ReduceReads - No real operator (M|I|D|N) in CIGAR
Posted in Ask the GATK team | Last updated on

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Hi. When I reduce my BAM files with ReduceReads and then run HaplotypeCaller I get this warning:

Ignoring SAM validation error: ERROR: Read name 1060, No real operator (M|I|D|N) in CIGAR

Why is this? Is it OK to inore it?

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