java.lang.IllegalStateException: The original PLs do not have enough values; accessing index 10000 but size is 10000

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via broadinstitute.org by Unknown author, 1 year ago
The original PLs do not have enough values; accessing index 10000 but size is 10000
via broadinstitute.org by Unknown author, 2 years ago
The original PLs do not have enough values; accessing index 10000 but size is 10000
via broadinstitute.org by Unknown author, 1 year ago
The original PLs do not have enough values; accessing index 10000 but size is 10000
java.lang.IllegalStateException: The original PLs do not have enough values; accessing index 10000 but size is 10000
at org.broadinstitute.gatk.utils.variant.GATKVariantContextUtils.generatePLs(GATKVariantContextUtils.java:1637)
at org.broadinstitute.gatk.utils.variant.GATKVariantContextUtils.mergeRefConfidenceGenotypes(GATKVariantContextUtils.java:1553)
at org.broadinstitute.gatk.utils.variant.GATKVariantContextUtils.referenceConfidenceMerge(GATKVariantContextUtils.java:1124)
at org.broadinstitute.gatk.tools.walkers.variantutils.GenotypeGVCFs.map(GenotypeGVCFs.java:191)
at org.broadinstitute.gatk.tools.walkers.variantutils.GenotypeGVCFs.map(GenotypeGVCFs.java:112)
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:314)
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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