Comments (1)
Hi @sicotte,
Sorry for the much delayed response; we had a resource shortage and were unable to provide as much support as we like to the user community. I realize this probably comes too late to help you with the particular problem you encountered, but just in case this can be of use to you or others, here is the solution.
This validation error suggests that your file is malformed. In this particular case, it looks like something that would be fixed by FixMateInformation, which you can read more about here: http://broadinstitute.github.io/picard/command-line-overview.html#FixMateInformation
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