Hi everyone,
I've been trying to run MaSuRCA to de novo assemble my Illumina fastq files. However after I generate the assemble.sh script I get the following error:
./assemble.sh
Processing pe library reads
Unsupported input format for file '/home/frag_2.fastq'
Unsupported input format for file '/home/frag_1.fastq'
awk: fatal: division by zero attempted
Average PE read length
Illegal division by zero at -e line 1.
choosing kmer size of for the graph
MIN_Q_CHAR: 64
Creating mer database for Quorum.
Error correct PE.
Cutoff computation failed. Pass it explicitly with -p switch.
Error correction of PE reads failed. Check pe.cor.log.
My config file looked like this:
DATA
PE= pe 250 37 /home/frag_1.fastq /home/frag_2.fastq
END
PARAMETERS
GRAPH_KMER_SIZE=auto
USE_LINKING_MATES=1
NUM_THREADS=64
JF_SIZE=600000000
END
Any help would be greatly appreciated!
James
I've been trying to run MaSuRCA to de novo assemble my Illumina fastq files. However after I generate the assemble.sh script I get the following error:
./assemble.sh
Processing pe library reads
Unsupported input format for file '/home/frag_2.fastq'
Unsupported input format for file '/home/frag_1.fastq'
awk: fatal: division by zero attempted
Average PE read length
Illegal division by zero at -e line 1.
choosing kmer size of for the graph
MIN_Q_CHAR: 64
Creating mer database for Quorum.
Error correct PE.
Cutoff computation failed. Pass it explicitly with -p switch.
Error correction of PE reads failed. Check pe.cor.log.
My config file looked like this:
DATA
PE= pe 250 37 /home/frag_1.fastq /home/frag_2.fastq
END
PARAMETERS
GRAPH_KMER_SIZE=auto
USE_LINKING_MATES=1
NUM_THREADS=64
JF_SIZE=600000000
END
Any help would be greatly appreciated!
James
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