JAL-2738 update spikes/mungo

[jalview.git] / src / jalview / io / vcf / VCFLoader.java

diff --git a/src/jalview/io/vcf/VCFLoader.java b/src/jalview/io/vcf/VCFLoader.java
index a3e7e5a..c1c84fb 100644 (file)
--- a/src/jalview/io/vcf/VCFLoader.java
+++ b/src/jalview/io/vcf/VCFLoader.java
@@ -351,6 +351,9 @@ public class VCFLoader
     GeneLociI seqCoords = seq.getGeneLoci();
     if (seqCoords == null)
     {
+      System.out.println(String.format(
+              "Can't query VCF for %s as chromosome coordinates not known",
+              seq.getName()));
       return 0;
     }