I am trying to import my FASTQ files for analysis but the command has been running for nearly 48hrs now! I'm currently using QIIME2 (2021.8) via Virtual Box I do have a lot of reads within the files (I'm not sure if that slows down the import process) but only 102 files in total. I haven't received an error message but I am concerned as from what I've read on other forums this is a very long time for this command to run!
This command can take some time (depending on the size of your files) - but 48 hours does seem a bit long. Since posting this, how long did the process take to completion (if you didn't stop the command from running)? A good investigative test would be to re-run this command with maybe 3 or 4 files and see how long it takes to run those - this could give us a better idea of where the delay is coming from (if it's not purely related to the file size/number of files).
forum!