Mercurial > repos > fubar > jbrowse2
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>