Include output directory in make.file


It’d be cool to have an argument to set the output directory/path in make.file function. It happens to me quite often, fastq files are located in a directory I do not want to touch (I want to have only fastq files there).



Have you tried the outputdir argument? All of the command will take this argument so you can specify where you want the data to go. If I make a directory in my working directory called test, the following will put the output file into test

make.file(inputdir=., outputdir=test, type=fastq)


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