be tuned
+using a cell with no pcell data, which is faster to read.</p>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.copy_one_layer_of_cell">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">copy_one_layer_of_cell</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">write_path</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">str</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">top_cell</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">klayout.dbcore.Cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junctions</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">List</span><span class="p"><span class="pre">[</span></span><a class="reference internal" href="#kqcircuits.util.replace_junctions.JunctionEntry" title="kqcircuits.util.replace_junctions.JunctionEntry"><span class="pre">kqcircuits.util.replace_junctions.JunctionEntry</span></a><span class="p"><span class="pre">]</span></span></span></em>, <em class="sig-param"><span class="n"><span class="pre">layer_string</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">str</span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">None</span></span></span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#copy_one_layer_of_cell"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.copy_one_layer_of_cell" title="Permalink to this definition"></a></dt>
+<dd><p>Extracts all geometry in <cite>top_cell</cite> at layer <cite>layer_string</cite>
+and saves the geometry into a new file at <cite>write_path</cite>.
+The face of the layer is determined from <cite>junctions</cite> parameters.</p>
+<p>This can be used to extract geometry of alignment markers as well as other geometry
+to visualize junctions within a context of surrounding elements.
+The file at <cite>write_path</cite> may be loaded later and junctions may be placed using
+<cite>place_junctions</cite> into the top cell of the file, then saved again.</p>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.replace_squids">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">replace_squids</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junction_type</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_name</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_start</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_step</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">parameter_end</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#replace_squids"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.replace_squids" title="Permalink to this definition"></a></dt>
+<dd><p>DEPRECATED! Replaces squids by code generated squids with the given parameter sweep.</p>
+<p>All squids below top_cell in the cell hierarchy are removed. The number of code
+generated squids may be limited by the value of parameter_end.</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><ul class="simple">
+<li><p><strong>cell</strong> (<em>Cell</em>) – The cell where the squids to be replaced are</p></li>
+<li><p><strong>junction_type</strong> – class name of the code generated squid that replaces the other squids</p></li>
+<li><p><strong>parameter_name</strong> (<em>str</em>) – Name of the parameter to be swept</p></li>
+<li><p><strong>parameter_start</strong> – Start value of the parameter</p></li>
+<li><p><strong>parameter_step</strong> – Parameter value increment step</p></li>
+<li><p><strong>parameter_end</strong> – End value of the parameter. If None, there is no limit for the parameter value, so that all
+squids are replaced</p></li>
+</ul>
+</dd>
+</dl>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.replace_squid">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">replace_squid</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">top_cell</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">inst_name</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">junction_type</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">mirror</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">False</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">squid_index</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">0</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">params</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#replace_squid"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.replace_squid" title="Permalink to this definition"></a></dt>
+<dd><p>DEPRECATED! Replaces a SQUID by the requested alternative in the named instance.</p>
+<p>Replaces the SQUID(s) in the sub-element(s) named <code class="docutils literal notranslate"><span class="pre">inst_name</span></code> with other SQUID(s) of
+<code class="docutils literal notranslate"><span class="pre">junction_type</span></code>. The necessary SQUID parameters are specified in <code class="docutils literal notranslate"><span class="pre">params</span></code>. If <code class="docutils literal notranslate"><span class="pre">inst_name</span></code> is
+a Test Structure then <code class="docutils literal notranslate"><span class="pre">squid_index</span></code> specifies which SQUID to change.</p>
+<dl class="field-list simple">
+<dt class="field-odd">Parameters</dt>
+<dd class="field-odd"><ul class="simple">
+<li><p><strong>top_cell</strong> – The top cell with SQUIDs to be replaced</p></li>
+<li><p><strong>inst_name</strong> – Instance name of PCell containing the SQUID to be replaced</p></li>
+<li><p><strong>junction_type</strong> – Name of SQUID Class or .gds/.oas file</p></li>
+<li><p><strong>mirror</strong> – Mirror the SQUID along its vertical axis</p></li>
+<li><p><strong>squid_index</strong> – Index of the SQUID to be replaced within a Test Structure</p></li>
+<li><p><strong>**params</strong> – Extra parameters for the new SQUID</p></li>
+</ul>
+</dd>
+</dl>
+</dd></dl>
+
+<dl class="py function">
+<dt class="sig sig-object py" id="kqcircuits.util.replace_junctions.convert_cells_to_static">
+<span class="sig-prename descclassname"><span class="pre">kqcircuits.util.replace_junctions.</span></span><span class="sig-name descname"><span class="pre">convert_cells_to_static</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">layout</span></span></em><span class="sig-paren">)</span><a class="reference internal" href="../_modules/kqcircuits/util/replace_junctions.html#convert_cells_to_static"><span class="viewcode-link"><span class="pre">[source]</span></span></a><a class="headerlink" href="#kqcircuits.util.replace_junctions.convert_cells_to_static" title="Permalink to this definition"></a></dt>
+<dd><p>DEPRECATED! Converts all cells in the layout to static.</p>
+</dd></dl>
+
+<img alt="../_images/kqcircuits.util.replace_junctions.png" src="../_images/kqcircuits.util.replace_junctions.png" />
+</section>
+
+
+           </div>
+          </div>
+          <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
+        <a href="kqcircuits.util.refpoints.html" class="btn btn-neutral float-left" title="kqcircuits.util.refpoints" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
+        <a href="kqcircuits.util.symmetric_polygons.html" class="btn btn-neutral float-right" title="kqcircuits.util.symmetric_polygons" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
+    </div>
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+    <p>&#169; Copyright 2021-2024, IQM.</p>
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diff --git a/api/kqcircuits.util.symmetric_polygons.html b/api/kqcircuits.util.symmetric_polygons.html
index df2ba68a8..3679c52a9 100644
--- a/api/kqcircuits.util.symmetric_polygons.html
+++ b/api/kqcircuits.util.symmetric_polygons.html
@@ -23,7 +23,7 @@
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     <link rel="next" title="kqcircuits.defaults" href="kqcircuits.defaults.html" />
-    <link rel="prev" title="kqcircuits.util.replace_squids" href="kqcircuits.util.replace_squids.html" /> 
+    <link rel="prev" title="kqcircuits.util.replace_junctions" href="kqcircuits.util.replace_junctions.html" /> 
 </head>
 
 <body class="wy-body-for-nav"> 
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3 current"><a class="current reference internal" href="#">kqcircuits.util.symmetric_polygons</a></li>
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 </ul>
@@ -512,7 +513,7 @@
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           <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
-        <a href="kqcircuits.util.replace_squids.html" class="btn btn-neutral float-left" title="kqcircuits.util.replace_squids" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
+        <a href="kqcircuits.util.replace_junctions.html" class="btn btn-neutral float-left" title="kqcircuits.util.replace_junctions" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
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diff --git a/citing.html b/citing.html
index 25effd36b..f9dd89de1 100644
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+++ b/citing.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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@@ -410,7 +411,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/contributing.html b/contributing.html
index 883ccbc76..62b59fcb1 100644
--- a/contributing.html
+++ b/contributing.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/architecture.html b/developer/architecture.html
index 2a2d636f7..48a8fb544 100644
--- a/developer/architecture.html
+++ b/developer/architecture.html
@@ -392,6 +392,7 @@
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 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/coding_style.html b/developer/coding_style.html
index 8dfda4418..2f2e4702f 100644
--- a/developer/coding_style.html
+++ b/developer/coding_style.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/containers.html b/developer/containers.html
index 823add722..b4ad1eb03 100644
--- a/developer/containers.html
+++ b/developer/containers.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/documentation.html b/developer/documentation.html
index fb74ec4a8..365e78a6b 100644
--- a/developer/documentation.html
+++ b/developer/documentation.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/index.html b/developer/index.html
index d2b869f48..c7acd1c63 100644
--- a/developer/index.html
+++ b/developer/index.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/setup.html b/developer/setup.html
index 91b710448..8738bc914 100644
--- a/developer/setup.html
+++ b/developer/setup.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/standalone.html b/developer/standalone.html
index df280f5a3..34c6da398 100644
--- a/developer/standalone.html
+++ b/developer/standalone.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/developer/testing.html b/developer/testing.html
index 5b258c072..8029dab3b 100644
--- a/developer/testing.html
+++ b/developer/testing.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/genindex.html b/genindex.html
index fe193e611..a8509e2e5 100644
--- a/genindex.html
+++ b/genindex.html
@@ -389,6 +389,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -407,7 +408,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -810,16 +811,18 @@ <h2 id="C">C</h2>
       <li><a href="api/kqcircuits.simulations.export.sonnet.parser.html#kqcircuits.simulations.export.sonnet.parser.control">control() (in module kqcircuits.simulations.export.sonnet.parser)</a>
 </li>
       <li><a href="api/kqcircuits.util.layout_to_code.html#kqcircuits.util.layout_to_code.convert_cells_to_code">convert_cells_to_code() (in module kqcircuits.util.layout_to_code)</a>
+</li>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.convert_cells_to_static">convert_cells_to_static() (in module kqcircuits.util.replace_junctions)</a>
 </li>
   </ul></td>
   <td style="width: 33%; vertical-align: top;"><ul>
-      <li><a href="api/kqcircuits.util.replace_squids.html#kqcircuits.util.replace_squids.convert_cells_to_static">convert_cells_to_static() (in module kqcircuits.util.replace_squids)</a>
-</li>
       <li><a href="api/kqcircuits.util.merge.html#kqcircuits.util.merge.convert_child_instances_to_static">convert_child_instances_to_static() (in module kqcircuits.util.merge)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.export.ansys.ansys_export.html#kqcircuits.simulations.export.ansys.ansys_export.copy_ansys_scripts_to_directory">copy_ansys_scripts_to_directory() (in module kqcircuits.simulations.export.ansys.ansys_export)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.export.elmer.elmer_export.html#kqcircuits.simulations.export.elmer.elmer_export.copy_elmer_scripts_to_directory">copy_elmer_scripts_to_directory() (in module kqcircuits.simulations.export.elmer.elmer_export)</a>
+</li>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.copy_one_layer_of_cell">copy_one_layer_of_cell() (in module kqcircuits.util.replace_junctions)</a>
 </li>
       <li><a href="api/kqcircuits.elements.element.html#kqcircuits.elements.element.Element.copy_port">copy_port() (kqcircuits.elements.element.Element method)</a>
 </li>
@@ -1011,10 +1014,10 @@ <h2 id="E">E</h2>
 </li>
       <li><a href="api/kqcircuits.masks.mask_export.html#kqcircuits.masks.mask_export.export_docs">export_docs() (in module kqcircuits.masks.mask_export)</a>
 </li>
-  </ul></td>
-  <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="api/kqcircuits.masks.mask_set.html#kqcircuits.masks.mask_set.MaskSet.export_drc">export_drc (kqcircuits.masks.mask_set.MaskSet attribute)</a>
 </li>
+  </ul></td>
+  <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="api/kqcircuits.util.export_helper.html#kqcircuits.util.export_helper.export_drc_report">export_drc_report() (in module kqcircuits.util.export_helper)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.export.elmer.elmer_export.html#kqcircuits.simulations.export.elmer.elmer_export.export_elmer">export_elmer() (in module kqcircuits.simulations.export.elmer.elmer_export)</a>
@@ -1022,6 +1025,8 @@ <h2 id="E">E</h2>
       <li><a href="api/kqcircuits.simulations.export.elmer.elmer_export.html#kqcircuits.simulations.export.elmer.elmer_export.export_elmer_json">export_elmer_json() (in module kqcircuits.simulations.export.elmer.elmer_export)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.export.elmer.elmer_export.html#kqcircuits.simulations.export.elmer.elmer_export.export_elmer_script">export_elmer_script() (in module kqcircuits.simulations.export.elmer.elmer_export)</a>
+</li>
+      <li><a href="api/kqcircuits.masks.mask_export.html#kqcircuits.masks.mask_export.export_junction_parameters">export_junction_parameters() (in module kqcircuits.masks.mask_export)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.export.util.html#kqcircuits.simulations.export.util.export_layers">export_layers() (in module kqcircuits.simulations.export.util)</a>
 </li>
@@ -1052,6 +1057,8 @@ <h2 id="E">E</h2>
       <li><a href="api/kqcircuits.layer_cluster.html#kqcircuits.layer_cluster.LayerCluster.extra_layers">extra_layers (kqcircuits.layer_cluster.LayerCluster attribute)</a>
 </li>
       <li><a href="api/kqcircuits.util.netlist_extraction.html#kqcircuits.util.netlist_extraction.extract_circuits">extract_circuits() (in module kqcircuits.util.netlist_extraction)</a>
+</li>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.extract_junctions">extract_junctions() (in module kqcircuits.util.replace_junctions)</a>
 </li>
       <li><a href="api/kqcircuits.util.netlist_extraction.html#kqcircuits.util.netlist_extraction.extract_nets">extract_nets() (in module kqcircuits.util.netlist_extraction)</a>
 </li>
@@ -1093,12 +1100,14 @@ <h2 id="F">F</h2>
 </li>
       <li><a href="api/kqcircuits.simulations.simulation.html#kqcircuits.simulations.simulation.Simulation.face_z_levels">face_z_levels() (kqcircuits.simulations.simulation.Simulation method)</a>
 </li>
-      <li><a href="api/kqcircuits.simulations.export.util.html#kqcircuits.simulations.export.util.find_edge_from_point_in_cell">find_edge_from_point_in_cell() (in module kqcircuits.simulations.export.util)</a>
+      <li><a href="api/kqcircuits.util.defaults_helper.html#kqcircuits.util.defaults_helper.find_ansys_executable">find_ansys_executable() (in module kqcircuits.util.defaults_helper)</a>
 </li>
-      <li><a href="api/kqcircuits.simulations.export.util.html#kqcircuits.simulations.export.util.find_edge_from_point_in_polygons">find_edge_from_point_in_polygons() (in module kqcircuits.simulations.export.util)</a>
+      <li><a href="api/kqcircuits.simulations.export.util.html#kqcircuits.simulations.export.util.find_edge_from_point_in_cell">find_edge_from_point_in_cell() (in module kqcircuits.simulations.export.util)</a>
 </li>
   </ul></td>
   <td style="width: 33%; vertical-align: top;"><ul>
+      <li><a href="api/kqcircuits.simulations.export.util.html#kqcircuits.simulations.export.util.find_edge_from_point_in_polygons">find_edge_from_point_in_polygons() (in module kqcircuits.simulations.export.util)</a>
+</li>
       <li><a href="api/kqcircuits.simulations.export.xsection.xsection_export.html#kqcircuits.simulations.export.xsection.xsection_export.find_layer_by_name">find_layer_by_name() (in module kqcircuits.simulations.export.xsection.xsection_export)</a>
 </li>
       <li><a href="api/kqcircuits.elements.finger_capacitor_square.html#kqcircuits.elements.finger_capacitor_square.FingerCapacitorSquare.finger_area_length">finger_area_length() (kqcircuits.elements.finger_capacitor_square.FingerCapacitorSquare method)</a>
@@ -1205,10 +1214,10 @@ <h2 id="G">G</h2>
 </li>
       <li><a href="api/kqcircuits.util.layout_to_code.html#kqcircuits.util.layout_to_code.get_node_params">get_node_params() (in module kqcircuits.util.layout_to_code)</a>
 </li>
-  </ul></td>
-  <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="api/kqcircuits.util.gui_helper.html#kqcircuits.util.gui_helper.get_nodes_near_position">get_nodes_near_position() (in module kqcircuits.util.gui_helper)</a>
 </li>
+  </ul></td>
+  <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="api/kqcircuits.util.geometry_helper.html#kqcircuits.util.geometry_helper.get_object_path_length">get_object_path_length() (in module kqcircuits.util.geometry_helper)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.cross_section_simulation.html#kqcircuits.simulations.cross_section_simulation.CrossSectionSimulation.get_parameters">get_parameters() (kqcircuits.simulations.cross_section_simulation.CrossSectionSimulation method)</a>
@@ -1278,6 +1287,8 @@ <h2 id="G">G</h2>
       <li><a href="api/kqcircuits.simulations.simulation.html#kqcircuits.simulations.simulation.get_simulation_layer_by_name">get_simulation_layer_by_name() (in module kqcircuits.simulations.simulation)</a>
 </li>
       <li><a href="api/kqcircuits.simulations.single_element_simulation.html#kqcircuits.simulations.single_element_simulation.get_single_element_sim_class">get_single_element_sim_class() (in module kqcircuits.simulations.single_element_simulation)</a>
+</li>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.get_tuned_junction_json">get_tuned_junction_json() (in module kqcircuits.util.replace_junctions)</a>
 </li>
       <li><a href="api/kqcircuits.util.gui_helper.html#kqcircuits.util.gui_helper.get_valid_node_elements">get_valid_node_elements() (in module kqcircuits.util.gui_helper)</a>
 </li>
@@ -1349,12 +1360,14 @@ <h2 id="J">J</h2>
   <td style="width: 33%; vertical-align: top;"><ul>
       <li><a href="api/kqcircuits.junctions.junction.html#kqcircuits.junctions.junction.Junction">Junction (class in kqcircuits.junctions.junction)</a>
 </li>
-      <li><a href="api/kqcircuits.util.refpoints.html#kqcircuits.util.refpoints.JunctionSimPort">JunctionSimPort (class in kqcircuits.util.refpoints)</a>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.JunctionEntry">JunctionEntry (class in kqcircuits.util.replace_junctions)</a>
 </li>
-      <li><a href="api/kqcircuits.chips.junction_test.html#kqcircuits.chips.junction_test.JunctionTest">JunctionTest (class in kqcircuits.chips.junction_test)</a>
+      <li><a href="api/kqcircuits.util.refpoints.html#kqcircuits.util.refpoints.JunctionSimPort">JunctionSimPort (class in kqcircuits.util.refpoints)</a>
 </li>
   </ul></td>
   <td style="width: 33%; vertical-align: top;"><ul>
+      <li><a href="api/kqcircuits.chips.junction_test.html#kqcircuits.chips.junction_test.JunctionTest">JunctionTest (class in kqcircuits.chips.junction_test)</a>
+</li>
       <li><a href="api/kqcircuits.chips.junction_test2.html#kqcircuits.chips.junction_test2.JunctionTest2">JunctionTest2 (class in kqcircuits.chips.junction_test2)</a>
 </li>
       <li><a href="api/kqcircuits.test_structures.junction_test_pads.junction_test_pads.html#kqcircuits.test_structures.junction_test_pads.junction_test_pads.JunctionTestPads">JunctionTestPads (class in kqcircuits.test_structures.junction_test_pads.junction_test_pads)</a>
@@ -2304,6 +2317,13 @@ <h2 id="K">K</h2>
 
       <ul>
         <li><a href="api/kqcircuits.util.deep_delete.html#module-kqcircuits.util.deep_delete">module</a>
+</li>
+      </ul></li>
+      <li>
+    kqcircuits.util.defaults_helper
+
+      <ul>
+        <li><a href="api/kqcircuits.util.defaults_helper.html#module-kqcircuits.util.defaults_helper">module</a>
 </li>
       </ul></li>
       <li>
@@ -2433,10 +2453,10 @@ <h2 id="K">K</h2>
 </li>
       </ul></li>
       <li>
-    kqcircuits.util.replace_squids
+    kqcircuits.util.replace_junctions
 
       <ul>
-        <li><a href="api/kqcircuits.util.replace_squids.html#module-kqcircuits.util.replace_squids">module</a>
+        <li><a href="api/kqcircuits.util.replace_junctions.html#module-kqcircuits.util.replace_junctions">module</a>
 </li>
       </ul></li>
       <li>
@@ -2873,6 +2893,8 @@ <h2 id="M">M</h2>
         <li><a href="api/kqcircuits.util.coupler_lib.html#module-kqcircuits.util.coupler_lib">kqcircuits.util.coupler_lib</a>
 </li>
         <li><a href="api/kqcircuits.util.deep_delete.html#module-kqcircuits.util.deep_delete">kqcircuits.util.deep_delete</a>
+</li>
+        <li><a href="api/kqcircuits.util.defaults_helper.html#module-kqcircuits.util.defaults_helper">kqcircuits.util.defaults_helper</a>
 </li>
         <li><a href="api/kqcircuits.util.dependencies.html#module-kqcircuits.util.dependencies">kqcircuits.util.dependencies</a>
 </li>
@@ -2910,7 +2932,7 @@ <h2 id="M">M</h2>
 </li>
         <li><a href="api/kqcircuits.util.refpoints.html#module-kqcircuits.util.refpoints">kqcircuits.util.refpoints</a>
 </li>
-        <li><a href="api/kqcircuits.util.replace_squids.html#module-kqcircuits.util.replace_squids">kqcircuits.util.replace_squids</a>
+        <li><a href="api/kqcircuits.util.replace_junctions.html#module-kqcircuits.util.replace_junctions">kqcircuits.util.replace_junctions</a>
 </li>
         <li><a href="api/kqcircuits.util.symmetric_polygons.html#module-kqcircuits.util.symmetric_polygons">kqcircuits.util.symmetric_polygons</a>
 </li>
@@ -2990,6 +3012,8 @@ <h2 id="P">P</h2>
 </li>
       </ul></li>
       <li><a href="api/kqcircuits.util.parameters.html#kqcircuits.util.parameters.pdt">pdt (class in kqcircuits.util.parameters)</a>
+</li>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.place_junctions">place_junctions() (in module kqcircuits.util.replace_junctions)</a>
 </li>
       <li><a href="api/kqcircuits.util.geometry_helper.html#kqcircuits.util.geometry_helper.point_shift_along_vector">point_shift_along_vector() (in module kqcircuits.util.geometry_helper)</a>
 </li>
@@ -3259,9 +3283,9 @@ <h2 id="R">R</h2>
 </li>
       <li><a href="api/kqcircuits.util.gui_helper.html#kqcircuits.util.gui_helper.replace_node">replace_node() (in module kqcircuits.util.gui_helper)</a>
 </li>
-      <li><a href="api/kqcircuits.util.replace_squids.html#kqcircuits.util.replace_squids.replace_squid">replace_squid() (in module kqcircuits.util.replace_squids)</a>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.replace_squid">replace_squid() (in module kqcircuits.util.replace_junctions)</a>
 </li>
-      <li><a href="api/kqcircuits.util.replace_squids.html#kqcircuits.util.replace_squids.replace_squids">replace_squids() (in module kqcircuits.util.replace_squids)</a>
+      <li><a href="api/kqcircuits.util.replace_junctions.html#kqcircuits.util.replace_junctions.replace_squids">replace_squids() (in module kqcircuits.util.replace_junctions)</a>
 </li>
       <li><a href="api/kqcircuits.klayout_view.html#kqcircuits.klayout_view.resolve_default_layer_info">resolve_default_layer_info() (in module kqcircuits.klayout_view)</a>
 </li>
diff --git a/index.html b/index.html
index 1b419b013..61b563f36 100644
--- a/index.html
+++ b/index.html
@@ -391,6 +391,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -409,7 +410,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/installation.html b/installation.html
index 15a146f8a..aee6f6d57 100644
--- a/installation.html
+++ b/installation.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/objects.inv b/objects.inv
index 5671bda07..c0ca82486 100644
Binary files a/objects.inv and b/objects.inv differ
diff --git a/py-modindex.html b/py-modindex.html
index a877f9f55..a5e749610 100644
--- a/py-modindex.html
+++ b/py-modindex.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
@@ -1129,6 +1130,11 @@ <h1>Python Module Index</h1>
        <td>&#160;&#160;&#160;
        <a href="api/kqcircuits.util.deep_delete.html#module-kqcircuits.util.deep_delete"><code class="xref">kqcircuits.util.deep_delete</code></a></td><td>
        <em></em></td></tr>
+     <tr class="cg-1">
+       <td></td>
+       <td>&#160;&#160;&#160;
+       <a href="api/kqcircuits.util.defaults_helper.html#module-kqcircuits.util.defaults_helper"><code class="xref">kqcircuits.util.defaults_helper</code></a></td><td>
+       <em></em></td></tr>
      <tr class="cg-1">
        <td></td>
        <td>&#160;&#160;&#160;
@@ -1222,7 +1228,7 @@ <h1>Python Module Index</h1>
      <tr class="cg-1">
        <td></td>
        <td>&#160;&#160;&#160;
-       <a href="api/kqcircuits.util.replace_squids.html#module-kqcircuits.util.replace_squids"><code class="xref">kqcircuits.util.replace_squids</code></a></td><td>
+       <a href="api/kqcircuits.util.replace_junctions.html#module-kqcircuits.util.replace_junctions"><code class="xref">kqcircuits.util.replace_junctions</code></a></td><td>
        <em></em></td></tr>
      <tr class="cg-1">
        <td></td>
diff --git a/salt.html b/salt.html
index ac38854cf..8e28153d6 100644
--- a/salt.html
+++ b/salt.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/search.html b/search.html
index db4ae251f..cd24bc578 100644
--- a/search.html
+++ b/search.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
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index eef7ad52c..9f6c9dfdf 100644
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3,113,132,156,175],add_instance_nam:143,add_mask_layout:[82,174],add_met:[28,61,62,63,65,66],add_multi_face_mask_layout:[82,83],add_paramet:[149,156,180],add_parameters_from:[149,156,180],add_port:36,add_protect:36,add_waveguid:37,added_chip:81,addit:[5,13,28,34,36,61,62,63,65,66,69,70,77,81,87,93,95,110,113,115,116,117,118,123,155,158,170,174,175,179],addition:[158,178,180],adher:155,adjac:[28,61,113,137,139],adjust:[36,38,61,170],admin:177,administr:161,advanc:[170,173],affect:[113,155,164,178],affor:158,after:[2,13,27,61,62,69,70,77,87,98,113,114,123,149,158,161,166,169,171,173,174,175,178,181,185],afterok:178,again:[158,161,173,174],against:169,agreement:155,air:110,airbridg:[1,3,4,17,18,27,28,36,51,53,54,56,61,64,113,120,144,151,170,180],airbridge_connect:[1,27],airbridge_cross:[1,2],airbridge_dc:[1,119],airbridge_dc_test:[1,2],airbridge_flyov:180,airbridge_height:113,airbridge_multi_fac:[1,27,29],airbridge_rectangular:[1,27,29],airbridge_typ:[28,30,31,32,56,61,64],airbridgeconnect:[28,61],airbridgecross:3,airbridgedc:120,airbridgedctest:4,airbridgemultifac:31,airbridgerectangular:32,airbridges_sim:[1,92],airbridgessim:93,alessandro:154,align:[36,53,61,74,81,89,113,121,136,140,170,174,175],align_to:[36,74,81,113,174,175],all:[5,11,27,30,33,35,36,37,42,47,55,59,61,62,64,74,80,81,82,83,86,87,90,94,100,101,104,110,111,113,130,137,138,140,143,144,146,149,152,156,157,158,162,163,166,169,170,171,173,174,175,177,178,179,180,181],all_lay:75,alloc:178,allow:[36,61,62,74,81,89,98,100,113,123,138,156,162,164,166,170,178,179,184],allow_nan:138,almost:[11,147,175],alon:[134,169,182],along:[5,56,100,152,185],alpha1:62,alpha2:62,alpha:63,alreadi:[56,74,98,103,110,161,162,171,174,175],also:[25,27,36,48,54,61,62,63,65,74,81,82,83,84,85,89,90,100,113,118,123,125,126,127,131,136,138,143,144,145,147,149,156,158,159,161,162,163,164,165,166,169,170,173,174,175,176,178,179,180,182,184],alt_netlist:[80,82,147],altern:[54,56,61,62,82,103,113,147,152,161,178,179,181],although:175,alwai:[2,147,162,166,175,179],among:[158,164],amount:[62,113,137,176,178],an:[3,5,25,27,28,30,31,35,36,41,42,61,62,63,74,77,81,82,83,89,98,100,110,113,114,120,124,132,136,137,138,140,143,147,148,149,151,152,153,156,161,162,165,166,170,172,173,174,176,178,179,180,181,182,183,184,185],analog:147,analysi:[24,98,100,107,179],ancestor:[36,94,113,156],andrew:154,angl:[35,61,62,63,64,86,137,140],angular:86,ani:[3,6,18,61,62,68,73,74,82,83,93,94,95,98,113,114,115,116,117,118,124,140,144,150,155,156,161,162,166,167,170,174,175,178,179,180,181,182],anim:170,annot:[36,59,62,63,77,159,169,175],annotation_lay:62,anoth:[77,87,88,90,137,138,151,156,161,170,175],ansi:[1,92,96,113,172,178,179,180,182],ansys_execut:181,ansys_export:[1,92,96,97,179,181],ansys_project_templ:98,ansys_tool:[98,179],anyth:170,anywai:[170,175],anywher:[146,166],api:[84,149,155,159,162,164,166,170,171,173,175,178,179,180,181,183],apidoc:159,appdata:[161,165,177],appear:[61,166,170,171,173,183],append:[113,137,145,147,148,180],appli:[13,24,28,31,36,37,56,61,63,74,81,82,83,87,111,113,114,123,127,128,156,170,180],applic:[74,136,137,171,172,184],apply_templ:106,approach:[163,166,178,180],appropri:[89,151,155,156,175],approri:61,approv:155,approxim:113,aptli:175,ar:[2,3,5,6,19,22,27,29,32,36,48,61,62,63,64,67,74,77,79,81,82,83,89,94,96,98,100,101,103,107,110,111,113,117,119,127,129,131,136,137,138,140,143,144,145,146,147,148,149,150,152,154,155,156,157,158,159,161,162,163,164,165,166,169,170,171,173,174,175,176,177,178,179,180,181,182,183,185],arbitrari:[61,62,138,175],arc:[63,86,137],arc_point:137,architectur:[16,160,164,175],archiv:183,ard24:[14,17],area:[1,13,42,51,54,61,69,73,74,81,87,89,107,111,112,123,124,127,129,139,166,170,175,180],area_height:[13,123],area_width:[13,123],areareceiv:130,arg:[101,103,130,136,138,158],argument:[5,33,35,36,37,42,47,51,55,61,74,82,83,86,87,89,90,93,94,95,98,101,103,110,113,114,115,116,117,118,123,140,149,158,174,175,180,181,182],arithmet:62,arm:[25,37,89,90,117,118,121,123,175],arm_length:[53,89,90,123,175,180],arm_length_500:180,arm_width:[53,90,175],arm_width_a:[25,117,118],arm_width_b:[25,117,118],around:[5,18,28,34,35,36,37,51,62,63,74,81,113,136,137,142,156,164,169,170,171,174,180],arrai:[3,5,24,81,82,124,138,183],arrang:170,array_form:24,array_layout:24,arrow:[53,173],arrow_numb:53,as_dict:112,ascend:113,ascii:138,aspect:[74,89],assembl:164,assign:[5,170,175],associ:[61,74,148,173],assum:[25,62,63,74,82,118,165,171,179,180],ast:[61,140],asterisk:173,attach:[18,81,144,174],attempt:[56,138,147,161],attribut:[25,36,80,112,118,149,156,157],author:[0,154],auto:[35,37,55,175],auto_spac:56,autom:[162,164,182,185],automat:[13,38,54,56,61,69,74,79,81,84,98,123,143,156,158,159,161,162,165,166,169,170,173,174,175,176,178],auxiliari:[77,174],avail:[36,74,89,100,110,113,156,166,170,175,178,179,181,185],avoid:[2,5,13,18,24,28,31,34,36,37,56,61,62,63,87,113,123,127,128,139,142,145,146,164,170,174,175],avoid_region:139,awai:[111,137,140,175],axi:[5,13,23,62,86,89,100,123,136,152,153],b2:[28,35,36,37,42,55,61,64,66],b:[13,18,24,28,30,31,35,36,37,38,42,48,55,56,61,64,66,77,87,88,113,117,123,128,137,151],b_cap:5,b_launcher:48,b_list:64,b_number:3,back:[61,175,176],backend:158,background:[74,176],background_color:74,backward:[155,162,185],bad:[98,100],badg:154,base:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,27,28,30,31,32,33,34,35,36,37,38,40,41,42,44,45,46,47,48,49,51,52,53,54,55,56,58,59,60,61,62,63,64,65,66,68,69,70,71,72,73,74,75,81,82,83,86,87,88,89,90,92,93,94,95,111,112,113,115,116,117,118,120,121,123,124,125,126,127,128,130,135,137,138,142,149,151,156,161,169,174,175,178,179,180],base_metal_addit:[5,146,175],base_metal_gap:[5,77,146,175],base_metal_gap_for_ebl:[89,123],base_metal_gap_wo_grid:[5,89,121,123,125,126,146,147,166,170,175],basenam:176,bash:176,basi:[138,156,180],basic:[113,161,169,170,171,172,173,183],bat:[98,181],batch:[98,181],bbox:130,bbox_face_id:[81,82,83],beam:89,becaus:[161,173,174],becom:[17,61,77,173,180],been:[0,61,82,113,144,158,165,166,174],befor:[5,36,61,62,74,82,113,140,150,161,170,181],begin:[17,56,63,126,174,176],begin_shapes_rec:62,behav:36,behavior:[61,74,138],behind:166,being:[27,77,175],belong:[27,77,147,175],below:[22,28,56,113,131,143,152,154,161,169,173,174,175,176,178,179,180,182],below_spac:56,bend:[17,54,61,62,180],benefici:178,benefit:178,bent:62,best:[33,35,36,37,42,47,55,86,87,90,162,175],better:[157,158,163,180],between:[5,6,9,10,12,13,17,18,22,23,24,28,31,33,34,36,37,38,40,42,55,56,59,60,61,62,77,87,90,98,110,113,118,121,123,125,126,127,128,130,137,139,147,164,170,179,180],bewar:161,bezier:137,bezier_point:137,bib:154,bicgstab:100,big:[100,174],big_loop_height:69,bigger:74,bigsur:165,bill:178,bin:[158,176],binari:177,bit:[156,165,171,175],bitmap:[80,82],black:156,block:[170,175],bodi:156,bold:[74,170,173],bond:77,bonu:61,bool:[100,101,103,106,112,113,136,137,146],border:[17,113],both:[17,18,28,29,31,36,61,68,73,84,113,151,156,159,161,163,174,178,180,181],bottom:[6,32,40,56,71,72,77,81,110,113,151,156,171,174,175,180],bottomleft:142,bottomright:142,bound:[5,34,54,61,81,89,113,123,139,142,147,170],boundari:[94,100,113,179],boundary_condit:100,boundbox:139,box:[5,17,18,34,51,54,74,81,82,89,94,106,110,113,114,121,123,139,142,147,151,166,170,171,172,174,175,182,183],box_map:82,box_margin:51,box_siz:140,bp_gap_x:69,bp_height:69,bracket:162,branch:[158,166,173],brand:[5,34],breakdown:147,breakpoint:173,bridg:[28,30,31,32,54,56,61,64,93,175],bridge_dist:64,bridge_gap_width:28,bridge_length:[28,30,56,175],bridge_spac:[18,56],bridge_width:[28,30,31,56],bridges_bottom:56,bridges_left:56,bridges_right:56,bridges_top:56,brief:[130,135],bring:170,broken:166,brought:[113,151],browser:184,bsd:178,bspline_point:137,bt:106,bug:[163,173],bugfix:165,build:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,28,31,32,33,34,35,36,37,38,41,42,45,46,47,48,49,52,53,54,55,56,59,60,61,62,63,64,65,66,69,70,71,72,81,82,86,87,90,93,94,95,113,115,116,117,118,120,121,124,125,126,128,143,144,156,158,159,161,162,165,166,170,172,174,176,178,179,180,181,182],builder:[151,180],built:[113,158,159,166,170,175,180,184],builtin:157,bulk:98,bump:[5,31,40,42,56,61,113,116,155,180],bump_box:5,bump_diamet:[31,40,56,61],bump_edge_to_bump_edge_separ:5,bump_grid_spac:5,button:[135,171,173],bx:[56,61,62],c03:81,c:[64,82,117,156],c_i_i:179,c_i_j:179,c_kappa_l_fing:25,calcualt:81,calcul:[61,81,89,98,112,123,170,175,179],call:[5,36,55,61,82,93,94,95,110,113,115,116,117,118,130,138,143,144,146,147,156,163,166,172,173,174,175,177,178,179,180,181,183],callabl:[110,114],caller:156,can:[2,5,18,22,27,35,36,51,54,56,61,62,67,68,73,74,77,79,80,82,83,85,86,93,94,95,107,111,113,115,116,117,118,124,136,137,138,140,143,148,151,154,156,158,162,163,165,166,169,170,173,174,175,176,177,178,179,180,181,182,183,184,185],can_create_from_shape_impl:[5,37,38,54,55,62],cancel:173,cannot:[54,61,140,175,176],canva:166,cap:[5,18],cap_finger_nr:[9,10],cap_param:[18,132],cap_refpoint:175,cap_res_dist:18,capac:106,capacit:[33,55,87,88,98,100,112,118,151,172,178,180,182],capacitancematrix:178,capacitive_x_coupl:[1,27],capacitivexcoupl:33,capacitor:[17,18,33,35,37,38,55,61,132,147,170,175],capit:166,captur:140,care:[36,137,161,163],carefulli:[98,100,155,180],carri:[13,24,28,31,36,37,56,61,87,113,123,128],caspar:154,cat:176,caught:173,caus:[98,100,114,137,138,161],cd:[161,162,163],cell:[5,15,16,30,33,35,36,37,42,44,47,51,54,55,58,61,62,68,73,74,80,81,82,86,87,89,90,92,93,94,95,108,110,113,114,115,116,117,118,123,130,131,132,133,136,137,140,142,143,144,146,147,151,152,156,162,170,171,173,174,175,180,181,183],cell_fil:136,cell_inst:36,cell_list:146,cell_map:147,cell_mark:[51,53],cell_nam:[147,148],cell_transf:[36,113],cell_typ:148,cell_view:[74,173],cellview:[74,173],center:[3,5,13,17,18,22,24,28,31,32,35,36,37,40,42,47,56,59,60,61,62,63,64,71,72,81,86,87,88,90,113,123,127,128,137,147,151,171,174,180],center_i:117,center_x:117,centerd:174,centr:[64,86],central:[13,174],certain:[27,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:[5,103,163],filter_layer_list:5,filter_region:5,find:[56,84,108,140,144,156,162,163,165,175],find_edge_from_point_in_cel:108,find_edge_from_point_in_polygon:108,find_layer_by_nam:110,fine:[107,149],finger:[13,17,18,22,33,37,38,55,69,70,87,90,123,132],finger_area_length:37,finger_area_width:37,finger_capacitor_squar:[1,27,175],finger_capacitor_tap:[1,27],finger_control:[18,55],finger_gap:[33,37,38,55],finger_gap_end:[33,37],finger_length:[37,38],finger_numb:[33,37,38],finger_overlap:[13,69,70,87,123],finger_overshoot:[13,69,70,87,123],finger_width:[33,37,38,55],fingercapacitorsquar:[37,132,175],fingercapacitortap:38,finish:[103,171,176,178],finland:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185],first:[17,22,36,42,56,61,62,74,77,87,110,113,137,149,151,156,159,161,162,164,170,172,174,175,177,178,180],fit:[74,173,175],fix:[35,37,55,61,98,113,163,165],fixed_length:[35,37,55],fixed_level_stackup:113,flat:[77,81,156],flexibl:[170,180],flip:[5,6,16,18,36,39,40,42,53,61,116,136,170,174,175,180],flip_chip_connector:[1,27],flip_chip_connector_dc:[1,27,39],flip_chip_connector_rf:[1,27,39],flip_fac:136,flipchipconnector:[40,41,42,61],flipchipconnectordc:41,flipchipconnectorrf:[42,175],floor:178,flush:144,flux:[89,117],flux_corn:89,fluxlin:[1,9,22,25,27,36,85,89,90,118],fluxline_gap_width:[44,46,89],fluxline_paramet:[36,44,89],fluxline_standard:[1,27,43],fluxline_straight:[1,27,43],fluxline_typ:[25,44,45,46,89,118,180],fluxline_width:[36,44,46],fluxlinestandard:45,fluxlinestraight:46,flyover:[51,53],focu:[74,173],focus:180,folder:[82,98,100,103,158,159,161,162,163,169,174,175,176,177,178,179,181,182,185],follow:[25,56,61,62,74,77,79,80,93,94,95,113,115,116,117,118,137,138,143,144,148,154,155,156,157,158,161,163,165,166,170,173,174,175,176,178,179,180,181,182,185],forc:[113,161,179],form:[27,61,94,98,100,108,113,143,155,156],format:[61,136,143,154,178,179,181,182],former:61,formul:114,formula:175,forth:179,forward:[113,155,178],found:[84,136,154,158,169,175,178,179,185],four:[9,22,42,51,88,120,127,137,142,147,174],fourth:137,frac:130,fraction:100,fragment:174,fragmet:174,frame:[2,5,34,48,81,170],frame_paramet:5,frames_diagonal_squar:5,frames_dice_width:5,frames_en:[5,6,7,10,16,18],frames_marker_dist:5,frames_mirror:5,framework:[163,164,179,182],free_layer_slot:110,frequenc:[98,100,178,179],frequency_batch:100,frequency_unit:[98,179],froce:103,from:[5,13,18,19,22,28,30,33,34,36,48,51,56,61,62,63,64,67,69,70,74,77,80,81,82,84,85,86,87,88,89,90,93,94,95,98,100,103,108,110,113,115,116,117,118,123,127,130,131,136,137,140,141,142,144,145,147,149,151,155,156,158,159,161,162,164,165,166,169,170,171,172,173,174,176,178,179,180,182,183,184,185],from_cel:[93,95,113,115,116,117,118,180,181],from_seri:61,full:[4,5,63,74,77,84,111,137,148,162,164,165,166,170,175,177,178,180,183],full_region:111,fulli:[113,162,179],further:[82,158,166,174,175,180],g:[64,81,138,175],galvan:[17,40],gap:[5,13,17,18,19,22,24,28,31,33,34,35,36,37,38,42,44,46,47,48,55,56,61,62,63,64,69,70,86,87,89,90,111,113,123,127,128,132,137,146,151,175,180],gap_between_bridg:28,gap_sweep:180,gap_width:[90,180],gd:[80,98,100,113,136,152,169,174,178],gdiff:169,gds_file:113,gdsii:181,gener:[2,5,13,29,36,54,59,62,67,68,73,74,79,81,82,83,85,87,89,94,110,113,119,123,137,139,140,143,147,149,152,158,159,162,164,170,171,172,173,174,175,178,179,181,182,185],generate_probepoints_from_fil:136,generate_probepoints_json:136,geometr:[31,32,40,59,60,137,164],geometri:[13,33,35,36,37,42,47,51,55,59,60,69,86,87,89,90,93,94,95,110,111,113,115,116,117,118,123,147,155,164,166,170,172,173,175,179,182,183,185],geometry_help:[1,129],geometry_json_encod:[1,129],geometryjsondecod:138,geometryjsonencod:138,get:[5,61,74,94,100,110,130,138,147,149,156,158,159,161,162,163,164,165,173,176],get_active_cel:74,get_active_cell_view:74,get_active_layout:74,get_active_or_new_layout:[136,180,181],get_al:149,get_all_node_el:140,get_angl:137,get_area_and_dens:130,get_box:5,get_cell_path_length:137,get_corner_data:62,get_direct:137,get_enclosing_polygon:108,get_filter_region:5,get_ground_bump_loc:5,get_ground_region:37,get_ground_tsv_loc:5,get_klayout_vers:136,get_launcher_assign:5,get_lay:[36,89,113,175],get_library_path:144,get_marker_loc:[51,53],get_marker_region:[51,53],get_mask_layout_full_nam:80,get_node_param:143,get_nodes_near_posit:140,get_object_path_length:137,get_paramet:[94,113],get_partition_region:111,get_pixel:74,get_port_data:113,get_refpoint:[36,113],get_schema:[36,94,113],get_segment_cel:61,get_segment_length:61,get_sim_lay:94,get_sim_port:[33,35,36,37,42,47,55,86,87,90,180],get_simulation_data:[94,113],get_simulation_directori:136,get_simulation_layer_by_nam:113,get_single_element_sim_class:[114,151,180,181],get_valid_node_el:140,get_vertical_dimens:111,ghcr:158,ghz:[98,100,179],git:[136,155,160,161,162,165,169],github:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185],give:[36,113,161,165,166,175,179],given:[5,33,35,36,37,42,47,54,55,56,61,62,74,77,82,86,87,89,90,94,98,110,111,112,113,114,121,123,124,125,126,128,136,137,138,141,142,144,146,149,151,152,156,158,174,175,178,179,180,182],gmsh:[158,172,176,177,181,182],gmsh_helper:178,gmsh_mem:178,gmsh_n_thread:178,gmsh_time:178,go:[36,74,113,154,158,159,171,173,175,180,184],goe:[56,61,137],good:[107,157,174],googl:157,grain:149,graph:[148,156,169],graphic:[62,81,137,166],green:[156,173,180],grid:[2,5,17,34,36,54,61,62,63,65,81,82,83,113,127,139,142,143,170,171,172,175],grid_siz:[113,139],grid_snap:143,grid_step:139,groud:175,ground:[2,5,11,17,34,35,36,37,38,42,47,51,54,55,61,62,63,65,81,82,83,86,87,94,107,112,113,116,132,139,142,170,171,172,175,179,180],ground_edg:113,ground_gap:[35,55,86,87],ground_gap_r:87,ground_gap_ratio:37,ground_grid:[5,146,175],ground_grid_avoid:[18,36,89,175],ground_grid_box:113,ground_grid_in_trac:[17,54,61,62,63,65],ground_grid_region:113,ground_loc:[112,179,180],ground_metal_height:113,ground_pad:37,ground_refpoint:151,ground_width:47,groundgrid:[1,129],group:[13,24,28,31,36,37,56,61,67,77,87,106,107,113,123,128,136,139,166,170,175],group_n:139,growth:55,gsg:[5,42,61],guarante:[137,138,166],gui:[13,24,27,28,31,36,37,54,56,61,62,74,77,87,101,103,113,123,128,136,140,143,156,161,162,164,166,169,171,172,173,175,177,180,182,183,184],gui_help:[1,129],gui_path:61,gui_path_shadow:61,guid:[62,82,116,155,157,158,164,166,170,180],guidanc:182,guide_face_id:116,guthri:154,h:[64,112,118],ha:[0,5,19,22,35,36,37,55,61,69,82,86,90,94,113,136,140,143,148,149,158,161,162,165,166,170,173,174,175,176,178,180],half:[22,88,175],half_width:175,handl:[130,156,170,175,178,182],handler:145,hanger:47,hanger_reson:[1,27],hangerreson:47,happen:150,happi:163,hard:175,hardcod:[170,175],has_tracking_posit:135,hash:[158,162],have:[27,30,33,35,36,37,42,47,51,55,61,62,74,77,81,82,83,85,86,87,90,98,110,113,136,137,143,144,147,149,156,158,159,161,162,163,166,167,170,171,173,174,175,176,177,179,180],head:[5,47,117],head_length:47,heavi:173,height:[13,18,33,70,74,81,87,113,120,123,127,142,180],heinsoo:[0,154],help:[89,123,157,163,164,170,173],helper:[74,83,113,129,137,144,151,162,175,180],henc:181,henri:112,here:[82,145,160,166,170,175,178,183],hfss:[96,98,179,180,182],hfss_capacitance_export:[98,179],hidden:[61,77,149,156,175],hide:175,hierarch:156,hierarchi:[74,81,82,131,143,152,156,163,170,172,173,174],high:[169,185],highest:[98,113,179],highlight:170,hint:138,histori:155,hold:175,holder:[5,8,17,117],hole:[113,139],hollow:113,hollow_tsv:113,home:[158,174],homepath:[161,165],hor_dist:[24,128],horizont:[13,17,22,24,56,70,81,87,123,127,128,153],host:[103,160,176,178],hostnam:103,hotkei:172,hous:51,how:[98,113,156,162,165,166,170,175,176,179,180],howev:[89,113,162,166,170,174,175,178],hpc:158,html:[74,77,158,159,165],http:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185],human:[61,164,169],hyperv:158,i:[5,18,61,64,113,114,147,156,178,179],icon:173,id:[5,6,7,10,13,16,18,24,28,31,36,37,56,61,74,77,82,83,87,113,116,123,128,136,137,148,157,162,172,173,174,184],idea:167,ideal:112,ident:[82,83,147,148,156],identifi:[18,82,147,148,155,174,175,176],ignor:[5,82,113,137,146,151,161,178],ignore_port:[114,180],ilevel:106,illustr:[159,170,180],imag:[74,79,148,158,159,162,164,172,173,174,176,178,179,180],imagin:[113,180],imaginari:112,immedi:185,imped:[35,86,112],implement:[5,13,27,33,35,36,37,38,42,44,47,51,54,55,61,62,63,68,86,87,89,90,94,113,123,136,137,138,143,151,155,175,176,178,180,183],implicitli:61,import_and_simul:98,import_help:[1,129],import_script:98,import_script_fold:98,improv:[162,163,165,185],includ:[7,9,10,13,17,24,27,28,31,36,37,56,61,67,69,70,80,82,83,87,89,94,98,100,113,115,123,128,136,137,138,143,154,158,159,161,164,165,169,170,174,175,179,185],include_base_metal_addit:[70,87],include_base_metal_gap:[13,69,70,87,123],include_bump:[31,56],include_coupl:[9,10,174],include_import:143,incom:138,incompat:155,incomplet:181,incorpor:175,increas:[110,126,158,178],increment:[4,5,13,61,126,140,152],indent:[18,19,138],independ:[56,161,162,178],independentprocess:178,index:[5,18,36,61,62,63,77,108,112,113,140,151,152,164,175],indic:[36,77,113,151,161,175,179,180],indium:[5,42,113,180],indium_bump:175,individu:[61,81,82,83,100,110,113,152,155,162,170,180],induct:[106,112,118,151,179],inel:154,infer:[113,136],infin:138,infinit:[113,138,180],info:[5,103,107,113,145,146,158,178],inform:[75,82,110,113,154,156,166,169,170,174,175,179,180,181,185],inherit:[36,156,175,180],ini:163,initi:[61,74,93,94,95,113,115,116,117,118,143,151,162,173,174],initial_guess:61,initialis:177,inlin:[74,170],inner:[28,86,113,180],input:[7,18,42,56,61,98,100,110,137,140,178,180,185],input_oa:110,input_path:56,insert:[5,27,34,36,56,61,74,81,89,113,123,127,138,143,146,151,162,170,172,180],insert_cel:[25,36,74,113,118,132,143,156,173,175,180],insert_cell_into:36,insert_chip_copy_label:81,insert_filtered_el:5,insert_lay:113,insert_layers_between_fac:113,insert_stacked_up_lay:113,insid:[13,35,55,56,61,69,70,87,94,98,110,112,113,123,138,151,166,170,173,174,175,180,183],inst:[51,53,131],inst_nam:[9,10,36,61,74,113,140,152,175],instal:[134,158,160,164,169,171,175,177,178,181,182,184,185],install_kqc_depend:134,install_softwar:176,instanc:[36,51,61,74,82,83,113,131,132,135,140,143,146,147,148,152,156,161,162,170,171,173,175,179,180,181,182,183],instance_nam:148,instant:165,instanti:[83,151,156,162,180],instantli:164,instead:[61,64,74,82,138,140,143,156,158,161,162,166,170,175,176,178,179,180],instruct:[165,170],insul:113,integ:[5,6,7,10,16,18,81,112,113,137,138,180],integr:[10,27,98,169,170,172,175,182],integrate_energi:[98,179],intend:[94,113,180,185],intent:156,inter:[41,42],inter_bump_dist:[42,61],inter_spac:[12,23],interact:[148,172],interdigit:[17,18,22,132],interest:174,interfac:[61,98,100,110,113,166,179,180],intermedi:98,intermediate_processing_command:[98,179],intern:[94,113,151,170,179,180,181],internal_cel:147,internalport:[112,113,151,180],interpol:[98,179],interpret:184,intersect:108,interv:[103,176],introduc:[94,110,113,180],introduct:172,intuit:175,invalid:138,invers:140,invert:[77,80],io:[158,185],ipolygon:106,ipynb:[162,179],ipython:74,iqm:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185],ironpython:181,is_axisymmetr:100,is_clockwis:137,is_continu:62,is_standalone_sess:84,isinst:131,island1_ext:87,island1_r:87,island1_taper_junction_width:87,island1_taper_width:87,island2_ext:87,island2_r:87,island2_taper_junction_width:87,island2_taper_width:87,island:[35,86,87,88,89,90,179,180],island_island_gap:87,island_r:90,island_splin:88,island_spline_sampl:88,issu:[161,164,166,167,185],item:[113,138,148,151,166],item_separ:138,iter:[61,62,98,100,138,179],ith_valu:113,its:[13,36,56,61,62,81,89,94,98,113,123,136,137,138,152,156,158,161,170,174,175,176],itself:[61,161,162,166,175,179],ivertex:106,ix:130,iy:130,j:[64,179],jann:154,javascript:138,jenei:154,job:176,johann:[0,154],join:[87,88],joint:180,josephson:86,json:[36,98,100,110,136,138,147,148,178,179,181,185],json_filenam:[98,100],jsondecod:138,jsonencod:138,jt1:174,jt2:174,jukka:154,juliusson:154,jun:154,junction:[1,5,9,10,13,22,25,86,87,88,89,112,113,118,122,123,124,151,156,164,166,175,179,180],junction_capacit:118,junction_induct:118,junction_paramet:[13,68,87,89,123],junction_shapes_bottom:69,junction_shapes_top:69,junction_test2:[1,2],junction_test:[1,2],junction_test_pad:[1,119],junction_test_pads_paramet:[13,123],junction_test_pads_simpl:[1,119,122],junction_test_pads_typ:[13,123,124],junction_total_length:[71,72,89,113],junction_typ:[5,9,10,13,22,25,68,69,70,71,72,73,87,89,118,123,152,180],junction_width:[13,68,87,89,123,152],junction_width_larg:13,junction_width_smal:13,junction_width_step:[13,123],junction_width_step_increment_larg:13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137,143,146,148,151,153,159,163,164,170,172,173,175,178,180,183],point_1:62,point_2:62,point_a:61,point_a_corn:61,point_b:61,point_b_corn:61,point_shift_along_vector:137,poli:106,polici:168,poll:[103,176],poll_interv:103,poly_and_edge_indic:107,poly_path:56,polygon:[56,62,63,106,107,108,110,113,137,153,170,175,180,183],polygon_head:106,polygon_path:56,polygon_point:137,polygon_toler:113,polygon_with_hsym:153,polygon_with_sym:153,polygon_with_vsym:[153,175],polymorph:82,polynomi:[100,137],poor:178,pop:173,popul:[74,81,82,143],port:[1,5,13,30,33,35,36,37,38,42,47,48,55,61,64,86,87,89,90,92,93,95,106,107,113,114,115,116,117,118,123,147,151,170,171,172,175,179,181,182],port_2:180,port_2_corn:180,port_3:180,port_3_corn:180,port_a:[32,36,61],port_b:[32,36,61,175],port_b_corn:175,port_common:89,port_cplr0:180,port_cplr0_corn:180,port_cplr1:180,port_cplr1_corn:180,port_cplr2:180,port_cplr2_corn:180,port_id:5,port_id_remap:5,port_ipoli:106,port_nam:64,port_nr:[9,113,180],port_siz:113,port_squid_a:[151,180],port_squid_b:[151,180],port_termination_end:116,port_typ:106,port_width:90,portion:180,portnum:106,pos_start:[25,117],posit:[22,24,27,30,36,54,61,62,63,81,86,89,90,106,136,140,142,143,148,151,170,174,175],position_label:81,position_label_to_two_coordin:81,posixpath:[82,110],possibl:[5,36,51,56,61,62,74,82,89,113,124,149,156,158,161,162,165,166,170,174,175,176,178,179,181,183],post:[5,36,98,100,110,179,182],post_build:[5,36],post_process_script:[98,100,179],post_processing_funct:110,postfix:[81,147,163],potenti:[112,175],power:[165,171],powershel:161,pp:137,pr:155,practic:[33,35,36,37,42,47,55,61,86,87,90,156,169,180],pre:180,preced:61,precis:[62,110,113,164,179],predefin:[14,62,170],prefer:[51,134,156,159,162,171,177,178,183],prefix:[34,36,74,80,100,113,127,162,163,175],prefixless:162,preliminari:18,prepar:[158,178],prepend:137,prerequisit:160,present:[36,113,158,162],press:[166,170,171,173],pretti:138,prevent:138,previou:[13,44,61,68,87,89,123,137,143,161,162,170,173,174,175],primari:[36,161,179],primit:183,principl:[113,140],print:[138,143,144,145,174],print_waveguides_as_composit:143,prio:135,prior:163,prioriti:[138,170],privat:[158,163],priviledg:177,privileg:161,probabl:[157,165],probe:[9,127,136],probe_ground:89,probe_island:89,probe_island_1:89,probe_island_2:89,probeline_nam:[9,10],probepoint:[89,136],problem:[158,161,165,166,167,179],procedur:180,proceed:137,process:[75,77,82,93,95,98,100,110,113,115,116,117,118,151,161,164,166,169,172,174,175,178,179,182],process_path:110,processor:164,produc:[2,5,9,13,18,22,30,34,44,51,56,61,62,63,64,68,73,81,89,110,112,113,115,117,123,124,127,132,140,142,163,174,175,178,180,181,183,185],produce_contact_pad:69,produce_control_lin:[9,10],produce_coupl:[9,10],produce_curve_termin:63,produce_drivelin:[9,10],produce_end_termin:62,produce_etched_region:127,produce_fixed_length_bend:61,produce_fixed_length_waveguid:61,produce_fluxlin:[9,10,89],produce_four_point_pad:127,produce_fram:5,produce_geometri:51,produce_ground_bump:116,produce_ground_grid:5,produce_ground_on_face_grid:5,produce_guid:116,produce_impl:[36,59,156],produce_junction_test:[5,9],produce_label:142,produce_launch:[5,117,175],produce_launchers_sma8:117,produce_manhattan_junct:70,produce_manhattan_squid:69,produce_n_launch:5,produce_opt_lit_test:5,produce_pad:127,produce_probelin:[9,10],produce_qubit:[9,10,25,117,118],produce_readout_reson:[25,117],produce_readout_structur:[9,10],produce_reson:18,produce_squid:[89,123],produce_structur:5,produce_waveguid:[62,117],produce_waveguide_to_port:[113,175,180],product:174,profil:[128,176],program:[96,164,171,173,177],project:[154,156,163,165,176,178],project_0:178,prompt:[161,162],proper:174,properli:[156,161,163,166],properti:[36,59,74,81,83,94,113,148,149,156,169,170,171,173,175],propos:163,protect:[13,24,28,31,36,37,56,61,66,87,113,123,128],protect_opposite_fac:[13,24,28,31,36,37,56,61,87,113,123,128],provid:[36,74,83,92,113,138,158,170,173,179,180,185],prune:146,pt:185,publish:[154,158],pull:[158,161],pure:[36,179],purpl:180,purpos:[82,113,119,156,162,170,180],push:[158,176],put:[61,130,158,170,175],pvsm:178,pwd:158,py:[82,98,100,103,156,158,159,161,162,163,174,175,176,177,178,179,181,185],pya:[5,36,51,61,77,81,82,84,89,110,111,113,127,137,138,140,147,149,151,153,160,174,175,180],pya_resolv:[1,156,164,175,180],pycharm:175,pyepr:[98,172,182],pyepr_exampl:179,pyhint:110,pylint:163,pypi:[160,169],pytest:[162,163,169],python3:161,python:[74,84,98,138,140,141,143,156,157,158,160,162,164,166,169,172,173,174,176,177,178,179,181,184,185],python_execut:[158,178],q3d:[96,98,179,180,182],q:[103,162,171,177],qb:[25,118],qb_2:152,qcd1:67,qcd2:67,qcd3:67,qdg:82,qf1:174,qin:137,qpu:164,qt5:77,qualiti:[100,144],quality_factor:[1,2,144,174],quality_factor_twofac:[1,2],qualityfactor:[17,82,144,174],qualityfactortwofac:18,quantum:[5,27,36,67,127,164,183],qubit:[1,9,10,22,25,67,117,118,156,164,166,170,171,175,179,180,181],qubit_a_nr:[9,10],qubit_b_nr:[9,10],qubit_cel:117,qubit_nr:[9,10],qubit_spac:[25,117,118],qubits_refpoint:22,question:167,queu:179,queue:178,quick:[161,175],quick_demo:[82,162,174],quick_start:158,quickli:158,quiet:[101,103],quirk:166,quit:171,r0:[5,36,113,127],r:[13,24,28,31,36,37,42,56,61,62,63,87,113,123,128,137,138,151,158,161,175,184],r_inner:[35,86],r_outer:[35,86],rad:63,radial:86,radian:[63,137],radio:62,radiu:[13,24,28,31,35,36,37,38,54,56,61,62,63,70,81,86,87,90,113,123,128,137,151,175],rais:[36,61,138,140,173],raise_error_on_cel:36,ram:158,rang:[5,55,138],rare:[162,175],rather:165,ratio:[37,38,48,74,98,172,182],rb:185,rd:175,re:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,23,24,25,28,31,32,33,35,36,37,38,41,42,45,46,47,48,49,52,53,54,55,56,60,62,63,64,65,66,69,70,71,72,86,87,90,106,112,120,121,124,125,126,128,143,149,156,161,173,178],react:106,reactanc:[112,151],read:[158,165,166,170,175],readabl:[61,157,169],readi:[93,95,113,115,116,117,118],readout:[9,10,22,87,88],readout_res_length:[9,10,22,174],real:112,realli:[161,174],reason:[61,156,175],rebuild:159,rec_level:[36,74,113,151,175],recent:166,recommend:[165,170,174,178,179],rectangl:[87,88,156,170],rectangular:[17,28,30,32,48,56,61,62,63,64,81,90,174],rectangular_paramet:56,recurs:[36,74,113,138,146,151],red:173,reduc:[164,179],refer:[27,34,35,36,37,38,74,77,80,86,113,136,137,138,151,154,156,161,162,163,170,173,175,181],refin:[98,179],reflect:163,refp:180,refplan:106,refpoint:[1,18,22,27,32,33,35,36,37,42,47,55,59,61,74,77,86,87,88,89,90,113,114,123,127,129,136,140,143,170,172,180],refpoint_dist:127,refpoint_nam:175,refpoint_of_some_el:175,refpoint_prefix:127,refpoint_snap:143,refpoint_transform:36,refpointtoedgeport:151,refpointtointernalport:151,refpointtosimport:[33,35,36,37,42,47,55,86,87,90,151,180],regadless:147,region:[5,36,37,51,61,81,98,110,111,113,127,137,139],region_from_lay:113,region_with_merged_point:[113,137],region_with_merged_polygon:[113,137],regist:[94,150,156,168],register_cell_layers_as_sim_lay:94,register_plugin:150,registr:[150,175],registri:158,regress:138,regular:[61,165,174,180,181],reinstal:[161,166],reintroduc:163,rel:[36,74,89,98,100,113,123,142,144,151,156,175,179],relat:[55,77,164,167,175],relationship:178,releas:[155,158,164],relev:[94,113,151,179,180],reload:[166,170,172,175],reloc:166,rememb:[158,161,162,170],remot:[103,172,178,182],remote_export_and_run:[1,92,96],remote_host:102,remote_run_onli:103,remov:[11,33,51,81,82,113,116,136,137,143,144,145,149,152,159,161,164,175],remove_capacitor:33,remove_chip:81,remove_guiding_shap:82,remove_old_handl:145,renam:36,render:74,renorm:[112,179],repeat:5,repetit:163,replac:[36,82,140,152,161,174,181],replace_nod:140,replace_squid:[1,129],repo:[158,162],report:[61,82,163],repositori:[0,136,158,160,166,169,179],repres:[27,61,62,63,68,73,74,79,81,82,83,164,173,180],represent:[36,61,81,137,138,178],reproduc:160,request:[145,152,158,176,178],requir:[61,74,143,156,157,160,161,163,165,166,170,174,178,180,181,182,185],require_gui_editing_en:140,requirements_within_klayout_unix:161,requirements_within_klayout_window:161,res_a:[17,18,47],res_airbridge_typ:17,res_b:[17,18,47],res_beg:17,res_length:[17,18],res_term:17,research:67,resembl:128,reserv:[77,94],reset:94,resist:[106,112,151],resistor:147,resolut:113,resolv:[5,160,175],resolve_default_layer_info:74,reson:[9,10,17,18,22,47,56,115,170,179],resonator_fac:18,resonator_length:47,resonator_typ:18,resonators_both_sid:17,resourc:[82,176,178],respect:[36,61,111,113,121,142,153,180],rest:82,restart:[166,170,171,173,184],restore_pcells_to_view:143,result:[94,98,113,127,136,137,138,162,176,178,179,182],retain:110,retriev:61,revers:156,revert:180,review:155,revis:[136,183],rewritten:157,rf16:175,rf:[5,42,163,175],rho:130,ride:158,right:[3,6,18,22,28,36,56,66,80,81,110,113,151,166,170,171,173,174,175,180],right_gap_inn:63,right_gap_out:63,right_protect:63,right_sid:[89,123],right_spac:56,rigtht:81,rlc:[112,179],rm:175,roam:161,root:[145,158,163,169,175],rot:89,rotat:[5,36,42,61,74,81,89,113,174,175],roughli:174,round:[42,61,70,87,90,113,175],round_connector:[42,61],rounding_param:69,rout:[61,145,170,175],route_funct:61,route_log:145,routin:89,row:[81,94,179],rpc:138,rr:[25,118],rr_cpl_width:[25,118],rsa:158,rst:159,rubi:[175,185],rule:[106,113,159,169],ruler:[159,185],run:[1,61,74,77,84,98,100,101,103,110,134,136,158,159,161,162,163,164,165,166,169,171,172,174,175,176,178,179,181,182,183,184,185],run_elm:178,run_elmergrid:178,run_gmsh_gui:178,run_paraview:178,run_script:158,runid:176,runtim:158,rx:[158,175],s1p:179,s2p:179,s3p:179,s:[5,12,23,33,35,36,37,42,47,48,55,61,74,82,84,86,87,89,90,108,114,123,136,137,143,147,149,151,152,156,157,159,161,162,165,166,169,170,172,174,175,176,182,184],sa:113,sa_permitt:110,sa_thick:110,safe:162,safest:166,salt:[155,161,162,164,165,169,175,185],same:[18,22,35,36,37,54,61,74,81,82,83,94,113,137,143,146,147,148,149,156,161,162,163,166,170,173,174,175,176,178,180],sampl:[5,8,17,88,117,137],sample_holder_test:[1,2],sample_holder_typ:17,sample_point:137,samplehold:172,sampleholder_typ:[5,14,175],sampleholdertest:19,satisfactori:159,save:[98,166,175,176,179,180],savola:[154,179],sbatch:178,sbatch_paramet:[176,178],scalar:[111,113],scale:[48,81],scatter:179,schema:94,scheme:155,scope:[74,162],scratch:175,script:[61,74,98,100,101,103,136,158,159,161,162,166,169,170,172,173,175,176,177,178,179,180,181,182,183,185],script_fil:100,scroll:[171,185],se:[117,136],search:[140,164],second:[13,31,36,42,69,87,103,110,113,123,137,175,176,178],secondari:[160,185],section:[0,62,94,100,110,147,156,161,162,164,166,170,172,174,175,177,180,182],secur:[160,178],see:[0,2,18,36,61,77,82,93,95,98,107,110,113,115,116,117,118,119,155,156,158,161,162,165,166,168,170,171,173,174,175,176,178,179,180,181,184],segment:[24,56,61,62,63,65,66,113,170],segment_length:61,select:[13,69,107,135,143,166,170,171,173,174,175,180,185],self:[5,36,56,61,64,68,73,81,82,89,93,94,95,113,115,116,117,118,138,157,169,175,178,180],semi:35,send:176,sens:[98,100,171,173],sensibl:138,sent:178,separ:[5,13,36,69,70,74,82,87,88,94,110,113,123,138,140,143,144,146,161,163,165,166,170,171,175,176,180,181],separate_island_internal_port:151,separate_junct:[13,69,70,87,123],separate_signal_layer_shap:110,sequenc:[100,126,137],sequenti:178,seri:[42,61,88,93,181],serial:[61,138],serializ:138,seriou:155,serv:[33,35,36,37,42,47,55,86,87,90],session:84,set:[5,18,36,56,61,74,79,80,82,83,94,98,100,107,110,112,113,117,136,151,155,156,158,161,162,163,164,170,171,175,176,178,179,180,181],set_permitt:94,setup:[160,162,164,165,166,170,171,175,176,182,184,185],setup_within_klayout:161,setuptool:165,sever:[36,61,74,138,156,161,166,170,174,175,180,181,182],sh:[158,176,178,181],shadow:[13,69,70,87,123],shadow_margin:[13,69,70,87,123],shadow_shap:69,shape:[1,2,5,13,17,24,27,28,30,31,32,34,36,37,42,54,56,61,62,75,80,82,86,87,89,94,110,113,123,127,128,142,146,170,171,173,175,180,181,183,185],shape_lay:5,share:[27,89,113,137,178],sheet:[98,113,180],shell:[177,178],shift:[170,171,173,174],shortcut:171,should:[5,30,33,35,36,37,42,47,55,56,61,62,74,75,77,86,87,90,93,94,95,100,110,113,114,115,116,117,118,134,136,138,147,149,151,156,157,158,159,161,162,163,165,166,170,171,173,174,175,180,184],shouldn:161,show:[74,125,126,148,162,166,170,171,173,174,175,180,181],shown:[54,74,101,147,148,156,170,173,178],shrink:113,shunt:[87,88],si:106,side:[3,5,6,17,18,28,33,35,36,37,42,47,55,59,60,64,81,86,87,90,113,114,127,143,151,153,156,174,175,180],sif:178,signal:[13,24,28,31,36,37,42,56,61,87,94,110,112,113,123,128,151,170,179,180],signal_edg:113,signal_lay:[112,151],signal_loc:[112,179,180],signal_metal_height:113,signatur:110,silicon:[5,24,113,128,175,180,183],sim:[1,10,13,22,25,67,68,87,89,118,123,162,176,177,178,180],sim_1:176,sim_2:176,sim_class:[104,180,181],sim_i_tmp_fold:176,sim_n:176,sim_paramet:[104,180],similar:[82,151,173,178,179,180,181],similarli:[161,163,180,181],simpl:[1,2,13,82,84,107,113,123,124,158,174,178],simple_cross:175,simple_polygon:137,simple_region:137,simple_workload_manag:158,simplecross:175,simpler:175,simplest:[165,180],simpli:[89,138,158,162,180],simplic:[149,156],simplifi:113,simplified_region:113,simul:[1,25,33,35,36,37,42,47,55,72,77,86,87,89,90,129,151,158,162,164,165,166,169,172,175,177,178,181,185],simulation_export:[1,92,96,180,181],simulation_flag:[98,179],simulation_mesh:178,simulation_safeti:107,simultan:161,sinan:154,sinc:[0,140,161,170,175,180],singapor:137,singl:[4,5,6,10,13,18,22,25,42,55,56,61,68,70,80,82,87,89,104,113,114,118,123,143,144,149,163,166,172,174,175,176,178,182,183],single_element_simul:[1,92,180,181],single_junct:[13,69,87,123],single_xmon:[1,2],single_xmons_full_chip_sim:[1,92],singlexmon:22,singlexmonsfullchipsim:115,singular:[160,169,176,178],singularity_path:176,singularity_priv:158,singularity_remote_path:102,site:[136,161,165],situat:170,six:22,sixth:137,size:[5,28,35,37,42,55,61,66,74,81,82,86,100,113,137,142,148,170,174,175],skip:[98,100,138],skip_error:[98,100],skip_extra:80,skipkei:138,slide:137,slightli:165,slot:110,slow:[140,173,174],slurm:[176,178],sma8:[14,17,117,175],small:[13,21,62,155,175,178],small_loop_area:13,smaller:[82,113,137],smirnov:154,smooth:[55,132],smooth_capacitor:[1,27],smoothcapacitor:[18,55,132],snap:[61,143],snap_point:61,snippet:180,snp:179,so:[56,61,82,93,94,95,113,115,116,117,118,136,137,151,152,156,158,161,162,163,166,170,173,175,179,181,184],softwar:[154,158,168,178,181],solid:[18,179],solut:[161,166,179],solv:[98,179],solver:[178,179,181],some:[2,5,13,24,27,28,31,36,37,56,61,75,82,83,87,98,100,107,110,113,123,128,136,137,143,149,156,159,161,162,163,165,166,170,171,173,174,175,176,179,180,183],someel:175,someth:[157,178],something_port:175,something_port_corn:175,sometim:[165,173],son:[107,181],sonnet:[1,92,96,172,182],sonnet_export:[1,92,96,105,181],sonnetsoftwar:107,sort:[110,138],sort_kei:[110,138],sourc:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,28,30,31,32,33,34,35,36,37,38,40,41,42,44,45,46,47,48,49,51,52,53,54,55,56,58,59,60,61,62,63,64,65,66,68,69,70,71,72,73,74,75,80,81,82,83,84,86,87,88,89,90,91,93,94,95,98,100,101,102,103,104,106,107,108,110,111,112,113,114,115,116,117,118,120,121,123,124,125,126,127,128,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,160,162,163,165,168,169,179,180],south:90,space:[5,12,13,15,16,18,23,25,56,61,94,116,117,118,121,123,125,126,140,142,144,162],spacial:110,spcifi:174,spec_lay:80,special:[61,137,170],specif:[36,51,61,68,73,74,79,80,82,94,113,138,151,154,156,158,161,162,165,166,170,173,175,180,181,182],specifi:[5,30,31,32,36,48,61,74,81,82,83,94,100,110,113,136,137,138,140,141,145,147,148,149,152,158,159,161,162,169,174,176,180,181],speed:[139,151,163,178],sphinx:[149,159],sphinxext:159,spiral:[18,56,170],spiral_box_height:18,spiral_box_width:18,spiral_resonator_polygon:[1,27],spiralresonatorpolygon:56,spiralresonatorrectangl:56,spline:[88,137],split:[113,137],splitter:64,spring:148,squar:[5,12,23,34,37,51,81,82,127,143,162,166,175],squid:[1,13,67,69,71,72,85,87,88,89,90,112,123,152],squid_angl:86,squid_index:152,squid_offset:87,squid_port_squid_a:180,squid_port_squid_b:180,squidnam:73,src_path:144,ssh:[103,176],ssh_login:103,st1:174,stabil:165,stack:[77,113,172,173,182],stage:173,staircas:107,stand:[134,169,182],standalon:[74,84,136,156,160,161,164,165,174,177],standard:[5,13,24,25,34,44,45,51,52,58,60,61,89,117,118,128,137,140,145,160,166],start:[0,5,13,18,34,54,56,61,62,63,64,77,86,103,108,113,123,137,143,149,152,159,162,164,165,167,173,175,176,178,180],startpoint:137,startup:[134,140],state:[13,44,68,87,89,123,176,178],statement:[143,166],std:106,stdout:145,step:[4,13,15,16,61,98,123,137,139,152,161,165,166,171,173,174,176],still:174,stop:[63,98,100,137,161,173,179],storag:[61,170],store:[94,113,130,174,179,180],str:[36,61,81,100,102,103,106,112,113,114,130,136,138,140,143,144,149,152],straight:[3,6,25,44,46,56,61,62,65,89,118,175],strategi:155,street:5,strict:[138,156],strictli:175,string:[5,6,7,9,10,13,14,15,16,18,21,22,23,24,25,28,30,31,32,33,34,36,37,42,44,45,46,56,58,59,60,61,64,68,69,70,71,72,81,82,87,89,94,98,101,103,111,113,114,116,118,123,124,128,132,136,138,140,143,144,145,147,148,151,174,175],strip:140,stripe:[1,2,5,15,16,125,126],stripe_length:[125,126],stripe_spac:[125,126],stripe_step:126,stripe_test:[15,16],stripe_test_increasing_width:[15,16],stripe_width:125,stripes_test:[1,119],stripes_test_increasing_width:[1,119],stripestest:[15,16,125],stripestestincreasingwidth:126,structur:[2,5,27,67,112,119,120,123,124,127,128,148,152,162,163,164,166,172,174,179,183],stub:[113,118],stuck:158,studio:175,style:[69,70,155,160,164,175],sub:[26,36,61,62,69,81,89,111,113,152,156,170,174],subcel:[36,61,74,89,113,123,151,175],subcircuit:[147,148],subcircuit_id:[147,148],subcircuit_loc:147,subcircuit_origin:147,subclass:[30,33,35,36,37,42,47,51,55,61,82,83,86,87,89,90,94,113,138,149,172,179,181,182],subdirectori:[80,166,169],subfold:[158,175],submask:81,subscel:61,subsect:161,subsequ:137,subset:77,substrat:[59,60,98,100,110,111,113,175,180],substrate_box:113,substrate_height:[113,180],substrate_loss_tang:98,substrate_materi:113,subsystem:158,subtract:[5,51,127,146],subtyp:36,successfulli:[158,161,162,184],suffic:178,suffix:[110,111,136,148],suitabl:[162,165,179,180],sum:137,summari:183,superconduct:[5,36,110,127,164],suppli:[61,62,83,93,95,113,115,116,117,118,136,180],support:[27,35,61,74,96,107,136,138,162,164,170,175,176,178,179,180,182,185],suppos:[162,174,180],sure:[158,161,163,166,170,173,175,176,181,185],surfac:[113,179,180],surround:[42,51],sw:[117,136],swap:175,sweep:[98,104,107,110,152,172,178,179,182],sweep_count:[98,179],sweep_en:[98,179],sweep_end:[98,179],sweep_simul:[104,180],sweep_start:[98,179],sweep_typ:[98,100,179],swept:152,swept_angl:35,swissmon:[1,85,171,180,181],swissmon_simulation_output:181,swissmonsimul:180,sx1:174,sylab:158,sym:106,symbol:[158,161,169,173,175,176,178],symlink:161,symmetr:100,symmetri:[106,153],symmetric_polygon:[1,129,175],sync:[134,162,178],sync_paramet:36,syncronis:36,syntax:[156,175,180],system:[36,77,136,151,158,161,165,166,172,178,181],t1_estim:179,t:[36,42,61,64,77,94,98,113,138,156,158,161,162,165,170,175,178,180],t_1:179,t_cross_paramet:64,tab:[74,138,170,171,173,174],tag:[0,147,155,158,162,183],takala:154,take:[36,74,94,110,113,114,138,149,151,161,170,171,178,179,181,182,185],taken:[54,62,63,88,113,137,143,156,169,180],talk:165,tan:98,tan_delta_surf:[98,100],tangent:[98,100,137],taper:[28,38,48,61,66,87],taper_length:[28,38,61,66],target:[36,61,113,130,151,161,165],target_cel:36,target_len:61,task:[173,178,184],techdoc:107,technic:[156,175,179],tell:136,templat:[98,159,164],term1:[56,61,62,113,117,151],term2:[56,61,62,117],term:[111,113,163,179,180],term_len:[62,63],termin:[17,56,61,62,63,103,113,116,151,161,162,174,176,179,180],terminolog:[147,164,172],test:[2,3,4,5,9,11,13,15,16,22,24,33,67,115,119,120,121,122,123,124,125,126,127,128,138,152,158,160,161,162,164,165,166,169,174,175,178,181],test_invalid_n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documentation","kqcircuits.chips","kqcircuits.chips.airbridge_crossings","kqcircuits.chips.airbridge_dc_test","kqcircuits.chips.chip","kqcircuits.chips.crossing_twoface","kqcircuits.chips.daisy_woven","kqcircuits.chips.dc_test","kqcircuits.chips.demo","kqcircuits.chips.demo_twoface","kqcircuits.chips.empty","kqcircuits.chips.junction_test","kqcircuits.chips.junction_test2","kqcircuits.chips.launchers","kqcircuits.chips.lithography_test","kqcircuits.chips.lithography_test_twoface","kqcircuits.chips.quality_factor","kqcircuits.chips.quality_factor_twoface","kqcircuits.chips.sample_holder_test","kqcircuits.chips.shaping","kqcircuits.chips.simple","kqcircuits.chips.single_xmons","kqcircuits.chips.stripes","kqcircuits.chips.tsv_test","kqcircuits.chips.xmons_direct_coupling","kqcircuits.defaults","kqcircuits.elements","kqcircuits.elements.airbridge_connection","kqcircuits.elements.airbridges","kqcircuits.elements.airbridges.airbridge","kqcircuits.elements.airbridges.airbridge_multi_face","kqcircuits.elements.airbridges.airbridge_rectangular","kqcircuits.elements.capacitive_x_coupler","kqcircuits.elements.chip_frame","kqcircuits.elements.circular_capacitor","kqcircuits.elements.element","kqcircuits.elements.finger_capacitor_square","kqcircuits.elements.finger_capacitor_taper","kqcircuits.elements.flip_chip_connectors","kqcircuits.elements.flip_chip_connectors.flip_chip_connector","kqcircuits.elements.flip_chip_connectors.flip_chip_connector_dc","kqcircuits.elements.flip_chip_connectors.flip_chip_connector_rf","kqcircuits.elements.fluxlines","kqcircuits.elements.fluxlines.fluxline","kqcircuits.elements.fluxlines.fluxline_standard","kqcircuits.elements.fluxlines.fluxline_straight","kqcircuits.elements.hanger_resonator","kqcircuits.elements.launcher","kqcircuits.elements.launcher_dc","kqcircuits.elements.markers","kqcircuits.elements.markers.marker","kqcircuits.elements.markers.marker_standard","kqcircuits.elements.markers.mask_marker_fc","kqcircuits.elements.meander","kqcircuits.elements.smooth_capacitor","kqcircuits.elements.spiral_resonator_polygon","kqcircuits.elements.tsvs","kqcircuits.elements.tsvs.tsv","kqcircuits.elements.tsvs.tsv_ellipse","kqcircuits.elements.tsvs.tsv_standard","kqcircuits.elements.waveguide_composite","kqcircuits.elements.waveguide_coplanar","kqcircuits.elements.waveguide_coplanar_curved","kqcircuits.elements.waveguide_coplanar_splitter","kqcircuits.elements.waveguide_coplanar_straight","kqcircuits.elements.waveguide_coplanar_taper","kqcircuits.junctions","kqcircuits.junctions.junction","kqcircuits.junctions.manhattan","kqcircuits.junctions.manhattan_single_junction","kqcircuits.junctions.no_squid","kqcircuits.junctions.sim","kqcircuits.junctions.squid","kqcircuits.klayout_view","kqcircuits.layer_cluster","kqcircuits.layer_config","kqcircuits.layer_config.default_layer_config","kqcircuits.layer_config.example_layer_config","kqcircuits.masks","kqcircuits.masks.mask_export","kqcircuits.masks.mask_layout","kqcircuits.masks.mask_set","kqcircuits.masks.multi_face_mask_layout","kqcircuits.pya_resolver","kqcircuits.qubits","kqcircuits.qubits.concentric_transmon","kqcircuits.qubits.double_pads","kqcircuits.qubits.double_pads_splines","kqcircuits.qubits.qubit","kqcircuits.qubits.swissmon","kqcircuits.run","kqcircuits.simulations","kqcircuits.simulations.airbridges_sim","kqcircuits.simulations.cross_section_simulation","kqcircuits.simulations.empty_simulation","kqcircuits.simulations.export","kqcircuits.simulations.export.ansys","kqcircuits.simulations.export.ansys.ansys_export","kqcircuits.simulations.export.elmer","kqcircuits.simulations.export.elmer.elmer_export","kqcircuits.simulations.export.export_and_run","kqcircuits.simulations.export.export_singularity","kqcircuits.simulations.export.remote_export_and_run","kqcircuits.simulations.export.simulation_export","kqcircuits.simulations.export.sonnet","kqcircuits.simulations.export.sonnet.parser","kqcircuits.simulations.export.sonnet.sonnet_export","kqcircuits.simulations.export.util","kqcircuits.simulations.export.xsection","kqcircuits.simulations.export.xsection.xsection_export","kqcircuits.simulations.partition_region","kqcircuits.simulations.port","kqcircuits.simulations.simulation","kqcircuits.simulations.single_element_simulation","kqcircuits.simulations.single_xmons_full_chip_sim","kqcircuits.simulations.waveguides_sim","kqcircuits.simulations.xmons_direct_coupling_full_chip_sim","kqcircuits.simulations.xmons_direct_coupling_sim","kqcircuits.test_structures","kqcircuits.test_structures.airbridge_dc","kqcircuits.test_structures.cross_test","kqcircuits.test_structures.junction_test_pads","kqcircuits.test_structures.junction_test_pads.junction_test_pads","kqcircuits.test_structures.junction_test_pads.junction_test_pads_simple","kqcircuits.test_structures.stripes_test","kqcircuits.test_structures.stripes_test_increasing_width","kqcircuits.test_structures.test_structure","kqcircuits.test_structures.tsv_test_pattern","kqcircuits.util","kqcircuits.u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lay:74,add_el:[36,68,73,113,132,157,176],add_instance_nam:144,add_mask_layout:[82,175],add_met:[28,48,61,62,63,65,66],add_multi_face_mask_layout:[82,83],add_paramet:[150,157,181],add_parameters_from:[150,157,181],add_port:36,add_protect:36,add_waveguid:37,added_chip:81,addit:[5,13,28,34,36,48,61,62,63,65,66,69,70,77,81,87,93,95,110,113,115,116,117,118,123,156,159,171,175,176,180],addition:[159,179,181],adher:156,adjac:[28,61,113,138,140],adjust:[36,38,61,171],admin:178,administr:162,advanc:[171,174],affect:[113,156,165,179],affor:159,after:[2,13,27,61,62,69,70,77,87,98,113,114,123,150,159,162,167,170,172,174,175,176,179,182,186],afterok:179,again:[153,159,162,174,175],against:170,agreement:156,air:110,airbridg:[1,3,4,17,18,27,28,36,51,53,54,56,61,64,113,120,145,152,171,181],airbridge_connect:[1,27],airbridge_cross:[1,2],airbridge_dc:[1,119],airbridge_dc_test:[1,2],airbridge_flyov:181,airbridge_height:113,airbridge_multi_fac:[1,27,29],airbridge_rectangular:[1,27,29],airbridge_typ:[28,30,31,32,56,61,64],airbridgeconnect:[28,61],airbridgecross:3,airbridgedc:120,airbridgedctest:4,airbridgemultifac:31,airbridgerectangular:32,airbridges_sim:[1,92],airbridgessim:93,alessandro:155,align:[36,53,61,74,81,89,113,121,137,141,153,171,175,176],align_to:[36,74,81,113,175,176],all:[5,11,27,30,33,35,36,37,42,47,55,59,61,62,64,74,80,81,82,83,86,87,90,94,100,101,104,110,111,113,130,138,139,141,144,145,147,150,153,157,158,159,163,164,167,170,171,172,174,175,176,178,179,180,181,182],all_lay:75,alloc:179,allow:[36,61,62,74,81,89,98,100,113,123,139,157,163,165,167,171,179,180,185],allow_nan:139,almost:[11,148,176],alon:[135,170,183],along:[5,56,100,153,186],alpha1:62,alpha2:62,alpha:63,alreadi:[56,74,98,103,110,162,163,172,175,176],also:[25,27,36,48,54,61,62,63,65,74,81,82,83,84,85,89,90,100,113,118,123,125,126,127,131,137,139,144,145,146,148,150,153,157,159,160,162,163,164,165,166,167,170,171,174,175,176,177,179,180,181,183,185],alt_netlist:[80,82,148],altern:[54,56,61,62,82,103,113,148,153,162,179,180,182],although:176,alwai:[2,148,163,167,176,180],among:[159,165],amount:[62,113,138,177,179],an:[3,5,25,27,28,30,31,35,36,41,42,61,62,63,74,77,81,82,83,89,98,100,110,113,114,120,124,132,137,138,139,141,144,148,149,150,152,153,154,157,162,163,166,167,171,173,174,175,177,179,180,181,182,183,184,185,186],analog:148,analysi:[24,98,100,107,180],ancestor:[36,94,113,157],andrew:155,angl:[35,61,62,63,64,86,138,141],angular:86,ani:[3,6,18,61,62,68,73,74,82,83,93,94,95,98,113,114,115,116,117,118,124,141,145,151,156,157,162,163,167,168,171,175,176,179,180,181,182,183],anim:171,annot:[36,59,62,63,77,160,170,176],annotation_lay:62,anoth:[77,87,88,90,138,139,152,153,157,162,171,176],ansi:[1,92,96,113,134,173,179,180,181,183],ansys_execut:182,ansys_export:[1,92,96,97,180,182],ansys_project_templ:98,ansys_tool:[98,180],anyth:171,anywai:[171,176],anywher:[147,167],api:[84,150,156,160,163,165,167,171,172,174,176,179,180,181,182,184],apidoc:160,appdata:[162,166,178],appear:[61,167,171,172,174,184],append:[113,138,146,148,149,181],appli:[13,24,28,31,36,37,56,61,63,74,81,82,83,87,111,113,114,123,127,128,157,171,181],applic:[74,137,138,172,173,185],apply_templ:106,approach:[164,167,179,181],appropri:[89,152,156,157,176],approri:61,approv:156,approxim:113,aptli:176,ar:[2,3,5,6,19,22,27,29,32,36,48,61,62,63,64,67,74,77,79,81,82,83,89,94,96,98,100,101,103,107,110,111,113,117,119,127,129,131,137,138,139,141,144,145,146,147,148,149,150,151,153,155,156,157,158,159,160,162,163,164,165,166,167,170,171,172,174,175,176,177,178,179,180,181,182,183,184,186],arbitrari:[61,62,139,176],arc:[63,86,138],arc_point:138,architectur:[16,161,165,176],archiv:184,ard24:[14,17],area:[1,13,42,51,54,61,69,73,74,81,87,89,107,111,112,123,124,127,129,140,167,171,176,181],area_height:[13,123],area_width:[13,123],areareceiv:130,arg:[101,103,130,137,139,159],argument:[5,33,35,36,37,42,47,51,55,61,74,82,83,86,87,89,90,93,94,95,98,101,103,110,113,114,115,116,117,118,123,141,150,159,175,176,181,182,183],arithmet:62,arm:[25,37,89,90,117,118,121,123,176],arm_length:[53,89,90,123,176,181],arm_length_500:181,arm_width:[53,90,176],arm_width_a:[25,117,118],arm_width_b:[25,117,118],around:[5,18,28,34,35,36,37,51,62,63,74,81,113,137,138,143,157,165,170,171,172,175,181],arrai:[3,5,24,81,82,124,139,184],arrang:171,array_form:24,array_layout:24,arrow:[53,174],arrow_numb:53,as_dict:112,ascend:113,ascii:139,aspect:[74,89],assembl:165,assign:[5,171,176],associ:[61,74,149,174],assum:[25,62,63,74,82,118,166,172,180,181],ast:[61,141],asterisk:174,attach:[18,81,145,175],attempt:[56,139,148,162],attribut:[25,36,80,112,118,150,157,158],author:[0,155],auto:[35,37,55,176],auto_spac:56,autom:[163,165,183,186],automat:[13,38,54,56,61,69,74,79,81,84,98,123,144,157,159,160,162,163,166,167,170,171,174,175,176,177,179],auxiliari:[77,175],avail:[36,74,89,100,110,113,157,167,171,176,179,180,182,186],avoid:[2,5,13,18,24,28,31,34,36,37,56,61,62,63,87,113,123,127,128,140,143,146,147,165,171,175,176],avoid_region:140,awai:[111,138,141,176],axi:[5,13,23,62,86,89,100,123,137,153,154],b2:[28,35,36,37,42,55,61,64,66],b:[13,18,24,28,30,31,35,36,37,38,42,48,55,56,61,64,66,77,87,88,113,117,123,128,138,152],b_cap:5,b_launcher:48,b_list:64,b_number:3,back:[61,176,177],backend:159,background:[74,177],background_color:74,backward:[156,163,186],bad:[98,100],badg:155,base:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,27,28,30,31,32,33,34,35,36,37,38,40,41,42,44,45,46,47,48,49,51,52,53,54,55,56,58,59,60,61,62,63,64,65,66,68,69,70,71,72,73,74,75,81,82,83,86,87,88,89,90,92,93,94,95,111,112,113,115,116,117,118,120,121,123,124,125,126,127,128,130,136,138,139,143,150,152,153,157,162,170,175,176,179,180,181],base_metal_addit:[5,147,176],base_metal_gap:[5,77,147,176],base_metal_gap_for_ebl:[89,123],base_metal_gap_wo_grid:[5,89,121,123,125,126,147,148,167,171,176],basenam:177,bash:177,basi:[139,157,181],basic:[113,162,170,171,172,173,174,184],bat:[98,182],batch:[98,182],bbox:130,bbox_face_id:[81,82,83],beam:89,becaus:[162,174,175],becom:[17,61,77,174,181],been:[0,61,82,113,145,159,166,167,175],befor:[5,36,61,62,74,82,113,141,151,162,171,182],begin:[17,56,63,126,175,177],begin_shapes_rec:62,behav:36,behavior:[61,74,139],behind:167,being:[27,77,176],belong:[27,77,148,176],below:[22,28,56,113,131,144,153,155,162,170,174,175,176,177,179,180,181,183],below_spac:56,bend:[17,54,61,62,181],benefici:179,benefit:179,bent:62,best:[33,35,36,37,42,47,55,86,87,90,163,176],better:[158,159,164,181],between:[5,6,9,10,12,13,17,18,22,23,24,28,31,33,34,36,37,38,40,42,55,56,59,60,61,62,77,87,90,98,110,113,118,121,123,125,126,127,128,130,138,140,148,165,171,180,181],bewar:162,bezier:138,bezier_point:138,bib:155,bicgstab:100,big:[100,175],big_loop_height:69,bigger:74,bigsur:166,bill:179,bin:[159,177],binari:178,bit:[157,166,172,176],bitmap:[80,82],black:157,block:[171,176],bodi:157,bold:[74,171,174],bond:77,bonu:61,bool:[100,101,103,106,112,113,137,138,147],border:[17,113],both:[17,18,28,29,31,36,61,68,73,84,113,152,157,160,162,164,175,179,181,182],bottom:[6,32,40,56,71,72,77,81,110,113,152,157,172,175,176,181],bottomleft:143,bottomright:143,bound:[5,34,54,61,81,89,113,123,140,143,148,171],boundari:[94,100,113,180],boundary_condit:100,boundbox:140,box:[5,17,18,34,51,54,74,81,82,89,94,106,110,113,114,121,123,140,143,148,152,167,171,172,173,175,176,183,184],box_map:82,box_margin:51,box_siz:141,bp_gap_x:69,bp_height:69,bracket:163,branch:[159,167,174],brand:[5,34],breakdown:148,breakpoint:174,bridg:[28,30,31,32,54,56,61,64,93,176],bridge_dist:64,bridge_gap_width:28,bridge_length:[28,30,56,176],bridge_spac:[18,56],bridge_width:[28,30,31,56],bridges_bottom:56,bridges_left:56,bridges_right:56,bridges_top:56,brief:[130,136],bring:171,broken:167,brought:[113,152],browser:185,bsd:179,bspline_point:138,bt:106,bug:[164,174],bugfix:166,build:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,28,31,32,33,34,35,36,37,38,41,42,45,46,47,48,49,52,53,54,55,56,59,60,61,62,63,64,65,66,69,70,71,72,81,82,86,87,90,93,94,95,113,115,116,117,118,120,121,124,125,126,128,144,145,157,159,160,162,163,166,167,171,173,175,177,179,180,181,182,183],builder:[152,181],built:[113,159,160,167,171,176,181,185],builtin:158,bulk:98,bump:[5,31,40,42,56,61,113,116,156,181],bump_box:5,bump_diamet:[31,40,56,61],bump_edge_to_bump_edge_separ:5,bump_grid_spac:5,button:[136,172,174],bx:[56,61,62],c03:81,c:[64,82,117,157],c_i_i:180,c_i_j:180,c_kappa_l_fing:25,calcualt:81,calcul:[61,81,89,98,112,123,171,176,180],call:[5,36,55,61,82,93,94,95,110,113,115,116,117,118,130,139,144,145,147,148,157,164,167,173,174,175,176,178,179,180,181,182,184],callabl:[110,114],caller:157,can:[2,5,18,22,27,35,36,51,54,56,61,62,67,68,73,74,77,79,80,82,83,85,86,93,94,95,107,111,112,113,115,116,117,118,124,137,138,139,141,144,149,152,153,155,157,159,163,164,166,167,170,171,174,175,176,177,178,179,180,181,182,183,184,185,186],can_create_from_shape_impl:[5,37,38,54,55,62],cancel:174,cannot:[54,61,141,176,177],canva:167,cap:[5,18],cap_finger_nr:[9,10],cap_param:[18,132],cap_refpoint:176,cap_res_dist:18,capac:106,capacit:[33,55,87,88,98,100,112,118,152,173,179,181,183],capacitancematrix:179,capacitive_x_coupl:[1,27],capacitivexcoupl:33,capacitor:[17,18,33,35,37,38,55,61,132,148,171,176],capit:167,captur:141,care:[36,138,162,164],carefulli:[98,100,156,181],carri:[13,24,28,31,36,37,56,61,87,113,123,128],caspar:155,cat:177,caught:174,caus:[98,100,114,138,139,162],cd:[162,163,164],cell:[5,15,16,30,33,35,36,37,42,44,47,51,54,55,58,61,62,68,73,74,80,81,82,86,87,89,90,92,93,94,95,108,110,113,114,115,116,117,118,123,130,131,132,133,137,138,141,143,144,145,147,148,152,153,157,163,171,172,174,175,176,181,182,184],cell_fil:137,cell_inst:36,cell_list:147,cell_map:148,cell_mark:[51,53],cell_nam:[148,149],cell_transf:[36,113],cell_typ:149,cell_view:[74,174],cellview:[74,174],center:[3,5,13,17,18,22,24,28,31,32,35,36,37,40,42,47,56,59,60,61,62,63,64,71,72,81,86,87,88,90,112,113,123,127,128,138,148,152,172,175,181],center_i:117,cent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elimin:[138,139],ellips:[5,24,58,59,128],ellipt:[24,59,128],elmer:[1,92,96,159,173,178,180,181,183],elmer_export:[1,92,96,99,180,182],elmer_help:179,elmer_mem:179,elmer_n_process:179,elmer_n_thread:179,elmer_tim:179,elmercsc:[179,182],elmerfem:[179,182],elmergrid:[159,179],elmersolv:[159,179],elmersolver_mpi:159,els:[33,35,36,37,42,47,55,86,87,90,139],elsewher:[163,175],emb:184,embed:[112,162],emploi:180,empti:[1,2,5,13,24,28,31,33,35,36,37,42,47,55,56,61,64,82,83,86,87,90,94,113,123,128,141,144,149,150,164,171,180,181,182],empty_simul:[1,92],emptysimul:95,en:117,enabl:[5,55,61,98,111,113,117,146,165,171,172,176,180],enable_drive_lin:117,enable_flux_lin:117,enable_gui_edit:[61,141],enable_transmission_lin:117,encod:[51,139],encode_python_obj_as_dict:139,encompass:176,encount:[139,159],encrypt:159,end:[28,31,54,56,61,62,63,98,100,103,111,113,116,152,153,159,160,171,174,175,180,181],end_i:[25,117],endpoint:[61,62,110,138,148],energi:[98,173,183],engin:113,enhanced_resonance_detection_featur:107,enough:[62,144],ensur:[62,139,157],ensure_ascii:139,enter:171,entir:[82,131,159,174],entri:[137,153,167,175],entrypoint:159,environ:[74,107,159,162,163,166,177,179,183,184,186],epr:[112,180],eps_r:98,equal:[5,111,138,144,149,180],equidist:54,equival:[31,61,139],error:[36,98,100,107,146,159,162,165,166,167,171,174,176],error_msg:36,es:[60,117],esc:172,escap:139,especi:176,essenti:181,estim:180,etc:[36,61,77,110,113,148,153,157,162,166,167,176,184],etch:[13,18,24,28,31,36,37,56,61,77,87,110,111,113,123,128],etch_opposite_fac:[13,24,28,31,36,37,56,61,87,113,123,128],etch_opposite_face_margin:[13,18,24,28,31,36,37,56,61,87,113,123,128],etch_region:111,etch_whole_opposite_fac:116,etched_lin:113,evalu:36,even:[153,157,159,163,174],evenli:61,ever:157,everi:[61,62,139,153,157,160,163,171,184],everyth:[107,166,167,171,176],everywher:176,evok:171,evolv:176,ex:[56,61,62,166],exact:[81,171,174],exactli:148,exampl:[5,27,36,61,74,75,77,82,98,113,137,139,145,149,153,157,159,162,163,164,166,167,171,173,175,177,179,180,181,182,186],example_layer_config:[1,76,176],exceed:17,except:[61,62,74,82,139,141,148,150,153,157,171,174],exchang:165,excit:[112,180],exclam:174,exclud:[18,150],execut:[84,134,159,164,166,174,175,179,182,183],exhaust:153,exist:[5,74,93,94,95,110,113,115,116,117,118,137,141,144,145,149,153,157,162,166,167,171,176,181,182],existing_ref:176,exit_after_run:98,expand:[113,138],expans:[111,113,138,152],expect:[110,156],experiment:184,explain:[157,158,162,163,171,174,176,182],explan:[176,177],explicit:100,explicitli:[61,137,166,179],exploit:175,export_all_layers_bitmap:74,export_and_run:[1,92,96,178],export_ansi:[98,180,182,183],export_ansys_bat:[98,182],export_ansys_json:[98,182],export_batch_result:98,export_bitmap:80,export_cell_netlist:[82,148],export_cells_as_cod:171,export_chip:80,export_design:80,export_dir:80,export_doc:80,export_drc:[80,82],export_drc_report:137,export_elm:[100,179,180,182,183],export_elmer_json:[100,182],export_elmer_script:[100,182],export_epr:180,export_help:[1,129,181,182],export_junction_paramet:80,export_lay:108,export_layers_bitmap:74,export_machine_vers:137,export_mask:80,export_mask_set:80,export_masks_of_fac:80,export_onli:101,export_paramet:[180,182],export_path:[82,101,149,175],export_path_basenam:103,export_pcell_png:[74,174],export_script:101,export_simulation_oa:[104,182],export_singular:[1,92,96],export_sonnet:[107,182,183],export_sonnet_son:[107,182],export_tmp_dir:103,export_tuned_junct:153,expos:[36,61,84,174],extend:[51,61,62,113,152,165,175,176],extens:[86,112,113,160,177,180],extern:[35,86,165,170,173,176,181,182],extra:[13,18,28,32,44,62,64,68,81,87,89,107,123,143,144,153,166],extra_chip:81,extra_face_param:[82,83],extra_id:81,extra_json_data:[94,113],extra_kwarg:82,extra_lay:75,extra_param:83,extra_resonator_avoid:18,extra_resonator_etch:18,extract:[36,144,148,152,153],extract_circuit:148,extract_junct:153,extract_net:148,extract_pcell_data_from_view:144,extractor:[98,180,183],f2:[167,171,172],f5:[167,174,175],f9:174,f:[61,64,112,118,159,174],fabric:165,face:[5,6,7,10,13,16,18,24,27,28,30,31,34,36,37,40,42,56,59,60,61,62,63,64,74,77,80,81,82,83,87,110,111,112,113,116,123,128,137,147,148,152,153,167,171,173,183],face_box:5,face_changer_waveguid:36,face_id:[5,13,15,16,18,24,27,28,31,36,37,56,61,74,75,81,82,83,87,111,113,123,128,176],face_index:[62,63],face_stack:[113,181],face_stack_list_of_list:113,face_z_level:113,fact:61,factor:[81,100,145],fail:164,failur:164,fals:[5,13,17,18,20,24,28,31,33,34,36,37,42,48,51,53,54,56,61,62,63,64,65,66,69,70,74,80,81,82,87,89,94,98,100,101,103,106,107,112,113,115,116,123,128,138,139,143,144,145,149,152,153,175,176,179,181],farad:112,fast:[98,156,180],faster:[107,153],featur:[10,36,61,139,163,164,165,166,167,172,173,174,175,176,183],feedlin:[17,22,35,37],feedline_bend_dist:17,feel:158,fem:[33,179],fenc:128,few:[171,179],ffffff:74,field:[77,94,98,113,141,152,177],figsiz:149,figur:[36,149,181],file:[26,36,67,74,75,77,79,80,81,82,98,100,101,104,1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gion:5,get_ground_bump_loc:5,get_ground_region:37,get_ground_tsv_loc:5,get_klayout_vers:137,get_launcher_assign:5,get_lay:[36,89,113,176],get_library_path:145,get_marker_loc:[51,53],get_marker_region:[51,53],get_mask_layout_full_nam:80,get_node_param:144,get_nodes_near_posit:141,get_object_path_length:138,get_paramet:[94,113],get_partition_region:111,get_pixel:74,get_port_data:113,get_refpoint:[36,113],get_schema:[36,94,113],get_segment_cel:61,get_segment_length:61,get_sim_lay:94,get_sim_port:[33,35,36,37,42,47,55,86,87,90,181],get_simulation_data:[94,113],get_simulation_directori:137,get_simulation_layer_by_nam:113,get_single_element_sim_class:[114,152,181,182],get_tuned_junction_json:153,get_valid_node_el:141,get_vertical_dimens:111,ghcr:159,ghz:[98,100,180],git:[137,156,161,162,163,166,170],github:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185,186],give:[36,113,162,166,167,176,180],given:[5,33,35,36,37,42,47,54,55,56,61,62,74,77,80,82,86,87,89,90,94,98,110,111,112,113,114,121,123,124,125,126,128,137,138,139,142,143,145,147,150,152,153,157,159,175,176,179,180,181,183],gmsh:[159,173,177,178,182,183],gmsh_helper:179,gmsh_mem:179,gmsh_n_thread:179,gmsh_time:179,go:[36,74,113,155,159,160,172,174,176,181,185],goe:[56,61,138],good:[107,158,175],googl:158,grain:150,graph:[149,157,170],graphic:[62,81,138,167],green:[157,174,181],grid:[2,5,17,34,36,54,61,62,63,65,81,82,83,113,127,140,143,144,171,172,173,176],grid_siz:[113,140],grid_snap:144,grid_step:140,groud:176,ground:[2,5,11,17,34,35,36,37,38,42,47,51,54,55,61,62,63,65,81,82,83,86,87,94,107,112,113,116,132,140,143,171,172,173,176,180,181],ground_edg:113,ground_gap:[35,55,86,87],ground_gap_r:87,ground_gap_ratio:37,ground_grid:[5,147,176],ground_grid_avoid:[18,36,89,176],ground_grid_box:113,ground_grid_in_trac:[17,54,61,62,63,65],ground_grid_region:113,ground_loc:[112,180,181],ground_metal_height:113,ground_pad:37,ground_refpoint:152,ground_width:47,groundgrid:[1,129],group:[13,24,28,31,36,37,56,61,67,77,87,106,107,113,123,128,137,140,167,171,176],group_n:140,growth:55,gsg:[5,42,61],guarante:[138,139,167],gui:[13,24,27,28,31,36,37,54,56,61,62,74,77,87,101,103,113,123,128,137,141,144,157,162,163,165,167,170,172,173,174,176,178,181,183,184,185],gui_help:[1,129],gui_path:61,gui_path_shadow:61,guid:[62,82,116,156,158,159,165,167,171,181],guidanc:183,guide_face_id:116,guthri:155,h:[64,112,118],ha:[0,5,19,22,35,36,37,55,61,69,82,86,90,94,113,137,141,144,149,150,153,159,162,163,166,167,171,174,175,176,177,179,181],half:[22,88,176],half_width:176,handl:[130,157,171,176,179,183],handler:146,hanger:47,hanger_reson:[1,27],hangerreson:47,happen:151,happi:164,hard:176,hardcod:[171,176],has_tracking_posit:136,hash:[159,163],have:[27,30,33,35,36,37,42,47,51,55,61,62,74,77,81,82,83,85,86,87,90,98,110,113,137,138,144,145,148,150,153,157,159,160,162,163,164,167,168,171,172,174,175,176,177,178,180,181],head:[5,47,117],head_length:47,heavi:174,height:[13,18,33,70,74,81,87,112,113,120,123,127,143,181],heinsoo:[0,155],help:[89,123,158,164,165,171,174],helper:[74,83,113,129,138,145,152,163,176,181],henc:182,henri:112,here:[82,146,161,167,171,176,179,184],hfss:[96,98,180,181,183],hfss_capacitance_export:[98,180],hidden:[61,77,150,157,176],hide:176,hierarch:157,hierarchi:[74,81,82,131,144,153,157,164,171,173,174,175],high:[170,186],highest:[98,113,180],highlight:171,hint:139,histori:156,hold:176,holder:[5,8,17,117],hole:[113,140],hollow:113,hollow_tsv:113,home:[159,175],homepath:[162,166],hor_dist:[24,128],horizont:[13,17,22,24,56,70,81,87,123,127,128,154],host:[103,161,177,179],hostnam:103,hotkei:173,hous:51,how:[98,113,153,157,163,166,167,171,176,177,180,181],howev:[89,113,163,167,171,175,176,179],hpc:159,html:[74,77,159,160,166],http:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185,186],human:[61,165,170],hyperv:159,i:[5,18,61,64,113,114,148,157,179,180],icon:174,id:[5,6,7,10,13,16,18,24,28,31,36,37,56,61,74,77,82,83,87,113,116,123,128,137,138,149,158,163,173,174,175,185],idea:168,ideal:112,ident:[82,83,148,149,153,157],identifi:[18,82,148,149,156,175,176,177],ignor:[5,82,113,138,147,152,162,179],ignore_port:[114,181],ilevel:106,illustr:[160,171,181],imag:[74,79,149,159,160,163,165,173,174,175,177,179,180,181],imagin:[113,181],imaginari:112,immedi:186,imped:[35,86,112],implement:[5,13,27,33,35,36,37,38,42,44,47,51,54,55,61,62,63,68,86,87,89,90,94,113,123,137,138,139,144,152,156,176,177,179,181,184],implicitli:61,import_and_simul:98,import_help:[1,129],import_script:98,import_script_fold:98,improv:[163,164,166,186],includ:[7,9,10,13,17,24,27,28,31,36,37,56,61,67,69,70,80,82,83,87,89,94,98,100,113,115,123,128,137,138,139,144,153,155,159,160,162,165,166,170,171,175,176,180,186],include_base_metal_addit:[70,87],include_base_metal_gap:[13,69,70,87,123],include_bump:[31,56],include_coupl:[9,10,175],include_import:144,incom:139,incompat:156,incomplet:182,incorpor:176,increas:[110,126,159,179],increment:[4,5,13,61,126,141,153],indent:[18,19,139],independ:[56,162,163,179],independentprocess:179,index:[5,18,36,61,62,63,77,108,112,113,141,152,153,165,176],indic:[36,77,113,152,162,176,180,181],indium:[5,42,113,181],indium_bump:176,individu:[61,81,82,83,100,110,113,156,163,171,181],induct:[106,112,118,152,180],inel:155,infer:[113,137,153],infin:139,infinit:[113,139,181],info:[5,103,107,113,146,147,159,179],inform:[75,82,110,113,155,157,167,170,171,175,176,180,181,182,186],inherit:[36,157,176,181],ini:164,initi:[61,74,93,94,95,113,115,116,117,118,144,152,163,174,175],initial_guess:61,initialis:178,inlin:[74,171],inner:[28,86,113,181],input:[7,18,42,56,61,98,100,110,138,141,179,181,186],input_oa:110,input_path:56,insert:[5,27,34,36,56,61,74,81,89,113,123,127,139,144,147,152,163,171,173,181],insert_cel:[25,36,74,113,118,132,144,157,174,176,181],insert_cell_into:36,insert_chip_copy_label:81,insert_filtered_el:5,insert_lay:113,insert_layers_between_fac:113,insert_stacked_up_lay:113,insid:[13,35,55,56,61,69,70,87,94,98,110,112,113,123,139,152,167,171,174,175,176,181,184],inst:[51,53,131],inst_nam:[9,10,36,61,74,113,141,153,176],instal:[134,135,159,161,165,170,172,176,178,179,182,183,185,186],install_kqc_depend:135,install_softwar:177,instanc:[36,51,61,74,82,83,113,131,132,136,141,144,147,148,149,153,157,162,163,171,172,174,176,180,181,182,183,184],instance_nam:149,instant:166,instanti:[83,152,157,163,181],instantli:165,instead:[61,64,74,82,139,141,144,157,159,162,163,167,171,176,177,179,180,181],instruct:[166,171],insul:113,integ:[5,6,7,10,16,18,81,112,113,138,139,181],integr:[10,27,98,170,171,173,176,183],integrate_energi:[98,180],intend:[94,113,181,186],intent:157,inter:[41,42],inter_bump_dist:[42,61],inter_spac:[12,23],interact:[149,173],interdigit:[17,18,22,132],interest:175,interfac:[61,98,100,110,113,167,180,181],intermedi:98,intermediate_processing_command:[98,180],intern:[94,113,152,171,180,181,182],internal_cel:148,internalport:[112,113,152,181],interpol:[98,180],interpret:185,intersect:108,interv:[103,177],introduc:[94,110,113,181],introduct:173,intuit:176,invalid:139,invers:141,invert:[77,80],io:[159,186],ipolygon:106,ipynb:[163,180],ipython:74,iqm:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,155,156,157,158,159,160,161,162,163,164,165,166,167,168,169,170,171,172,173,174,175,176,177,178,179,180,181,182,183,184,185,186],ironpython:182,is_axisymmetr:100,is_clockwis:138,is_continu:62,is_standalone_sess:84,isinst:131,island1_ext:87,island1_r:87,island1_taper_junction_width:87,island1_taper_width:87,island2_ext:87,island2_r:87,island2_taper_junction_width:87,island2_taper_width:87,island:[35,86,87,88,89,90,180,181],island_island_gap:87,island_r:90,island_splin:88,island_spline_sampl:88,issu:[162,165,167,168,186],item:[113,139,149,152,167],item_separ:139,iter:[61,62,98,100,139,180],ith_valu:113,its:[13,36,56,61,62,81,89,94,98,113,123,137,138,139,153,157,159,162,171,175,176,177],itself:[61,162,163,167,176,180],ivertex:106,ix:130,iy:130,j:[64,180],jann:155,javascript:139,jenei:155,job:177,johann:[0,155],join:[87,88],joint:181,josephson:86,json:[36,80,98,100,110,137,139,148,149,153,179,180,182,186],json_filenam:[98,100],jsonabl:153,jsondecod:139,jsonencod:139,jt1:175,jt2:175,jukka:155,juliusson:155,jun:155,junction:[1,5,9,10,13,22,25,80,86,87,88,89,112,113,118,122,123,124,152,153,157,165,167,176,180,181],junction_capacit:118,junction_induct:118,junction_paramet:[13,68,87,89,123],junction_shapes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:[5,36,61,137,147,162,166,171,179],opp_i:113,oppos:[13,24,28,31,36,37,56,61,87,113,123,128,181],opposing_face_id_group:[13,24,28,31,36,37,56,61,87,113,123,128],opposit:[13,18,24,28,31,36,37,56,61,87,113,116,123,128,181],optic:[5,15,16,121,125,126,165,184],optim:55,option:[5,22,31,36,56,61,81,82,83,90,98,103,107,110,112,113,114,124,132,137,144,148,159,164,171,172,175,176,177,179,182,186],ora:159,order:[5,18,22,56,61,62,94,100,108,110,113,138,139,157,159,171,180,181],ordin:113,org:[179,182],organ:[156,164,174,176],organis:77,orient:[36,61,153],origin:[31,32,36,40,59,60,63,64,71,72,74,81,113,138,143,176],origin_fluxlin:89,origin_offset:143,origin_squid:89,os:[82,84,162,163,166],other:[0,2,5,13,27,33,36,37,61,62,69,70,74,75,77,87,89,94,103,107,113,123,132,138,146,152,153,154,155,156,157,158,159,162,163,164,165,166,170,171,174,175,176,179,180,181,182,184,185,186],other_refpoint:152,otherclass:157,otherwis:[30,31,32,61,62,74,93,95,101,113,114,115,116,117,118,139,145,153,162,166,171,181],our:[164,167,176],out:[36,74,103,113,144,152,162,163,166,175,176,177,180],outer:[35,48,81,86,127],outer_island_width:[35,86],outlier:100,output:[42,61,100,110,130,139,141,146,159,163,170,176,177,179,180,182,183,186],output_format:[108,144],output_oa:110,output_path:110,output_rot:[36,42,61],outsid:[81,88,163,176],outward:138,oval:157,over:[40,61,83,98,113,150,159,162,174,180,181],over_etch:[113,152],overflowerror:139,overlap:[62,138,140,148,176],overrid:[5,13,81,83,93,94,95,112,113,115,116,117,118,123,157,159,177],overridden:[5,93,94,95,113,115,116,117,118],overwrit:[89,159,162,179],overwritten:82,own:[51,90,110,137,159,162,165,167,176],owner:150,oxid:110,oxidise_layers_funct:110,p1:[110,113,186],p2:[110,113,186],p:[100,136],p_element_ord:100,pacif:138,packag:[67,84,92,156,159,162,163,165,170,176,177,178,180,184,186],pad:[5,9,13,28,30,31,32,33,35,37,48,49,56,69,70,86,87,90,120,122,123,124,127,176,181],pad_configur:[13,123],pad_extra:32,pad_height:[70,87,120,127],pad_length:[28,30,31,56],pad_pitch:[5,176],pad_rounding_radiu:[70,87],pad_spac:[13,123],pad_spacing_i:127,pad_spacing_x:127,pad_to_pad_separ:[70,87],pad_width:[13,70,87,123,127],pads_loop:13,pads_region:127,page:[165,176,186],pair:[3,6,13,53,123,139,141,144,152,170,171],pairwis:19,panel:[167,171,172,173,176],parallel:[56,82,116,162,175,179],parallelizationsecond:179,param:[36,61,113,150,153,157,176],param_a:157,param_b:157,param_c:157,param_d:157,param_nam:[150,160],param_with_default_valu:150,paramet:[1,3,4,5,6,7,9,10,12,13,14,15,16,17,18,19,20,21,22,23,24,25,27,28,30,31,32,33,34,35,36,37,38,40,42,44,45,46,47,48,49,51,53,54,55,56,58,59,60,61,62,63,64,65,66,68,69,70,71,72,73,74,79,80,81,82,83,86,87,88,89,90,93,94,95,98,100,101,103,104,107,108,110,111,112,113,114,115,116,117,118,120,121,123,124,125,126,127,128,129,130,131,132,137,138,139,140,141,142,143,144,145,146,147,148,149,152,153,154,160,161,165,172,173,174,175,179,181,182,183,185,186],parameter:[181,182],parameter_dict:61,parameter_end:153,parameter_nam:153,parameter_start:153,parameter_step:153,parameteriz:184,parameters_from_shape_impl:[5,54,62],parameters_path:110,parametr:[19,165,171],paraview:[159,178,179,182],parent:[36,74,113,117,153,157],parent_nam:153,pars:[93,94,95,113,115,116,117,118,141],parse_const:139,parse_float:139,parse_int:139,parseabl:139,parser:[1,92,96,105,139],part:[32,47,48,56,82,89,90,111,112,123,138,163,171,172,174,175,176,179],partial:[62,171,172],particip:[98,100,173,183],particular:[61,167,174,176],particularli:[36,150],partit:[111,179],partition_region:[1,92,113],partitionregion:[111,113],pascalcas:[145,157],pass:[61,74,82,83,93,94,95,101,113,115,116,117,118,138,139,144,145,149,157,176,181],password:177,past:144,path:[26,56,61,62,74,80,84,98,100,101,104,107,110,117,137,138,142,145,148,149,159,162,163,164,166,170,171,176,177,178,179,182,186],path_to_kqcircuit:162,pathlib:[98,100,101,104,107,110,137],pattern:[7,56,165],pavel:155,pccga:138,pcell:[2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,82,85,86,87,88,89,90,93,94,113,115,116,117,118,119,120,121,122,123,124,125,126,127,128,131,141,143,144,145,147,148,149,150,153,160,161,170,171,172,174,176,181,184],pcell_class:131,pcell_declar:131,pcell_declaration_help:36,pcell_imag:160,pcell_params_by_nam:[36,113],pcelldeclarationhelp:[27,157],pcellparameterdeclar:150,pdf:107,pdt:[150,176],pem:159,penetr:[94,110,180],pep8:158,pep:[156,157],per:[5,37,55,61,64,124,157,163,179,180],percent_error:[98,100,180],percent_refin:[98,180],percentag:[98,180],perform:[110,159,163,179,180],perhap:176,permit:[156,176],permitt:[94,98,100,110,113],perspect:61,photomask:175,physic:[17,18,28,35,37,42,55,61,66,98,100,149,179,184,186],pi:138,pick:110,pictur:170,pile:[113,181],pin:[148,163],pip3:162,pip:[135,162,163,166,178,179,182],pipelin:[159,164],pitch:[19,24,128],pixel:[5,7,74,184],pixelbuff:74,pl_:18,place:[2,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epr_exampl:180,pyhint:110,pylint:164,pypi:[161,170],pytest:[163,164,170],python3:162,python:[74,84,98,139,141,142,144,157,158,159,161,163,165,167,170,173,174,175,177,178,179,180,182,185,186],python_execut:[159,179],q3d:[96,98,180,181,183],q:[103,163,172,178],qb1:153,qb:[25,118],qcd1:67,qcd2:67,qcd3:67,qdg:82,qf1:175,qin:138,qpu:165,qt5:77,qualiti:[100,145],quality_factor:[1,2,145,175],quality_factor_twofac:[1,2],qualityfactor:[17,82,145,175],qualityfactortwofac:18,quantum:[5,27,36,67,127,165,184],qubit:[1,9,10,22,25,67,117,118,157,165,167,171,172,176,180,181,182],qubit_a_nr:[9,10],qubit_b_nr:[9,10],qubit_cel:117,qubit_nr:[9,10],qubit_spac:[25,117,118],qubits_refpoint:22,question:168,queu:180,queue:179,quick:[162,176],quick_demo:[82,163,175],quick_start:159,quickli:159,quiet:[101,103],quirk:167,quit:172,r0:[5,36,113,127],r:[13,24,28,31,36,37,42,56,61,62,63,87,113,123,128,138,139,152,159,162,176,185],r_inner:[35,86],r_outer:[35,86],rad:63,radial:86,radian:[63,138],radio:62,radiu:[13,24,28,31,35,36,37,38,54,56,61,62,63,70,81,86,87,90,113,123,128,138,152,176],rais:[36,61,139,141,153,174],raise_error_on_cel:36,ram:159,rang:[5,55,139],rare:[163,176],rather:166,ratio:[37,38,48,74,98,173,183],rb:186,rd:176,re:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,23,24,25,28,31,32,33,35,36,37,38,41,42,45,46,47,48,49,52,53,54,55,56,60,62,63,64,65,66,69,70,71,72,86,87,90,106,112,120,121,124,125,126,128,144,150,157,162,174,179],react:106,reactanc:[112,152],read:[153,159,166,167,171,176],readabl:[61,158,170],readi:[93,95,113,115,116,117,118],readout:[9,10,22,87,88],readout_res_length:[9,10,22,175],real:112,realli:[162,175],reason:[61,157,176],rebuild:160,rec_level:[36,74,113,152,176],recent:167,recommend:[166,171,175,179,180],rectangl:[87,88,157,171],rectangular:[17,28,30,32,48,56,61,62,63,64,81,90,175],rectangular_paramet:56,recurs:[36,74,113,139,147,152],red:174,reduc:[165,180],refer:[27,34,35,36,37,38,74,77,80,86,113,137,138,139,152,155,157,162,163,164,171,174,176,182],refin:[98,180],reflect:164,refp:181,refplan:106,refpoint:[1,18,22,27,32,33,35,36,37,42,47,55,59,61,74,77,86,87,88,89,90,113,114,123,127,129,137,141,144,171,173,181],refpoint_dist:127,refpoint_nam:176,refpoint_of_some_el:176,refpoint_prefix:127,refpoint_snap:144,refpoint_transform:36,refpointtoedgeport:152,refpointtointernalport:152,refpointtosimport:[33,35,36,37,42,47,55,86,87,90,152,181],regadless:148,region:[5,36,37,51,61,81,98,110,111,113,127,138,140],region_from_lay:113,region_with_merged_point:[113,138],region_with_merged_polygon:[113,138],regist:[94,151,157,169],register_cell_layers_as_sim_lay:94,register_plugin:151,registr:[151,176],registri:159,regress:139,regular:[61,166,175,181,182],reinstal:[162,167],reintroduc:164,rel:[36,74,89,98,100,113,123,143,145,152,157,176,180],relat:[55,77,165,168,176],relationship:179,releas:[156,159,165],relev:[94,113,152,180,181],reload:[167,171,173,176],reloc:167,rememb:[159,162,163,171],remot:[103,173,179,183],remote_export_and_run:[1,92,96],remote_host:102,remote_run_onli:103,remov:[11,33,51,81,82,113,116,137,138,144,145,146,150,153,160,162,165,176],remove_capacitor:33,remove_chip:81,remove_guiding_shap:82,remove_old_handl:146,renam:36,render:74,renorm:[112,180],repeat:5,repetit:164,replac:[36,82,141,153,162,175,182],replace_junct:[1,129],replace_nod:141,replace_squid:153,repo:[159,163],report:[61,82,164],repositori:[0,137,159,161,167,170,180],repres:[27,61,62,63,68,73,74,79,81,82,83,165,174,181],represent:[36,61,81,138,139,179],reproduc:161,request:[146,153,159,177,179],requir:[61,74,144,157,158,161,162,164,166,167,171,175,179,181,182,183,186],require_gui_editing_en:141,requirements_within_klayout_unix:162,requirements_within_klayout_window:162,res_a:[17,18,47],res_airbridge_typ:17,res_b:[17,18,47],res_beg:17,res_length:[17,18],res_term:17,research:67,resembl:128,reserv:[77,94],reset:94,resist:[106,112,152],resistor:148,resolut:113,resolv:[5,161,176],resolve_default_layer_info:74,reson:[9,10,17,18,22,47,56,115,171,180],resonator_fac:18,resonator_length:47,resonator_typ:18,resonators_both_sid:17,resourc:[82,177,179],respect:[36,61,111,112,113,121,143,154,181],rest:82,restart:[167,171,172,174,185],restore_pcells_to_view:144,result:[94,98,113,127,137,138,139,163,177,179,180,183],retain:110,retriev:61,revers:157,revert:181,review:156,revis:[137,184],rewritten:158,rf16:176,rf:[5,42,164,176],rho:130,ride:159,right:[3,6,18,22,28,36,56,66,80,81,110,112,113,152,167,171,172,174,175,176,181],right_gap_inn:63,right_gap_out:63,right_protect:63,right_sid:[89,123],right_spac:56,rigtht:81,rlc:[112,180],rm:176,roam:162,root:[146,159,164,170,176],rot:89,rotat:[5,36,42,61,74,81,89,113,175,176],roughli:175,round:[42,61,70,87,90,113,176],round_connector:[42,61],rounding_param:69,rout:[61,146,171,176],route_funct:61,route_log:146,routin:89,row:[81,94,180],rpc:139,rr:[25,118],rr_cpl_width:[25,118],rsa:159,rst:160,rubi:[176,186],rule:[106,113,160,170],ruler:[160,186],run:[1,61,74,77,84,98,100,101,103,110,135,137,159,160,162,163,164,165,166,167,170,172,173,175,176,177,179,180,182,183,184,185,186],run_elm:179,run_elmergrid:179,run_gmsh_gui:179,run_paraview:179,run_script:159,runid:177,runtim:159,rx:[159,176],s1p:180,s2p:180,s3p:180,s:[5,12,23,33,35,36,37,42,47,48,55,61,74,82,84,86,87,89,90,108,114,123,137,138,144,148,150,152,153,157,158,160,162,163,166,167,170,171,173,175,176,177,183,185],sa:113,sa_permitt:110,sa_thick:110,safe:163,safest:167,salt:[156,162,163,165,166,170,176,186],same:[18,22,35,36,37,54,61,74,81,82,83,94,113,138,144,147,148,149,150,153,157,162,163,164,167,171,174,175,176,177,179,181],sampl:[5,8,17,88,117,138],sample_holder_test:[1,2],sample_holder_typ:17,sample_point:138,samplehold:173,sampleholder_typ:[5,14,176],sampleholdertest:19,satisfactori:160,save:[98,153,167,176,177,180,181],savola:[155,180],sbatch:179,sbatch_paramet:[177,179],scalar:[111,113],scale:[48,81],scatter:180,schema:[94,153],scheme:156,scope:[74,163],scratch:176,script:[61,74,98,100,101,103,137,153,159,160,162,163,167,170,171,173,174,176,177,178,179,180,181,182,183,184,186],script_fil:100,scroll:[172,186],se:[117,137],search:[141,165],second:[13,31,36,42,69,87,103,110,113,123,138,176,177,179],secondari:[161,186],section:[0,62,94,100,110,148,157,162,163,165,167,171,173,175,176,178,181,183],secur:[161,179],see:[0,2,18,36,61,77,82,93,95,98,107,110,113,115,116,117,118,119,153,156,157,159,162,163,166,167,169,171,172,174,175,176,177,179,180,181,182,185],segment:[24,56,61,62,63,65,66,113,171],segment_length:61,select:[13,69,107,136,144,167,171,172,174,175,176,181,186],self:[5,36,56,61,64,68,73,81,82,89,93,94,95,113,115,116,117,118,139,158,170,176,179,181],semi:35,send:177,sens:[98,100,172,174],sensibl:139,sent:179,separ:[5,13,36,69,70,74,82,87,88,94,110,113,123,139,141,144,145,147,162,164,166,167,171,172,176,177,181,182],separate_island_internal_port:152,separate_junct:[13,69,70,87,123],separate_signal_layer_shap:110,sequenc:[100,126,138],sequenti:179,seri:[42,61,88,93,182],serial:[61,139],serializ:139,seriou:156,serv:[33,35,36,37,42,47,55,86,87,90],session:84,set:[5,18,36,56,61,74,79,80,82,83,94,98,100,107,110,112,113,117,137,152,156,157,159,162,163,164,165,171,172,176,177,179,180,181,182],set_permitt:94,setup:[161,163,165,166,167,171,172,176,177,183,185,186],setup_within_klayout:162,setuptool:166,sever:[36,61,74,139,157,162,167,171,175,176,181,182,183],sh:[159,177,179,182],shadow:[13,69,70,87,123],shadow_margin:[13,69,70,87,123],shadow_shap:69,shape:[1,2,5,13,17,24,27,28,30,31,32,34,36,37,42,54,56,61,62,75,80,82,86,87,89,94,110,113,123,127,128,143,147,153,171,172,174,176,181,182,184,186],shape_lay:5,share:[27,89,113,138,179],sheet:[98,113,181],shell:[178,179],shift:[171,172,174,175],shortcut:172,should:[5,30,33,35,36,37,42,47,55,56,61,62,74,75,77,86,87,90,93,94,95,100,110,113,114,115,116,117,118,135,137,139,148,150,152,153,157,158,159,160,162,163,164,166,167,171,172,174,175,176,181,185],shouldn:162,show:[74,125,126,149,163,167,171,172,174,175,176,181,182],shown:[54,74,101,148,149,157,171,174,179],shrink:113,shunt:[87,88],si:106,side:[3,5,6,17,18,28,33,35,36,37,42,47,55,59,60,64,81,86,87,90,113,114,127,144,152,154,157,175,176,181],sif:179,signal:[13,24,28,31,36,37,42,56,61,87,94,110,112,113,123,128,152,171,180,181],signal_edg:113,signal_lay:[112,152],signal_loc:[112,180,181],signal_metal_height:113,signatur:110,silicon:[5,24,113,128,176,181,184],sim:[1,10,13,22,25,67,68,87,89,118,123,163,177,178,179,181],sim_1:177,sim_2:177,sim_class:[104,181,182],sim_i_tmp_fold:177,sim_n:177,sim_paramet:[104,181],similar:[82,152,174,179,180,181,182],similarli:[162,164,181,182],simpl:[1,2,13,82,84,107,113,123,124,159,175,179],simple_cross:176,simple_polygon:138,simple_region:138,simple_workload_manag:159,simplecross:176,simpler:176,simplest:[166,181],simpli:[89,139,159,163,181],simplic:[150,157],simplifi:113,simplified_region:113,simul:[1,25,33,35,36,37,42,47,55,72,77,86,87,89,90,129,152,159,163,165,166,167,170,173,176,178,179,182,186],simulation_export:[1,92,96,181,182],simulation_flag:[98,180],simulation_mesh:179,simulation_safeti:107,simultan:162,sinan:155,sinc:[0,141,162,171,176,181],singapor:138,singl:[4,5,6,10,13,18,22,25,42,55,56,61,68,70,80,82,87,89,104,113,114,118,123,144,145,150,164,167,173,175,176,177,179,183,184],single_element_simul:[1,92,181,182],single_junct:[13,69,87,123],single_xmon:[1,2],single_xmons_full_chip_sim:[1,92],singlexmon:22,singlexmonsfullchipsim:115,singular:[161,170,177,179],singularity_path:177,singularity_priv:159,singularity_remote_path:102,site:[137,162,166],situat:171,six:22,sixth:138,size:[5,28,35,37,42,55,61,66,74,81,82,86,100,112,113,138,143,149,171,175,176],skip:[98,100,139],skip_error:[98,100],skip_extra:80,skipkei:139,slide:138,slightli:166,slot:110,slow:[141,174,175],slurm:[177,179],sma8:[14,17,117,176],small:[13,21,62,156,176,179],small_loop_area:13,smaller:[82,113,138],smirnov:155,smooth:[55,132],smooth_capacitor:[1,27],smoothcapacitor:[18,55,132],snap:[61,144],snap_point:61,snippet:181,snp:180,so:[56,61,82,93,94,95,113,115,116,117,118,137,138,152,153,157,159,162,163,164,167,171,174,176,180,182,185],softwar:[155,159,169,179,182],solid:[18,180],solut:[162,167,180],solv:[98,180],solver:[179,180,182],some:[2,5,13,24,27,28,31,36,37,56,61,75,82,83,87,98,100,107,110,113,123,128,137,138,144,150,153,157,160,162,163,164,166,167,171,172,174,175,176,177,180,181,184],someel:176,someth:[158,179],something_port:176,something_port_corn:176,sometim:[166,174],son:[107,182],sonnet:[1,92,96,173,183],sonnet_export:[1,92,96,105,182],sonnetsoftwar:107,sort:[110,139],sort_kei:[110,139],sourc:[3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,28,30,31,32,33,34,35,36,37,38,40,41,42,44,45,46,47,48,49,51,52,53,54,55,56,58,59,60,61,62,63,64,65,66,68,69,70,71,72,73,74,75,80,81,82,83,84,86,87,88,89,90,91,93,94,95,98,100,101,102,103,104,106,107,108,110,111,112,113,114,115,116,117,118,120,121,123,124,125,126,127,128,130,131,132,133,134,135,136,137,138,139,140,141,142,143,144,145,146,147,148,149,150,151,152,153,154,161,163,164,166,169,170,180,181],south:90,space:[5,12,13,15,16,18,23,25,56,61,94,116,117,118,121,123,125,126,141,143,145,163],spacial:110,spcifi:175,spec_lay:80,special:[61,138,171],specif:[36,51,61,68,73,74,79,80,82,94,113,139,152,155,157,159,162,163,166,167,171,174,176,181,182,183],specifi:[5,30,31,32,36,48,61,74,81,82,83,94,100,110,112,113,137,138,139,141,142,146,148,149,150,153,159,160,162,163,170,175,177,181,182],speed:[140,152,164,179],sphinx:[150,160],sphinxext:160,spiral:[18,56,171],spiral_box_height:18,spiral_box_width:18,spiral_resonator_polygon:[1,27],spiralresonatorpolygon:56,spiralresonatorrectangl:56,spline:[88,138],split:[113,138],splitter:64,spring:149,squar:[5,12,23,34,37,51,81,82,127,144,163,167,176],squid:[1,13,67,69,71,72,85,87,88,89,90,112,123,153],squid_0:153,squid_3:153,squid_angl:86,squid_index:153,squid_offset:87,squid_port_squid_a:181,squid_port_squid_b:181,squidnam:73,src_path:145,ssh:[103,177],ssh_login:103,st1:175,stabil:166,stack:[77,113,173,174,183],stage:174,staircas:107,stand:[135,170,183],standalon:[74,84,137,157,161,162,165,166,175,178],standard:[5,13,24,25,34,44,45,51,52,58,60,61,89,117,118,128,138,141,146,161,167],start:[0,5,13,18,34,54,56,61,62,63,64,77,86,103,108,113,123,138,144,150,153,160,163,165,166,168,174,176,177,179,181],startpoint:138,startup:[135,141],state:[13,44,68,87,89,123,177,179],statement:[144,167],std:106,stdout:146,step:[4,13,15,16,61,98,123,138,140,153,162,166,167,172,174,175,177],still:175,stop:[63,98,100,138,162,174,180],storag:[61,171],store:[94,113,130,153,175,180,181],str:[36,61,81,100,102,103,106,112,113,114,130,137,139,141,144,145,150,153],straight:[3,6,25,44,46,56,61,62,65,89,118,176],strategi:156,street:5,strict:[139,157],strictli:176,string:[5,6,7,9,10,13,14,15,16,18,21,22,23,24,25,28,30,31,32,33,34,36,37,42,44,45,46,56,58,59,60,61,64,68,69,70,71,72,81,82,87,89,94,98,101,103,111,113,114,116,118,123,124,128,132,137,139,141,144,145,146,148,149,152,175,176],strip:141,stripe:[1,2,5,15,16,125,126],stripe_length:[125,126],stripe_spac:[125,126],stripe_step:126,stripe_test:[15,16],stripe_test_increasing_width:[15,16],stripe_width:125,stripes_test:[1,119],stripes_test_increasing_width:[1,119],stripestest:[15,16,125],stripestestincreasingwidth:126,structur:[2,5,27,67,112,119,120,123,124,127,128,149,153,163,164,165,167,173,175,180,184],stub:[113,118],stuck:159,studio:176,style:[69,70,156,161,165,176],sub:[26,36,61,62,69,81,89,111,113,153,157,171,175],subcel:[36,61,74,89,113,123,152,176],subcircuit:[148,149],subcircuit_id:[148,149],subcircuit_loc:148,subcircuit_origin:148,subclass:[30,33,35,36,37,42,47,51,55,61,82,83,86,87,89,90,94,113,139,150,173,180,182,183],subdirectori:[80,167,170],subfold:[159,176],submask:81,subscel:61,subsect:162,subsequ:138,subset:77,substrat:[59,60,98,100,110,111,113,176,181],substrate_box:113,substrate_height:[113,181],substrate_loss_tang:98,substrate_materi:113,subsystem:159,subtract:[5,51,127,147],subtyp:36,successfulli:[159,162,163,185],suffic:179,suffix:[110,111,137,149],suitabl:[163,166,180,181],sum:138,summari:184,superconduct:[5,36,110,127,165],suppli:[61,62,83,93,95,113,115,116,117,118,137,181],support:[27,35,61,74,96,107,137,139,163,165,171,176,177,179,180,181,183,186],suppos:[163,175,181],sure:[159,162,164,167,171,174,176,177,182,186],surfac:[113,180,181],surround:[42,51,153],sw:[117,137],swap:176,sweep:[98,104,107,110,153,173,179,180,183],sweep_count:[98,180],sweep_en:[98,180],sweep_end:[98,180],sweep_simul:[104,181],sweep_start:[98,180],sweep_typ:[98,100,180],swept:153,swept_angl:35,swissmon:[1,85,172,181,182],swissmon_simulation_output:182,swissmonsimul:181,sx1:175,sylab:159,sym:106,symbol:[159,162,170,174,176,177,179],symlink:162,symmetr:100,symmetri:[106,154],symmetric_polygon:[1,129,176],sync:[135,163,179],sync_paramet:36,syncronis:36,syntax:[157,176,181],system:[36,77,137,152,159,162,166,167,173,179,182],t1_estim:180,t:[36,42,61,64,77,94,98,113,139,157,159,162,163,166,171,176,179,181],t_1:180,t_cross_paramet:64,tab:[74,139,171,172,174,175],tag:[0,1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@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/gui_features.html b/user_guide/gui_features.html
index 90b38a1b6..1ef19c73c 100644
--- a/user_guide/gui_features.html
+++ b/user_guide/gui_features.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/gui_workflow.html b/user_guide/gui_workflow.html
index c9c9be01f..b8c786927 100644
--- a/user_guide/gui_workflow.html
+++ b/user_guide/gui_workflow.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/index.html b/user_guide/index.html
index 6858dafc9..f05f09bac 100644
--- a/user_guide/index.html
+++ b/user_guide/index.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/macro_workflow.html b/user_guide/macro_workflow.html
index 3ef1d7698..8ae9ac2a4 100644
--- a/user_guide/macro_workflow.html
+++ b/user_guide/macro_workflow.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/mask_export.html b/user_guide/mask_export.html
index f7be776a3..4f543f4d8 100644
--- a/user_guide/mask_export.html
+++ b/user_guide/mask_export.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/python_workflow.html b/user_guide/python_workflow.html
index f3107f20b..ca3faf09a 100644
--- a/user_guide/python_workflow.html
+++ b/user_guide/python_workflow.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulation/elmer_remote_workflow.html b/user_guide/simulation/elmer_remote_workflow.html
index 0e24d18bf..6ce9f68af 100644
--- a/user_guide/simulation/elmer_remote_workflow.html
+++ b/user_guide/simulation/elmer_remote_workflow.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulation/export_and_run.html b/user_guide/simulation/export_and_run.html
index 03cedb9a8..3f46b5a17 100644
--- a/user_guide/simulation/export_and_run.html
+++ b/user_guide/simulation/export_and_run.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulation/gmsh_elmer_export.html b/user_guide/simulation/gmsh_elmer_export.html
index 6eddef96c..4819f8bc1 100644
--- a/user_guide/simulation/gmsh_elmer_export.html
+++ b/user_guide/simulation/gmsh_elmer_export.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulation/simulation_features.html b/user_guide/simulation/simulation_features.html
index c95fa2100..71191c023 100644
--- a/user_guide/simulation/simulation_features.html
+++ b/user_guide/simulation/simulation_features.html
@@ -393,6 +393,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -411,7 +412,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulation/simulation_objects.html b/user_guide/simulation/simulation_objects.html
index bc5714e86..287478880 100644
--- a/user_guide/simulation/simulation_objects.html
+++ b/user_guide/simulation/simulation_objects.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulation/simulation_scripts.html b/user_guide/simulation/simulation_scripts.html
index f5a351a04..fbe766a1e 100644
--- a/user_guide/simulation/simulation_scripts.html
+++ b/user_guide/simulation/simulation_scripts.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/simulations.html b/user_guide/simulations.html
index 1009a7880..fa8e33d62 100644
--- a/user_guide/simulations.html
+++ b/user_guide/simulations.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/terminology.html b/user_guide/terminology.html
index 57272c76e..3bcf08d6c 100644
--- a/user_guide/terminology.html
+++ b/user_guide/terminology.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/usage.html b/user_guide/usage.html
index 94023b7df..0b7dd52b3 100644
--- a/user_guide/usage.html
+++ b/user_guide/usage.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>
diff --git a/user_guide/xsection.html b/user_guide/xsection.html
index 6716a4c09..4528553f3 100644
--- a/user_guide/xsection.html
+++ b/user_guide/xsection.html
@@ -392,6 +392,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.count_instances.html">kqcircuits.util.count_instances</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.coupler_lib.html">kqcircuits.util.coupler_lib</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.deep_delete.html">kqcircuits.util.deep_delete</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.defaults_helper.html">kqcircuits.util.defaults_helper</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.dependencies.html">kqcircuits.util.dependencies</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.edit_node_plugin.html">kqcircuits.util.edit_node_plugin</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.export_helper.html">kqcircuits.util.export_helper</a></li>
@@ -410,7 +411,7 @@
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.parameters.html">kqcircuits.util.parameters</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.plugin_startup.html">kqcircuits.util.plugin_startup</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.refpoints.html">kqcircuits.util.refpoints</a></li>
-<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_squids.html">kqcircuits.util.replace_squids</a></li>
+<li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.replace_junctions.html">kqcircuits.util.replace_junctions</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.symmetric_polygons.html">kqcircuits.util.symmetric_polygons</a></li>
 <li class="toctree-l3"><a class="reference internal" href="../api/kqcircuits.util.html#module-kqcircuits.util">Module contents</a></li>
 </ul>