fix

fulcrumgenomics · Mar 11, 2022 · dd02a62 · dd02a62
1 parent d6077b4
commit dd02a62
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/src/main/scala/com/fulcrumgenomics/personal/nhomer/OverlappingBasesConsensusCaller.scala b/src/main/scala/com/fulcrumgenomics/personal/nhomer/OverlappingBasesConsensusCaller.scala
@@ -172,7 +172,7 @@ class OverlappingBasesConsensusCaller(onlyMaskDisagreements: Boolean = false,
  // Capture the raw consensus base prior to masking it to N, so that we can compute
  // errors vs. the actually called base.
  val (rawBase: Byte, rawQual: PhredScore) = {
- if (base1 == base2 && maxQualOnAgreement) (base1, Math.max(qual1, qual2)) // use the maximum base quality
+ if (base1 == base2 && maxQualOnAgreement) (base1, Math.max(qual1, qual2).toByte) // use the maximum base quality
  else if (base1 == base2 && !maxQualOnAgreement) (base1, PhredScore.cap(qual1 + qual2)) // use the sum of base qualities
  else if (onlyMaskDisagreements) (NoCall, NoCallQual) // disagreements are no-calls
  else if (qual1 > qual2) (base1, PhredScore.cap(qual1 - qual2))