AbstractVCFCodec.checkAllele() has thrown a TribbleException

We found this prefix in 4 webpages.
MapChildren (2)Typical messages (4)TraceDetailed Map
  1. htsjdk.tribble.TribbleException
    1.   at htsjdk.variant.vcf.AbstractVCFCodec.generateException()
    2.   at htsjdk.variant.vcf.AbstractVCFCodec.checkAllele()
  1. TribbleException

    AbstractVCFCodec.decode()
    Crashes:5
    Projects:0
    Web Pages:3
    Error Reports:0
    First:10 months ago
    Last:7 months ago
    preview
  2. GitHub iconCatVariant not handling allele "*" in gatk-haplotype-joint

    First:3 years ago
    Last:3 years ago
    Author:whitejbiii
MessageNumber of crashes
The provided VCF file is malformed at approximately line number 418615: unparsable vcf record with allele W, for input source: file:///home/mschatz/try/phased_variants.pass.vcf1
The provided VCF file is malformed at approximately line number 108: unparsable vcf record with allele S, for input source: /media/TeraData/ipedroso/ANALYSES/DEKKERA/variation/AWRI1499_ref/awri1499_vsawri1499Ref/work/freebayes/AWRI1499_contig1_scaffold1/1-1
The provided VCF file is malformed at approximately line number 649: unparsable vcf record with allele *, for input source: /media/jawhite/Data/662-exome-trio/work/joint/gatk-haplotype-joint/trio-bwa-j/1/trio-bwa-j-1_0_15543565.vcf.gz1
The provided VCF file is malformed at approximately line number 1787: The reference allele cannot be missing1
  1. htsjdk.tribble.TribbleException
    1.   at htsjdk.variant.vcf.AbstractVCFCodec.generateException()
    2.   at htsjdk.variant.vcf.AbstractVCFCodec.checkAllele()