From 0c23950cb28772e038c33ea77cea2add0c037dbc Mon Sep 17 00:00:00 2001
From: guerler <aysam.guerler@gmail.com>
Date: Wed, 4 Sep 2024 14:02:49 +0300
Subject: [PATCH] Remove legacy example, add option to link remote script
 sources

---
 .../common/templates/script_entry_point.mako  |   2 +
 .../visualizations/example/config/example.xml |  45 ---------------
 .../visualizations/example/package.json       |  24 --------
 .../visualizations/example/src/script.js      |  54 ------------------
 .../visualizations/example/static/logo.png    | Bin 7438 -> 0 bytes
 lib/galaxy/app_unittest_utils/galaxy_mock.py  |   3 +
 lib/galaxy/web/framework/helpers/__init__.py  |  12 ++++
 7 files changed, 17 insertions(+), 123 deletions(-)
 delete mode 100644 config/plugins/visualizations/example/config/example.xml
 delete mode 100644 config/plugins/visualizations/example/package.json
 delete mode 100644 config/plugins/visualizations/example/src/script.js
 delete mode 100644 config/plugins/visualizations/example/static/logo.png

diff --git a/config/plugins/visualizations/common/templates/script_entry_point.mako b/config/plugins/visualizations/common/templates/script_entry_point.mako
index d5a9946f9cf4..0563a58b14f8 100644
--- a/config/plugins/visualizations/common/templates/script_entry_point.mako
+++ b/config/plugins/visualizations/common/templates/script_entry_point.mako
@@ -5,6 +5,7 @@
 <%def name="stylesheets()">
     <% css = script_attributes.get("css") %>
     %if css is not None:
+        <% css = css if h.is_url(css) else f"{static_url}{css}" %>
         <link rel="stylesheet" href="${css}">
     %endif
 </%def>
@@ -29,6 +30,7 @@
 
     ## Add script tag
     <% script_src = script_attributes.get("src") %>
+    <% script_src = script_src if h.is_url(script_src) else f"{static_url}{script_src}" %>
     <% script_type = script_attributes.get("type") or "module" %>
     <script type="${script_type}" src="${script_src}"></script>
 </%def>
diff --git a/config/plugins/visualizations/example/config/example.xml b/config/plugins/visualizations/example/config/example.xml
deleted file mode 100644
index cc2dd898fb79..000000000000
--- a/config/plugins/visualizations/example/config/example.xml
+++ /dev/null
@@ -1,45 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE visualization SYSTEM "../../visualization.dtd">
-<visualization name="Example" embeddable="false">
-    <description>This is a developer example which demonstrates how to implement and configure a basic d3-based plugin for charts.</description>
-    <data_sources>
-        <data_source>
-            <model_class>HistoryDatasetAssociation</model_class>
-            <test type="isinstance" test_attr="datatype" result_type="datatype">tabular.Tabular</test>
-            <test type="isinstance" test_attr="datatype" result_type="datatype">tabular.CSV</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>
-    <entry_point entry_point_type="chart" src="script.js"/>
-    <settings>
-        <input>
-            <name>data_dialog</name>
-            <label>Some data selector</label>
-            <type>data_dialog</type>
-            <multiple>false</multiple>
-        </input>
-    </settings>
-    <groups>
-        <input>
-            <name>x</name>
-            <label>Bubble x-position</label>
-            <type>data_column</type>
-            <is_numeric>true</is_numeric>
-        </input>
-        <input>
-            <name>y</name>
-            <label>Bubbles y-position</label>
-            <type>data_column</type>
-            <is_numeric>true</is_numeric>
-        </input>
-        <input>
-            <name>z</name>
-            <label>Bubble size</label>
-            <type>data_column</type>
-            <is_numeric>true</is_numeric>
-        </input>
-    </groups>
-</visualization>
\ No newline at end of file
diff --git a/config/plugins/visualizations/example/package.json b/config/plugins/visualizations/example/package.json
deleted file mode 100644
index 199cab67b083..000000000000
--- a/config/plugins/visualizations/example/package.json
+++ /dev/null
@@ -1,24 +0,0 @@
-{
-    "name": "visualization",
-    "version": "0.2.0",
-    "keywords": [
-        "galaxy",
-        "visualization"
-    ],
-    "license": "AFL-3.0",
-    "dependencies": {
-        "@galaxyproject/charts": "^0.1.0",
-        "babel-preset-env": "^1.6.1",
-        "backbone": "^1.3.3",
-        "bootstrap": "^3.3.7",
-        "d3": "^4.12.2",
-        "jquery": "^3.1.1",
-        "underscore": "^1.8.3"
-    },
-    "scripts": {
-        "build": "parcel build src/script.js --dist-dir static"
-    },
-    "devDependencies": {
-        "parcel": "2.11.0"
-    }
-}
diff --git a/config/plugins/visualizations/example/src/script.js b/config/plugins/visualizations/example/src/script.js
deleted file mode 100644
index 4fda38c2380d..000000000000
--- a/config/plugins/visualizations/example/src/script.js
+++ /dev/null
@@ -1,54 +0,0 @@
-import * as d3 from "d3";
-import * as _ from "underscore";
-import { request as requestDatasets } from "@galaxyproject/charts/lib/utilities/datasets";
-
-_.extend(window.bundleEntries || {}, {
-    load: function(options) {
-        var chart = options.chart;
-        var root = options.root;
-        requestDatasets({
-            root: root,
-            dataset_id: chart.get("dataset_id"),
-            dataset_groups: chart.groups,
-            success: function(groups) {
-                var colors = d3.scaleOrdinal(d3.schemeCategory20);
-                var error = null;
-                _.each(groups, function(group, group_index) {
-                    try {
-                        $("#" + options.target).append("<svg id='myexample'/>");
-                        var svg = d3.select("#myexample");
-                        var height = parseInt(svg.style("height"));
-                        var width = parseInt(svg.style("width"));
-                        var maxValue = d3.max(group.values, function(d) {
-                            return Math.max(d.x, d.y);
-                        });
-                        svg
-                            .selectAll("bubbles")
-                            .data(group.values)
-                            .enter()
-                            .append("circle")
-                            .attr("r", function(d) {
-                                return Math.abs(d.z) * 20 / maxValue;
-                            })
-                            .attr("cy", function(d, i) {
-                                return height * d.y / maxValue;
-                            })
-                            .attr("cx", function(d) {
-                                return width * d.x / maxValue;
-                            })
-                            .style("stroke", colors(group_index))
-                            .style("fill", "white");
-                    } catch (err) {
-                        error = err;
-                    }
-                });
-                if (error) {
-                    chart.state("failed", error);
-                } else {
-                    chart.state("ok", "Workshop chart has been drawn.");
-                }
-                options.process.resolve();
-            }
-        });
-    }
-});
diff --git a/config/plugins/visualizations/example/static/logo.png b/config/plugins/visualizations/example/static/logo.png
deleted file mode 100644
index 0c13459935bbbc23dec5b7c05450b19b106b22f4..0000000000000000000000000000000000000000
GIT binary patch
literal 0
HcmV?d00001

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diff --git a/lib/galaxy/app_unittest_utils/galaxy_mock.py b/lib/galaxy/app_unittest_utils/galaxy_mock.py
index 47c44bd19384..0fcec287878f 100644
--- a/lib/galaxy/app_unittest_utils/galaxy_mock.py
+++ b/lib/galaxy/app_unittest_utils/galaxy_mock.py
@@ -439,5 +439,8 @@ def dumps(*kwargs):
     def js(*js_files):
         pass
 
+    def is_url(*kwargs):
+        return True
+
     def url_for(*kwargs):
         return "/"
diff --git a/lib/galaxy/web/framework/helpers/__init__.py b/lib/galaxy/web/framework/helpers/__init__.py
index 7fde6906cf19..49fff0ee72c7 100644
--- a/lib/galaxy/web/framework/helpers/__init__.py
+++ b/lib/galaxy/web/framework/helpers/__init__.py
@@ -6,6 +6,7 @@
 GalaxyWebTransaction in galaxy/webapps/base/webapp.py
 """
 
+import re
 from datetime import (
     datetime,
     timedelta,
@@ -105,6 +106,17 @@ def is_true(val):
     return val is True or val in ["True", "true", "T", "t"]
 
 
+def is_url(val):
+    """
+    Regular expression to match common URL protocols
+    """
+    if val is not None:
+        url_pattern = re.compile(r"^(https?:\/\/|ftp:\/\/)")
+        return bool(url_pattern.match(val))
+    else:
+        return False
+
+
 def to_js_bool(val):
     """
     Prints javascript boolean for passed value.