java.lang.IllegalStateException: Key callStatus found in VariantContext field INFO at chrM:3506 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.

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via broadinstitute.org by Unknown author, 1 year ago
Key callStatus found in VariantContext field INFO at chrM:3506 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
via broadinstitute.org by Unknown author, 1 year ago
Key DP found in VariantContext field INFO at 1:4839315 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
via broadinstitute.org by Unknown author, 2 years ago
Key OLD_VARIANT found in VariantContext field INFO at X:7151130 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
via GitHub by leipzig
, 2 years ago
Key found in VariantContext field INFO at 1:949696 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
via GitHub by hyong2000
, 1 year ago
Key ADP found in VariantContext field INFO at chr1:3300162 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
via GitHub by heuermh
, 4 months ago
Key VQSRTrancheSNP99.95to100.00 found in VariantContext field FILTER at 1:14522 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
java.lang.IllegalStateException: Key callStatus found in VariantContext field INFO at chrM:3506 but this key isn't defined in the VCFHeader. We require all VCFs to have complete VCF headers by default.
at htsjdk.variant.vcf.VCFEncoder.fieldIsMissingFromHeaderError(VCFEncoder.java:176)
at htsjdk.variant.vcf.VCFEncoder.encode(VCFEncoder.java:115)
at org.broadinstitute.gatk.engine.io.storage.VariantContextWriterStorage.add(VariantContextWriterStorage.java:182)
at org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub.add(VariantContextWriterStub.java:269)
at org.broadinstitute.gatk.tools.walkers.validation.GenotypeAndValidate.map(GenotypeAndValidate.java:496)
at org.broadinstitute.gatk.tools.walkers.validation.GenotypeAndValidate.map(GenotypeAndValidate.java:215)
at org.broadinstitute.gatk.engine.traversals.TraverseLociNano$TraverseLociMap.apply(TraverseLociNano.java:267)
at org.broadinstitute.gatk.engine.traversals.TraverseLociNano$TraverseLociMap.apply(TraverseLociNano.java:255)
at org.broadinstitute.gatk.utils.nanoScheduler.NanoScheduler.executeSingleThreaded(NanoScheduler.java:274)
at org.broadinstitute.gatk.utils.nanoScheduler.NanoScheduler.execute(NanoScheduler.java:245)
at org.broadinstitute.gatk.engine.traversals.TraverseLociNano.traverse(TraverseLociNano.java:144)
at org.broadinstitute.gatk.engine.traversals.TraverseLociNano.traverse(TraverseLociNano.java:92)
at org.broadinstitute.gatk.engine.traversals.TraverseLociNano.traverse(TraverseLociNano.java:48)
at org.broadinstitute.gatk.engine.executive.LinearMicroScheduler.execute(LinearMicroScheduler.java:99)
at org.broadinstitute.gatk.engine.GenomeAnalysisEngine.execute(GenomeAnalysisEngine.java:319)
at org.broadinstitute.gatk.engine.CommandLineExecutable.execute(CommandLineExecutable.java:121)
at org.broadinstitute.gatk.utils.commandline.CommandLineProgram.start(CommandLineProgram.java:248)
at org.broadinstitute.gatk.utils.commandline.CommandLineProgram.start(CommandLineProgram.java:155)
at org.broadinstitute.gatk.engine.CommandLineGATK.main(CommandLineGATK.java:107)

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