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I am running Picard ValidateSamFile on my Bam file and got this error below. How to fix it.
java -jar picard.jar ValidateSamFile I=KAPALibPrep_cfDNA_B08_S14_sorted.bam.bam MODE= SUMMARY
Error Type Count
I am also getting this error when running CollectAlignmentSummaryMetrics see below:
SAM validation error: ERROR: Read name NB501999:139:HJH2JBGX5:2:12107:11809:20214_2:N:0:TCCGGCGA+TCAGAGCC, Padding operator not between real operators in CIGAR
Please help me fixed this bam file.