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Check out the documentation at ReadLengthDistribution.
I'm wondering why the ReadLengthDistribution's output gives no readLength ?
Here's an example:
#:GATKTable:ReadLengthDistribution:Table of read length distributions
Can you tell me what version of GATK you are using, and what was your command line?
Geraldine Van der Auwera, PhD
Here is my command line (I'm using GenomeAnalysisTK-2.6-5-gba531bd):
Hmm, this looks like it might be a bug. Could you please upload a test file so we can debug this locally? Instructions are in our FAQ on reporting a bug.
Done! You can find my file here:
I am using the ReadLengthDistribution walker on the GenomeAnalysisTK-2.7-4-g6f46d11 version and also received the output of "NULL" as my read lengths. Is there a fix for this bug?
Not yet but it's on our to-do list to fix.
This is fixed in version 2.8. Sorry for the delay in posting the resolution notice.