ERROR: BAM headers and reference fasta disagree on chromosome: 'NC_007605'

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Lucas Lochovsky

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Jan 26, 2017, 10:34:37 PM1/26/17
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Hi all. I've encountered this issue in Strelka where the input is a set of BAMs I've downloaded that indicate from their headers that they were aligned with BWA on the b37 reference genome, but when I actually run Strelka, I get this error that the reference and BAM headers disagree on this chromosome called "NC_007605". I can see it's in the BAM headers and not in the b37 reference, and I've tried removing the reads that correspond to that chromosome, but it still doesn't work out.

If anyone's
familiar with this bug, and knows how to deal with it, I'd really appreciate some help.

Thanks,
Lucas
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