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if statement in run_fastqc.R #1

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ivokwee opened this issue Oct 23, 2019 · 1 comment
Open

if statement in run_fastqc.R #1

ivokwee opened this issue Oct 23, 2019 · 1 comment

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@ivokwee
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ivokwee commented Oct 23, 2019

Hi. I think in the file run_fastqc.R this

if(!dir.exists("fastqc"))

should be

if(!dir.exists(paste0(destdir,"/fastqc")))
@naimmahi
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Hello @ivokwee
You are right. Actually, it assumes the working directory is the 'destdir' from previous step. Although, resetting the working directory doesn't hurt and it's fixed now.
Thanks.

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@naimmahi @ivokwee