{
   "tracks" : [
      {
         "feature" : [
            "remark"
         ],
         "autocomplete" : "all",
         "track" : "ExampleFeatures",
         "class" : "feature2",
         "category": "Miscellaneous",
         "key" : "HTMLFeatures - Example Features"
      },
      {
         "feature" : [
            "protein_coding_primary_transcript",
            "polypeptide"
         ],
         "track" : "NameTest",
         "class" : "feature2",
         "category": "Miscellaneous",
         "key" : "HTMLFeatures - Name test track has a really long track label"
      },
      {
         "feature" : [
            "SNP"
         ],
         "track" : "snps",
         "class" : "triangle hgred",
         "category": "Miscellaneous",
         "key" : "HTMLFeatures - SNPs"
      },
      {
         "feature" : [
            "polypeptide_domain"
         ],
         "track" : "Motifs",
         "class" : "feature3",
         "description" : 1,
         "key" : "HTMLFeatures - Example motifs",
         "category": "Miscellaneous",
         "style": {
           "label": "function(feature) { return feature.get('Name')+' (via JS callback)' }",
           "description": "function(feature) { return feature.get('Name')+': '+feature.get('Note'); }"
         }
      },
      {
         "feature" : [
            "match"
         ],
         "track" : "malformed_alignments",
         "class" : "feature4",
         "key" : "HTMLFeatures - Features with right-click menus",
         "shortDescription": "Features with customized right-click menus",
         "metadata": {
             "category": "Miscellaneous",
             "Description": "Features with extensively customized right-click menus, and with their colors set at random by a JavaScript callback."
         },
         "hooks": {
             "modify": "function( track, feature, div ) { div.style.backgroundColor = ['green','blue','red','orange','purple'][Math.round(Math.random()*5)];}"
         },
         "menuTemplate" : [
             {
               "label" : "Item with submenu",
               # hello this is a comment
               "children" : [
               {
                 "label" : "Check gene on databases",
                 "children" : [
                 {
                   "label" : "Query trin for {name}",
                   "iconClass" : "dijitIconBookmark",
                   "action": "newWindow",
                   "url" : "http://wiki.trin.org.au/{name}-{start}-{end}"
                 },
                 {
                 "label" : "Query example.com for {name}",
                 "iconClass" : "dijitIconSearch",
                 "url" : "http://example.com/{name}-{start}-{end}"
                 }
                 ]
               },
               { "label" : "2nd child of demo" },
               { "label" : "3rd child: this is a track" }
             ]
             },
             {
               "label" : "Open example.com in an iframe popup",
               "title" : "The magnificent example.com (feature {name})",
               "iconClass" : "dijitIconDatabase",
               "action": "iframeDialog",
               "url" : "http://www.example.com?featurename={name}"
             },
             {
               "label" : "Open popup with XHR HTML snippet (btw this is feature {name})",
               "title": "function(track,feature,div) { return 'Random XHR HTML '+Math.random()+' title!'; }",
               "iconClass" : "dijitIconDatabase",
               "action": "xhrDialog",
               "url" : "sample_data/test_snippet.html?featurename={name}:{start}-{end}"
             },
             {
               "label" : "Popup with content snippet from a function (feature {name})",
               "title": "function(track,feature,div) { return 'Random content snippet '+Math.random()+' title!'; }",
               "iconClass" : "dijitIconDatabase",
               "action": "contentDialog",
               "content" : "function(track,feature,div) { return '<h2>'+feature.get('name')+'</h2><p>This is some test content!</p><p>This message brought to you by the number <span style=\"font-size: 300%\">'+Math.round(Math.random()*100)+'</span>.</p>';} "
             },
             {
               "label" : "Popup with content snippet from string (feature {name})",
               "title": "{randomNumberTitle}",
               "iconClass" : "dijitIconDatabase",
               "action": "contentDialog",
               "content" : "<h2>{name}</h2><p>This is some test content about {name}, which goes from {start} to {end} on the {strand} strand.</p>"
             },
             {
               "label" : "{randomNumberLabel}",
               "iconClass" : "dijitIconDatabase",
               "action": "{exampleFeatureClick}"
             }
         ]
      },
      {
         "feature" : [
            "gene"
         ],
         "track" : "Genes",
         "class" : "feature5",
         "category": "Transcripts",
         "key" : "CanvasFeatures - Protein-coding genes",
         "metadata" : {
            "ncbi_submission_model" : "Generic",
            "insdc_first_public" : "2018-05-15T00:00:00Z",
            "Link: ENA study page" : "http://www.ebi.ac.uk/ena/",
            "library_total_amount_of_reads" : "3349981",
            "insdc_secondary_accession" : "SRS12345678",
            "insdc_center_name" : "INSDC Sample",
            "ncbi_submission_package" : "Generic.1.0",
            "sample_name" : "GSM12345678",
            "ENA first public" : "2018-05-16",
            "organism" : "Volvox",
            "study" : "SRP12345678 a study of volvox",
            "Link: RNASeq-er analysis results" : "ftp://ftp.ebi.ac.uk/pub/databases/arrayexpress/",
            "library_size_approx" : "1-5mln",
            "insdc_last_update" : "2018-05-15T01:18:23.110Z",
            "insdc_status" : "live",
            "developmental_stage" : "stage 6- 330 min",
            "tissue" : "embryo",
            "mapping_quality_approx" : "under 50%",
            "source_name" : "Volvox 6- 330 min",
            "mapping_fraction_of_uniquely_mapped_reads" : "0.429",
            "ENA last update" : "2018-05-16",
            "description_title" : "Volvox_mRNA_rep_2_6"
         },
         "trackType": "NeatCanvasFeatures/View/Track/NeatFeatures",
         "unsafeMouseover": true,
         "onClick" : {
            "action" : "defaultDialog",
            "label" : "<div style='font:normal 12px Univers,Helvetica,Arial,sans-serif'><div style='font-weight:bold'>Custom tooltip</div><div style='color:blue;'>Feature name: {name}<br />Feature start: {start}<br />Feature end: {end}</div></div>",
            "title": "{type} {name}"
         },
         "menuTemplate": [  {
               "label" : "View details",
             },
             {
               "label" : "Zoom this gene",
             },
             {
               "label" : "Highlight this gene",
             },
             {
               "label" : "Popup with content snippet from string (feature {name})",
               "title": "{randomNumberTitle}",
               "iconClass" : "dijitIconDatabase",
               "action": "contentDialog",
               "content" : "<h2>{name}</h2>This is some test content about {type} {name}, which goes from {start} to {end} on the {strand} strand."
             }],
         "fmtDetailValue_Name": "function(name,feature) { if(feature.get('type')=='gene') { return name + ' <a href=http://www.ncbi.nlm.nih.gov/gquery/?term='+name+'>[NCBI custom link]</a>'; } else { return name; } }",
         "fmtDetailField_Name": "function(name,feature) { if(feature.get('type')=='gene') { return 'Gene Name'; } else { return name; } }",
         "fmtDetailField_Load_id": "function(name,feature) { /* remove field from dialog box */ return null; }",
         "fmtMetaValue_Name": "function(name) { return name+' [Track with custom callbacks for About track popup]'; }",
         "fmtMetaField_Name": "function(name) { return 'Track Name'; }",
         "fmtMetaDescription_Name": "function(name) { return '[Custom description]'; }"
      },
      {
         "feature" : [
            "mRNA"
         ],
         "track" : "ReadingFrame",
         "trackType": "NeatHTMLFeatures/View/Track/NeatFeatures",
         "category" : "Transcripts",
         "class" : "cds",
         "phase": 1,
         "key" : "HTMLFeatures - mRNAs",
         "onClick": {
            "url": "http://www.ncbi.nlm.nih.gov/gquery/?term={name}",
            "label": "Search for {name} at NCBI\nFeature start {start}\nFeature end {end}",
            "title": "NCBI search box"
         }
      },
      {
         "feature" : [
            "CDS:bare_predicted",
            "mRNA:exonerate",
            "mRNA:predicted"
         ],
         "urlTemplate" : "http://www.ncbi.nlm.nih.gov/gquery/?term={name}-{start}-{end}",
         "track" : "CDS",
         "category" : "Transcripts",
         "class" : "cds",
         "key" : "CanvasFeatures - mixed mRNAs and CDSs",
         "trackType": "CanvasFeatures"
      },
      {
         "track" : "Transcript",
         "description" : 1,
         "style": { "color": "#E32A3A", "description": "customdescription" },
         "key" : "CanvasFeatures - transcripts",
         "trackType": "JBrowse/View/Track/CanvasFeatures",
         "feature" : [
            "mRNA:exonerate"
         ],
         "category" : "Transcripts",
         "subfeatures" : true,
         "showNoteInAttributes": true,
         "onClick": "{exampleFeatureClick}"
      },
      {
         "feature" : [
            "BAC"
         ],
         "track" : "Clones",
         "class" : "exon",
         "description" : 1,
         "key" : "HTMLFeatures - Fingerprinted BACs",
         "category": "Miscellaneous"
      },
      {
         "feature" : [
            "EST_match:est"
         ],
         "track" : "EST",
         "class" : "est",
         "key" : "HTMLFeatures - ESTs",
         "category": "Miscellaneous"
      }
   ],
   "TRACK DEFAULTS" : {
      "autocomplete" : "all",
      "class" : "feature"
   },
   "db_args" : {
      "-adaptor" : "memory",
      "-dir" : "docs/tutorial/data_files/volvox.gff3"
   },
   "description" : "Volvox Example Database",
   "db_adaptor" : "Bio::DB::SeqFeature::Store"
}