Align Error - no bwa in path
Posted in Ask the GATK team | Last updated on 2012-08-07 22:04:49

Comments (3)

I am trying to realign a .bam file to a new reference (ex: new.fasta), however when I run the task "Align", I am given the following error message:

no bwa in java.library.path

This same error message occurs with I try and use the task "AlignmentValidation". Do you know how I might fix this problem or another method to realign a bam file to a new reference?

Thank you.

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