Question:
I have a txt document that contains a series of arguments that I want to pass to a script. Each argument is on a separate line. I want to make a BASH script that can concatenate these arguments (with white space between each one) and then execute the script with these concatenated arguments. This is the document (d.txt) content:-format fastq
-in data/test_data.1.fq.gz
-in2 data/test_data.2.fq.gz
-reference hg19
-alignment
-variantcalling
-annotation
-iobio
-out outdir/
-BED
I have tried to do it in the following way but it gives me an error. Instead of concatenating the s
trings, it interprets them as commands. does anybody know how I can fix it?
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If you have better answer, please add a comment about this, thank you!