Hi, I am very new to QIIME2 and I am having trouble importing the data from the Moving Pictures Tutorial. I am using QIIME2 version 2019.1 through VirtualBox on a Mac. I’ve looked at the forum posts for similar errors, but I still haven’t been able to progress.
I’ve tried following the directions for the tutorial regarding make a directory and downloading the files:
mkdir emp-single-end-sequences (I've tried a variety of directory names, including qiime2-moving-pictures-tutorial, but this was the name I used for my most recent attempt) cd emp-single-end-sequences
I downloaded the metadata, sequences, and barcodes from the tutorial and put them in a desktop folder of the same name.
I’ve used the dir command to see what files are in my directory:
which gave me:
But when I import (and I’ve tried many variations), it gives me an error in some way:
#1: $ qiime tools import --type EMPSingleEndSequences --input-path emp-single-end-sequences --output path emp-single-end-sequences.qza
Error: Invalid value for “input-path” : Path “emp-single-end-sequences” does not exist
#2: or the same command gives me: or There was a problem importing emp-single-end-sequences: Missing one or more files for EMPSingleEndDirFmt: ‘sequences.fastq.gz’
#3: $ qiime tools import --type EMPSingleEndSequences --input-path emp-single-end-sequences:sequences.fastq.gz --output path emp-single-end-sequences.qza
There was a problem importing emp-single-end-sequences:sequences.fastq.gz: Importing ‘EMPSingleEndDirFmt’ requires a directory, not emp-single-end-sequences:sequences.fastq.gz
I don’t know what the problems are in each case. Did I download the data correctly (should I use wget or curl instead for VirtualBox?). Is the data not in the directory even if QIIME says it is? Am I not properly giving the program a source to pull the files from?
Any help will be very much appreciated. Thank you!