I installed Qiime2 2002.2.1 with conda last year and analysed a batch of Illumina sequences successfully. I'm trying to do exactly the same thing with a new batch of sequences, but now can't get past the first import command, so any help would be appreciated.
I have paired end data (2 separate fastq files labelled _1 and _2 for each sample) and I've created a "manifest" file (I actually just changed the filenames from the last manifest file I used):
I'm using the command:
qiime tools import \
--type SampleData[PairedEndSequencesWithQuality] \
--input-path manifest \
--output-path paired-end-demux.qza \
--input-format PairedEndFastqManifestPhred33V2 \
But I just get the error message
qiime: No match.
I don't understand what is not matching! I'm sure it's something fairly simple but I can't see what the error means - any ideas?