samtool sort
my command :
bowtie2 -x Guy11 -1 Guy11_FDSW210137750-1r_1.clean.fq.gz -2 Guy11_FDSW210137750-1r_2.clean.fq.gz | samtools sort -O bam -@ 5 -o Guy11.bam
and then it got error sort: invalid option -- 'O' open: No such file or directory [bam_sort_core] fail to open file bam Can people help me ?
1 answer
I suspect your version of samtools is just too old. What is the output of
samtools 2>&1 | grep Version
?
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Pierre Lindenbaum
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