JAL-2738 remove commented code, unit test coverage

[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 c1c84fb..711b82a 100644 (file)
--- a/src/jalview/io/vcf/VCFLoader.java
+++ b/src/jalview/io/vcf/VCFLoader.java
@@ -432,15 +432,6 @@ public class VCFLoader
        */
       VariantContext variant = variants.next();
 
-      /*
-       * we can only process SNP variants (which can be reported
-       * as part of a MIXED variant record
-       */
-      if (!variant.isSNP() && !variant.isMixed())
-      {
-        // continue;
-      }
-
       int start = variant.getStart() - offset;
       int end = variant.getEnd() - offset;
 
@@ -564,13 +555,6 @@ public class VCFLoader
     String reference = variant.getReference().getBaseString();
     Allele alt = variant.getAlternateAllele(altAlleleIndex);
     String allele = alt.getBaseString();
-    if (allele.length() != 1)
-    {
-      /*
-       * not a SNP variant
-       */
-      // return 0;
-    }
 
     /*
      * build the ref,alt allele description e.g. "G,A", using the base