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Old 01-22-2016, 07:58 AM   #1
jazz710
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Location: Iowa

Join Date: Oct 2012
Posts: 41
Default Odd Ray Error "Assembler panic: no k-mers found in reads."

Hi all,

I'm having an odd Ray error. I have a set of PE fastq files that are 35bp-101bp (confirmed through fastqc). When I run a Ray assembly with k=31, I get the following error:

Command:

$mpirun -np 128 Ray -k 31 -p ./GIN_Y_Left_k31.fastq ./GIN_Y_Right_k31.fastq -o GIN_Y_k31

Rank 0: Assembler panic: no k-mers found in reads.
Rank 0: Perhaps reads are shorter than the k-mer length (change -k)

Certainly there are 31mers in a set of reads where the minimum length is 35, so does anyone know what could be going wrong here? I have run this exact script on other FASTQ samples without issue.

Thank you as always!

Bob

EDIT: I should add that the FASTQ file appears completely intact, as I can import and view all of my sequences in Geneious without any issue.

Last edited by jazz710; 01-22-2016 at 08:00 AM. Reason: Clarification
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