Hi all,
I've been running into a problem with the FastqToSam Picard tool:
My run command is: java -Xmx4g -jar /n/sw/picard-tools-1.98//FastqToSam.jar FASTQ=file.R1.fastq.gz FASTQ2=file.R2.fastq.gz SAMPLE_NAME=2a OUTPUT=text.bam
The error I get is: Exception in thread "main" net.sf.picard.PicardException: Missing sequence line at line 54573 in fastq /path/file.R2.fastq.gz
Anyone know what's going on?
I've been running into a problem with the FastqToSam Picard tool:
My run command is: java -Xmx4g -jar /n/sw/picard-tools-1.98//FastqToSam.jar FASTQ=file.R1.fastq.gz FASTQ2=file.R2.fastq.gz SAMPLE_NAME=2a OUTPUT=text.bam
The error I get is: Exception in thread "main" net.sf.picard.PicardException: Missing sequence line at line 54573 in fastq /path/file.R2.fastq.gz
Anyone know what's going on?
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