import demultiplexed data from qiita to qiime artifact 2020.8

I am trying to import data from this Qiita project to a Qiime artifact. I am working on qiime 2 2020.8. I have downloaded preprocessed.fastq.gz file from demultiplexed step and now I an trying to import it.

I am doing this

!qiime tools import \ --type SampleData[SequencesWithQuality] \ --input-path data \ #here I have my ONE fastq.gz file --output-path emp-single-end-sequences.qza
but I am getting an error

`There was a problem importing data:

Missing one or more files for SingleLanePerSampleSingleEndFastqDirFmt: ‘.+_.+_L[0-9][0-9][0-9]_R[12]_001\.fastq\.gz’`

What other file should I need? I just want to import it make demux summary and procede with deblur.

Thank you so much for any help :slight_smile:

Hi @zzkar,

Welcome to the :qiime2: forum!

It looks like by default, when import type for SampleData[SequencesWithQuality] is based on Casava. I would try a manifest format. Have you checked out our fabulous data importing tutorial for all your manifest building needs?


Thank you for the answer @jwdebelius! Unfortunately I think that manifest will not be suitable here as I have only one fastq.gz file. it looks like this

What I did I demutliplexed this file using BBMAP (as barcodes are in headers not in sequences) and imported it to Qiime with a manifest. It worked, I could proceed with my analysis. Do you think that was the right way to do it? I am still a bit unsure

Hi @zzkar, if you were able to demultiplex your results into per-sample files, then you could import that and proceed with your analysis.

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