Remove empty values form pangolin metrics

bbimber · bbimber · commit 0fbd27bdee0f · 2021-08-17T14:07:04.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/PangolinHandler.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/PangolinHandler.java
@@ -415,7 +415,9 @@ public static Map<String, String> runPangolin(File workDir, File consensusFasta,
         Map<String, String> map = new HashMap<>();
         for (String key : ret.keySet())
         {
-            String val = StringUtils.join(ret.get(key), ",");
+            Set<String> vals = ret.get(key);
+            vals.remove("");
+            String val = StringUtils.join(vals, ",");
             if ("PangolinVersions".equals(key))
             {
                 val = StringUtils.join(new HashSet<>(Arrays.asList(val.split(","))), ",");

Original file line number	Diff line number	Diff line change
`@@ -415,7 +415,9 @@ public static Map<String, String> runPangolin(File workDir, File consensusFasta,`
`415`	`415`	`Map<String, String> map = new HashMap<>();`
`416`	`416`	`for (String key : ret.keySet())`
`417`	`417`	`{`
`418`		`- String val = StringUtils.join(ret.get(key), ",");`
	`418`	`+ Set<String> vals = ret.get(key);`
	`419`	`+ vals.remove("");`
	`420`	`+ String val = StringUtils.join(vals, ",");`
`419`	`421`	`if ("PangolinVersions".equals(key))`
`420`	`422`	`{`
`421`	`423`	`val = StringUtils.join(new HashSet<>(Arrays.asList(val.split(","))), ",");`