From 6edf1a27616155cf10dd2cfd020339bc980738b2 Mon Sep 17 00:00:00 2001 From: Steve Huang Date: Thu, 30 Jun 2016 15:18:39 -0400 Subject: [PATCH] Number tag in header line for GENOTYPE_FILTER This is to fix [this bug](https://github.com/broadinstitute/gsa-unstable/issues/1413) --- src/main/java/htsjdk/variant/vcf/VCFStandardHeaderLines.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/main/java/htsjdk/variant/vcf/VCFStandardHeaderLines.java b/src/main/java/htsjdk/variant/vcf/VCFStandardHeaderLines.java index dfb3f0f0e..dd5551efb 100644 --- a/src/main/java/htsjdk/variant/vcf/VCFStandardHeaderLines.java +++ b/src/main/java/htsjdk/variant/vcf/VCFStandardHeaderLines.java @@ -184,7 +184,7 @@ private static void registerStandard(final VCFInfoHeaderLine line) { registerStandard(new VCFFormatHeaderLine(VCFConstants.DEPTH_KEY, 1, VCFHeaderLineType.Integer, "Approximate read depth (reads with MQ=255 or with bad mates are filtered)")); registerStandard(new VCFFormatHeaderLine(VCFConstants.GENOTYPE_PL_KEY, VCFHeaderLineCount.G, VCFHeaderLineType.Integer, "Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification")); registerStandard(new VCFFormatHeaderLine(VCFConstants.GENOTYPE_ALLELE_DEPTHS, VCFHeaderLineCount.R, VCFHeaderLineType.Integer, "Allelic depths for the ref and alt alleles in the order listed")); - registerStandard(new VCFFormatHeaderLine(VCFConstants.GENOTYPE_FILTER_KEY, 1, VCFHeaderLineType.String, "Genotype-level filter")); + registerStandard(new VCFFormatHeaderLine(VCFConstants.GENOTYPE_FILTER_KEY, VCFHeaderLineCount.UNBOUNDED, VCFHeaderLineType.String, "Genotype-level filter")); registerStandard(new VCFFormatHeaderLine(VCFConstants.PHASE_QUALITY_KEY, 1, VCFHeaderLineType.Float, "Read-backed phasing quality")); // INFO lines