I’m using Mothur 1.37.4 on a Windows 64-bit PC. I set the input directory to a folder called “sample 01”, and I used “get.current” command to confirm it.
I tried to use “make.file” command to generate a “files” file, but it didn’t work. Mothur kept sending me warning messages: “file not found-”*fastq". Unable to find any fastq files in your directory." It’s interesting that when I use “fastq.info”, Mothur can read those fastq files, but only one at a time.