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JAL-2738 error logging if no ##reference found
[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
04c73b5
..
622da73
100644
(file)
--- a/
src/jalview/io/vcf/VCFLoader.java
+++ b/
src/jalview/io/vcf/VCFLoader.java
@@
-382,6
+382,8
@@
public class VCFLoader
{
if (reference == null)
{
+ Cache.log.error("No VCF ##reference found, defaulting to "
+ + DEFAULT_REFERENCE + ":" + DEFAULT_SPECIES);
reference = DEFAULT_REFERENCE; // default to GRCh37 if not specified
}
reference = reference.toLowerCase();