diff test-data/index.html @ 0:d78175596286 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit cd77dffaad652cfb75b98bde5231beaa6d63cd5b-dirty
author fubar
date Mon, 08 Jan 2024 09:20:33 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/index.html	Mon Jan 08 09:20:33 2024 +0000
@@ -0,0 +1,112 @@
+<!DOCTYPE html>
+<html>
+  <head>
+    <meta http-equiv="Content-Type" content="text/html; charset=utf-8">
+    <title>JBrowse</title>
+    <link rel="stylesheet" type="text/css" href="css/genome.css">
+</head>
+<body>
+
+    <script type="text/javascript">
+            // jshint unused: false
+            var dojoConfig = {
+                async: true,
+                baseUrl: './src',
+                has: {
+                    'host-node': false // Prevent dojo from being fooled by Electron
+                }
+            };
+            // Move Electron's require out before loading Dojo
+            if(window.process&&process.versions&&process.versions.electron) {
+                window.electronRequire = require;
+                delete window.require;
+            }
+    </script>
+    <script type="text/javascript" src="src/dojo/dojo.js"></script>
+    <script type="text/javascript" src="src/JBrowse/init.js"></script>
+    <script type="text/javascript">
+        window.onerror=function(msg){
+            if( document.body )
+                document.body.setAttribute("JSError",msg);
+        }
+
+        // puts the main Browser object in this for convenience.  feel
+        // free to move it into function scope if you want to keep it
+        // out of the global namespace
+        var JBrowse;
+        require(['JBrowse/Browser', 'dojo/io-query', 'dojo/json' ],
+             function (Browser,ioQuery,JSON) {
+                   // the initial configuration of this JBrowse
+                   // instance
+
+                   // NOTE: this initial config is the same as any
+                   // other JBrowse config in any other file.  this
+                   // one just sets defaults from URL query params.
+                   // If you are embedding JBrowse in some other app,
+                   // you might as well just set this initial config
+                   // to something like { include: '../my/dynamic/conf.json' },
+                   // or you could put the entire
+                   // dynamically-generated JBrowse config here.
+
+                   // parse the query vars in the page URL
+                   var queryParams = ioQuery.queryToObject( window.location.search.slice(1) );
+
+                   var config = {
+                       containerID: "GenomeBrowser",
+
+                       dataRoot: queryParams.data,
+                       queryParams: queryParams,
+                       location: queryParams.loc,
+                       forceTracks: queryParams.tracks,
+                       initialHighlight: queryParams.highlight,
+                       show_nav: queryParams.nav,
+                       show_tracklist: queryParams.tracklist,
+                       show_overview: queryParams.overview,
+                       show_menu: queryParams.menu,
+                       show_tracklabels: queryParams.tracklabels,
+                       highResolutionMode: queryParams.highres,
+                       stores: { url: { type: "JBrowse/Store/SeqFeature/FromConfig", features: [] } },
+                       makeFullViewURL: function( browser ) {
+
+                           // the URL for the 'Full view' link
+                           // in embedded mode should be the current
+                           // view URL, except with 'nav', 'tracklist',
+                           // and 'overview' parameters forced to 1.
+
+                           return browser.makeCurrentViewURL({ nav: 1, tracklist: 1, overview: 1 });
+                       },
+                       updateBrowserURL: true
+                   };
+
+                   //if there is ?addFeatures in the query params,
+                   //define a store for data from the URL
+                   if( queryParams.addFeatures ) {
+                       config.stores.url.features = JSON.parse( queryParams.addFeatures );
+                   }
+
+                   // if there is ?addTracks in the query params, add
+                   // those track configurations to our initial
+                   // configuration
+                   if( queryParams.addTracks ) {
+                       config.tracks = JSON.parse( queryParams.addTracks );
+                   }
+
+                   // if there is ?addStores in the query params, add
+                   // those store configurations to our initial
+                   // configuration
+                   if( queryParams.addStores ) {
+                       config.stores = JSON.parse( queryParams.addStores );
+                   }
+
+                   // create a JBrowse global variable holding the JBrowse instance
+                   JBrowse = new Browser( config );
+        });
+    </script>
+
+  </head>
+
+  <body>
+    <div id="GenomeBrowser" style="height: 100%; width: 100%; padding: 0; border: 0;"></div>
+    <div style="display: none">JBrowseDefaultMainPage</div>
+  </body>
+</html>