Allow JBrowse tracks to override type

bbimber · bbimber · commit f98e0dc5ca13 · 2023-03-16T13:49:55.000-07:00
diff --git a/jbrowse/src/org/labkey/jbrowse/model/JsonFile.java b/jbrowse/src/org/labkey/jbrowse/model/JsonFile.java
@@ -680,6 +680,12 @@ private JSONObject getGxfTrack(Logger log, ExpData targetFile, ReferenceGenome r
 
     public String getTrackType()
     {
+        JSONObject extraConfig = getExtraTrackConfig();
+        if (extraConfig != null && extraConfig.has("type"))
+        {
+            return extraConfig.getString("type");
+        }
+
         ExpData targetFile = getExpData();
         if (TRACK_TYPES.vcf.getFileType().isType(targetFile.getFile()))
         {

Original file line number	Diff line number	Diff line change
`@@ -680,6 +680,12 @@ private JSONObject getGxfTrack(Logger log, ExpData targetFile, ReferenceGenome r`
`680`	`680`
`681`	`681`	`public String getTrackType()`
`682`	`682`	`{`
	`683`	`+ JSONObject extraConfig = getExtraTrackConfig();`
	`684`	`+ if (extraConfig != null && extraConfig.has("type"))`
	`685`	`+ {`
	`686`	`+ return extraConfig.getString("type");`
	`687`	`+ }`
	`688`	`+`
`683`	`689`	`ExpData targetFile = getExpData();`
`684`	`690`	`if (TRACK_TYPES.vcf.getFileType().isType(targetFile.getFile()))`
`685`	`691`	`{`