---
title: "01-data-download"
author: "Zach Bengtsson"
---

```{bash}
#download 
/home/shared/sratoolkit.2.11.2-ubuntu64/bin/fasterq-dump \
--outdir /home/shared/8TB_HDD_02/zbengt/R/git/EC-lncRNA/data/P_acuta/data/ribofree \
SRR15089763
```
```{bash}
pwd

```

```{bash}
#Populate array with FastQ files
fastq_array=(/home/shared/8TB_HDD_02/zbengt/data/*.fastq)
#Pass array contents to new variable
fastqc_list=$(echo "${fastq_array[*]}")



/home/shared/FastQC/fastqc \
--threads 28 \
-o analyses \
${fastqc_list}

```