Wanted behavior: Run chopper directly on input files
I noticed that I can run chopper in a pipe like this:
cat file.fastq | chopper --minlength 1350 --maxlength 1600 --quality 10 > test.fastq
But it seems I cannot run it directly on the file like this:
chopper --minlength 1350 --maxlength 1600 --quality 10 file.fastq> test.fastq
Resulting in:
error: Found argument 'file.fastq' which wasn't expected, or isn't valid in this context
Maybe you could consider adding this functionality to make the use of this tool more straightforward?
Wanted behavior: Run chopper directly on input files
I noticed that I can run chopper in a pipe like this:
But it seems I cannot run it directly on the file like this:
Resulting in:
Maybe you could consider adding this functionality to make the use of this tool more straightforward?