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broadinstitute · Dec 9, 2024 · 0bd51ea · 0bd51ea
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commit 0bd51ea
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Showing 26 changed files with 4,102 additions and 954 deletions.
diff --git a/.DS_Store b/.DS_Store
diff --git a/404.html b/404.html
@@ -793,6 +793,10 @@ <h1>404 - Not found</h1>
 
       <script src="/assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="/assets/js/index.js" type="module"></script>
+
+        <script src="/assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/assets/js/index.js b/assets/js/index.js
@@ -0,0 +1,57 @@
+import celldega from './widget.js';
+
+document.addEventListener("DOMContentLoaded", async () => {
+
+    console.log("hello hello");
+
+    console.log('checking celldega using import in index.js')
+    console.log('celldega', celldega)
+
+    console.log('here!')
+
+
+    // Use the imported functions
+    const token = '';
+    const ini_x = 21500;
+    const ini_y = 14200;
+    const ini_z = 0;
+    const ini_zoom = -6;
+    const base_url = 'http://127.0.0.1:8080/notebooks/data/xenium_landscapes/Xenium_Prime_Human_Skin_FFPE_outs';
+
+    // // make a DOM element with the id 'landscape'
+    // document.body.innerHTML = '<div id="landscape"></div>';
+
+    let el = document.querySelector("#landscape");
+
+    // const ist_callback = () => {
+    //     console.log('custom callback for ist');
+    // }
+
+    const landscape = await celldega.landscape_ist(
+        el,
+        {},
+        token,
+        ini_x,
+        ini_y,
+        ini_z,
+        ini_zoom,
+        base_url,
+        '',
+        0.25,
+        '100%',
+        '100%',
+        // ist_callback
+    );
+
+
+
+});
+
+
+
+{/* <script type="module">
+  console.log('**************************')
+  console.log('**************************')
+  import celldega from './assets/js/widget.js';
+  console.log(celldega)
+</script> */}
diff --git a/assets/js/test.js b/assets/js/test.js
@@ -0,0 +1,5 @@
+document.addEventListener("DOMContentLoaded", () => {
+
+    console.log("testing testng");
+
+});
diff --git a/assets/js/widget.js b/assets/js/widget.js
diff --git a/examples/Landscape_View_Xenium/index.html b/examples/Landscape_View_Xenium/index.html
@@ -4650,6 +4650,10 @@ <h1 id="landscape-view-xenium">Landscape View Xenium<a class="anchor-link" href=
 
       <script src="../../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../../assets/js/index.js" type="module"></script>
+
+        <script src="../../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/gallery/index.html b/gallery/index.html
@@ -810,6 +810,10 @@ <h1>Gallery</h1>
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/gallery_xenium/index.html b/gallery_xenium/index.html
@@ -874,6 +874,10 @@ <h2 id="bone-marrow">Bone Marrow</h2>
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/gallery_xenium_human_skin/index.html b/gallery_xenium_human_skin/index.html
@@ -835,6 +835,10 @@ <h1 id="xenium-prime-human-skin-ffpe-outs">Xenium Prime Human Skin FFPE outs</h1
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/gallery_xenium_mouse_brain/index.html b/gallery_xenium_mouse_brain/index.html
@@ -835,6 +835,10 @@ <h1 id="xenium-prime-mouse-brain-coronal-ff">Xenium Prime Mouse Brain Coronal FF
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/gallery_xenium_multi/index.html b/gallery_xenium_multi/index.html
@@ -953,6 +953,10 @@ <h2 id="bone-marrow">Bone Marrow</h2>
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/getting_started/index.html b/getting_started/index.html
@@ -832,6 +832,10 @@ <h1 id="getting-started">Getting Started</h1>
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/index.html b/index.html
@@ -868,8 +868,11 @@
 
 
 <h1 id="welcome-to-celldegas-documentation">Welcome to Celldega's Documentation</h1>
-<iframe width="100%" height="575" frameborder="0"
-  src="https://observablehq.com/embed/@cornhundred/celldega-xenium-bone-marrow-example?cells=root"></iframe>
+<!-- <div id="landscape-container"> -->
+<div id="landscape-container" style="position: relative; display: flex; width: 100%; height: 500px; overflow: hidden; border: 1px solid #ccc;">
+    <!-- The landscape visualization will render here -->
+    <div id="landscape" style="height; 500px;"></div>
+</div>
 
 <p>This is the official documentation for the Celldega library.</p>
 <h2 id="overview">Overview</h2>
@@ -880,6 +883,23 @@ <h2 id="overview">Overview</h2>
 </ul>
 <h2 id="gallery">Gallery</h2>
 <h2 id="embedded-jupyter-notebook">Embedded Jupyter Notebook</h2>
+<!-- <script src="assets/js/widget.js></script> -->
+<script src="assets/js/index.js" type="module"></script>
+
+<!-- <script>
+  document.addEventListener("DOMContentLoaded", () => {
+    console.log('script in the markdown page')
+  }
+</script> -->
+
+<!-- <script type="module">
+
+    console.log('************************************)
+    // import celldega from './assets/js/widget.js';
+
+    console.log("hello!!!!!!");
+
+</script> -->
 
 
 
@@ -931,6 +951,10 @@ <h2 id="embedded-jupyter-notebook">Embedded Jupyter Notebook</h2>
 
       <script src="assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="assets/js/index.js" type="module"></script>
+
+        <script src="assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/index.md b/index.md
@@ -1,10 +1,15 @@
 # Welcome to Celldega's Documentation
-<iframe width="100%" height="575" frameborder="0"
-  src="https://observablehq.com/embed/@cornhundred/celldega-xenium-bone-marrow-example?cells=root"></iframe>
 
 
+<!-- <div id="landscape-container"> -->
+<div id="landscape-container" style="position: relative; display: flex; width: 100%; height: 500px; overflow: hidden; border: 1px solid #ccc;">
+    <!-- The landscape visualization will render here -->
+    <div id="landscape" style="height; 500px;"></div>
+</div>
+
 This is the official documentation for the Celldega library.
 
+
 ## Overview
 
 - [Getting Started](getting_started.md)
@@ -14,4 +19,23 @@ This is the official documentation for the Celldega library.
 ## Gallery
 
 
-## Embedded Jupyter Notebook
+## Embedded Jupyter Notebook
+
+<!-- <script src="assets/js/widget.js></script> -->
+<script src="assets/js/index.js" type="module"></script>
+
+
+<!-- <script>
+  document.addEventListener("DOMContentLoaded", () => {
+    console.log('script in the markdown page')
+  }
+</script> -->
+
+<!-- <script type="module">
+
+    console.log('************************************)
+    // import celldega from './assets/js/widget.js';
+
+    console.log("hello!!!!!!");
+
+</script> -->
diff --git a/installation/index.html b/installation/index.html
@@ -824,6 +824,10 @@ <h1>Installation</h1>
 
       <script src="../assets/javascripts/bundle.fe8b6f2b.min.js"></script>
 
+        <script src="../assets/js/index.js" type="module"></script>
+
+        <script src="../assets/js/test.js"></script>
+
 
   </body>
 </html>
diff --git a/objects.inv b/objects.inv
@@ -2,5 +2,5 @@
 # Project: Celldega Documentation
 # Version: 0.0.0
 # The remainder of this file is compressed using zlib.
-xڝ�KR�0@���3������A����ß4��q=P��g����ei"FJq�}C�CG׿2�!l^�g��f�N��_f+�Q���)��
-myR��p��<�d��<902�'U<�%n*�"� C�1�~O�Ei�,nMK>B���H�D�YK�q5��;�ՠ�%UC_���bB����^"�X#@�n�%`K�R*r��P����-��G�C��BMw���2�{ԒWJwK%R��EY�WZ��&���>?�[O�~_�PUn��/y�-�2�}wڎ3�A���^�!G�2w/��?Ʒ	�
+xڝ�Kr� @�=Ef�m�I�=C�Q@%��
+�qr�b�I�4����$�`FJqX}�ၡ��;�3�!l��g<X�E'��첳����קk@���Z���<�y�J�yR�g��x��X�mm8�D����M��a�:�gmX�֌���F���MA�!�q�b�hfMC>��F��-���q�#�_��Jԙ����Acgk5(jH�Џ�����ǖOl��r`{:��-ʖ\�C�SS��EW~�t���<w�%/��͕H�"e�_i�N����-o}~�c��u乨ܒ�?6\z��|Q=yzݗ=������1C%O��):�L&��6r