From 094094f318abc4559e8c1759add00528727e74d4 Mon Sep 17 00:00:00 2001
From: guerler <aysam.guerler@gmail.com>
Date: Mon, 2 Dec 2024 11:48:21 +0300
Subject: [PATCH 1/4] Add vitessce

---
 client/gulpfile.js                            |   1 +
 .../vitessce/config/vitessce.xml              |  19 ++++++++++++++++++
 .../visualizations/vitessce/static/logo.png   | Bin 0 -> 11653 bytes
 3 files changed, 20 insertions(+)
 create mode 100644 config/plugins/visualizations/vitessce/config/vitessce.xml
 create mode 100644 config/plugins/visualizations/vitessce/static/logo.png

diff --git a/client/gulpfile.js b/client/gulpfile.js
index 06d918958288..5338acac958a 100644
--- a/client/gulpfile.js
+++ b/client/gulpfile.js
@@ -43,6 +43,7 @@ const INSTALL_PLUGIN_BUILD_IDS = [
     "phylocanvas",
     "plotly",
     "venn",
+    "vitessce",
     "vizarr",
 ]; // todo: derive from XML
 const DIST_PLUGIN_BUILD_IDS = ["new_user"];
diff --git a/config/plugins/visualizations/vitessce/config/vitessce.xml b/config/plugins/visualizations/vitessce/config/vitessce.xml
new file mode 100644
index 000000000000..2c33e0102807
--- /dev/null
+++ b/config/plugins/visualizations/vitessce/config/vitessce.xml
@@ -0,0 +1,19 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE visualization SYSTEM "../../visualization.dtd">
+<visualization name="Vitessce">
+    <description>Visual integration tool for exploration of spatial single cell experiments.</description>
+    <data_sources>
+        <data_source>
+            <model_class>HistoryDatasetAssociation</model_class>
+            <test test_attr="ext" result_type="datatype">json</test>
+            <to_param param_attr="id">dataset_id</to_param>
+        </data_source>
+    </data_sources>
+    <params>
+        <param type="dataset" var_name_in_template="hda" required="true">dataset_id</param>
+    </params>
+    <requirements>
+        <requirement type="npm" version="0.0.0" package="galaxy-vitessce"/>
+    </requirements>
+    <entry_point entry_point_type="script" src="dist/index.js" css="dist/index.css" />
+</visualization>
\ No newline at end of file
diff --git a/config/plugins/visualizations/vitessce/static/logo.png b/config/plugins/visualizations/vitessce/static/logo.png
new file mode 100644
index 0000000000000000000000000000000000000000..79cebd6025f46b35821ab0d7a7af5d525ec5bd35
GIT binary patch
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literal 0
HcmV?d00001


From b600cfef7977245c92425dd6f8a86a31ce9d1441 Mon Sep 17 00:00:00 2001
From: guerler <aysam.guerler@gmail.com>
Date: Tue, 3 Dec 2024 13:03:25 +0300
Subject: [PATCH 2/4] Move package to galaxyproject

---
 config/plugins/visualizations/vitessce/config/vitessce.xml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/config/plugins/visualizations/vitessce/config/vitessce.xml b/config/plugins/visualizations/vitessce/config/vitessce.xml
index 2c33e0102807..00837f7f3bd7 100644
--- a/config/plugins/visualizations/vitessce/config/vitessce.xml
+++ b/config/plugins/visualizations/vitessce/config/vitessce.xml
@@ -13,7 +13,7 @@
         <param type="dataset" var_name_in_template="hda" required="true">dataset_id</param>
     </params>
     <requirements>
-        <requirement type="npm" version="0.0.0" package="galaxy-vitessce"/>
+        <requirement type="npm" version="0.0.0" package="@galaxyproject/vitessce"/>
     </requirements>
     <entry_point entry_point_type="script" src="dist/index.js" css="dist/index.css" />
 </visualization>
\ No newline at end of file

From cb83db4824a32333a6f356edfde32cf4acf1ed04 Mon Sep 17 00:00:00 2001
From: guerler <aysam.guerler@gmail.com>
Date: Tue, 3 Dec 2024 13:04:36 +0300
Subject: [PATCH 3/4] Add new line to xml

---
 config/plugins/visualizations/vitessce/config/vitessce.xml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/config/plugins/visualizations/vitessce/config/vitessce.xml b/config/plugins/visualizations/vitessce/config/vitessce.xml
index 00837f7f3bd7..679b036abfd9 100644
--- a/config/plugins/visualizations/vitessce/config/vitessce.xml
+++ b/config/plugins/visualizations/vitessce/config/vitessce.xml
@@ -16,4 +16,4 @@
         <requirement type="npm" version="0.0.0" package="@galaxyproject/vitessce"/>
     </requirements>
     <entry_point entry_point_type="script" src="dist/index.js" css="dist/index.css" />
-</visualization>
\ No newline at end of file
+</visualization>

From 203e61930f3e4d1aa367fc565a96f96a94a2bf34 Mon Sep 17 00:00:00 2001
From: guerler <aysam.guerler@gmail.com>
Date: Tue, 3 Dec 2024 13:05:54 +0300
Subject: [PATCH 4/4] Update description

---
 config/plugins/visualizations/vitessce/config/vitessce.xml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/config/plugins/visualizations/vitessce/config/vitessce.xml b/config/plugins/visualizations/vitessce/config/vitessce.xml
index 679b036abfd9..c0244bcd8d49 100644
--- a/config/plugins/visualizations/vitessce/config/vitessce.xml
+++ b/config/plugins/visualizations/vitessce/config/vitessce.xml
@@ -1,7 +1,7 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE visualization SYSTEM "../../visualization.dtd">
 <visualization name="Vitessce">
-    <description>Visual integration tool for exploration of spatial single cell experiments.</description>
+    <description>Visual integration tool for exploration of experiments</description>
     <data_sources>
         <data_source>
             <model_class>HistoryDatasetAssociation</model_class>