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ERROR:The requested extended must fully contain the requested span
I got this error when running HaplotypeCaller:
ERROR MESSAGE: The requested extended must fully contain the requested span
My command is:
java -Xmx4g -jar ~/GATK_3.2/GenomeAnalysisTK.jar -T HaplotypeCaller -R ucsc.hg19.fasta -I Sample_55348_recal.bam --dbsnp dbsnp_138.hg19.vcf -L capture_targets_buffered10bases.bed --emitRefConfidence GVCF --variant_index_type LINEAR --variant_index_parameter 128000 -o Sample_55348_rawcall_HCgvcf.vcf
What does the error mean?