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YuSugihara / QTL-seq

QTL-seq pipeline to identify causative mutations responsible for a phenotype
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!!ERROR!! trimmomatic PE -threads 2 -phred33, how to soloution? #19

Closed haohui123 closed 3 years ago

haohui123 commented 3 years ago

qtlseq -r R_genome.fasta -p QT4Rparent1.clean.fq.gz,QT4Rparent2.clean.fq.gz -b1 QT4Rpool1.clean.fq.gz,QT4Rpool2.clean.fq.gz -b2 QT4Spool1.clean.fq.gz,QT4Spool2.clean.fq.gz -n1 30 -n2 30 -o QT4new-dir -T occur error as follows: !!ERROR!! trimmomatic PE -threads 2 -phred33 QT4Rparent1.clean.fq.gz QT4Rparent2.clean.fq.gz QT4new-dir/00_fastq/parent.0000.1.trim.fastq.gz QT4new-dir/00_fastq/parent.0000.1.unpaired.fastq.gz QT4new-dir/00_fastq/parent.0000.2.trim.fastq.gz QT4new-dir/00_fastq/parent.0000.2.unpaired.fastq.gz LEADING:20 TRAILING:20 SLIDINGWINDOW:4:15 MINLEN:75 >> QT4new-dir/log/trimmomatic.log 2>&1

YuSugihara commented 3 years ago

Please check the log file "QT4new-dir/log/trimmomatic.log" If it is empty or nothing, please run QTL-seq again. If you will face the same error, please try the test dataset which is put the Github page.