Drop empty numeric values when indexing VCF (#292)

BimberLab · Nov 15, 2023 · 61a47cb · 61a47cb
1 parent 93ad1c7
commit 61a47cb
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/src/main/java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java b/src/main/java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java
@@ -270,9 +270,9 @@ else if (line.getCountType() == VCFHeaderLineCount.INTEGER || line.getCountType(
             if (valueStr.contains("|")) {
                 try {
                     if (clazz == Double.class) {
-                        return Arrays.stream(valueStr.split("\\|")).map(Double::parseDouble).map(clazz::cast).collect(Collectors.toSet());
+                        return Arrays.stream(valueStr.split("\\|")).filter(x -> !x.isEmpty()).map(Double::parseDouble).map(clazz::cast).collect(Collectors.toSet());
                     } else if (clazz == Integer.class) {
-                        return Arrays.stream(valueStr.split("\\|")).map(Integer::parseInt).map(clazz::cast).collect(Collectors.toSet());
+                        return Arrays.stream(valueStr.split("\\|")).filter(x -> !x.isEmpty()).map(Integer::parseInt).map(clazz::cast).collect(Collectors.toSet());
                     }
 
                     // should never reach this