How to execute sequential commands un linux-CodePudding

I have what I guess is a pretty basic question about linux. Let us say I have I series of files, which run in couples. Each couple of files is the input of my command, which produces a single output. Then a would like to execute the same command with the following couple, producing a new output.

Let us say, for the example, that I have four files: F1.R1, F1.R2, F2.R1, and F2.R2

My first command would be:

myfunction F1.R1 F1.R2 -output F1

And the second:

myfunction F2.R1 F2.R2 -output F2

I would like to produce a command so that all couples are treated sequentially until all files are processed.

Thanks a lot for your help. Best

CodePudding user response：

Loop over the .R1 files, replace R1 with R2 to get the other filename from the pair, then execute the command.

for file in *.R1
do
    file2=${file/.R1/.R2}
    output=${file%.R1}
    myfunction "$file" "$file2" --output "$output"
done