hisat SyntaxError: invalid syntax

hisat SyntaxError: invalid syntax

2

Hi all,

I am really struggling with hisat2 recently and getting confused. I’m trying to run hisat2

python2 /home/yun/Downloads/hisat2-2.2.0/hisat2 -t -p 2 -x shiryn RNAseq data/reference/grch38_genome/grch38 -1 shiryn RNAseq data/trimmed data/ly1_paired_1.trim.fq.gz shiryn RNAseq data/trimmed data/ly1_paired_2.trim.fq.gz -S shiryn RNAseq data/alighed/ly1.sam

Heie is my error:

File "/home/yun/Downloads/hisat2-2.2.0/hisat2", line 31
use strict;
         ^
SyntaxError: invalid syntax

Any help is appreciated.


hisat2


running


erroe

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