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(ERR): Expected bowtie2 to be in same directory with bowtie2-align: #2

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NavchetanKaur opened this issue Jan 20, 2019 · 0 comments
Open

(ERR): Expected bowtie2 to be in same directory with bowtie2-align: #2

NavchetanKaur opened this issue Jan 20, 2019 · 0 comments

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@NavchetanKaur
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When I run this command, I run into the following error
software/RSEM-1.2.25/rsem-calculate-expression -p 8 --paired-end --bowtie2 --bowtie2-path software/bowtie2-2.2.6 --estimate-rspd --append-names --output-genome-bam data/CTR_1_1.fastq data/CTR_1_2.fastq ref/human_ref exp/car

sh: samtools: command not found
(ERR): Expected bowtie2 to be in same directory with bowtie2-align:
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@NavchetanKaur