Importing Error Message while Importing

Technical Support
1

Hi There,

I am trying to look at the relative taxonomic abundance of bacteria in a given illumina sample so I want to load the data in then create a dada2 output and then follow this post. I am using the following code and running into an error "Importing 'SingleLanePerSamplePairedEndFastqDirFmt' requires a directory, not /home/boom/Desktop/qiime/manifest.csv"

Command:

qiime tools import \
--type 'SampleData[PairedEndSequencesWithQuality]'\
--input-path /home/boom/Desktop/qiime/manifest.csv \
--output-path /home/boom/Desktop/qiime/demux.qza

manifest.csv:

Sample-id,absolute-filepath,direction
#HB35,,
Sample-1,/home/boom/Desktop/qiime/HB35_R1.trimmed.fastq,forward
Sample-1,/home/boom/Desktop/qiime/HB35_R2.trimmed.fastq,reverse

I tried this with and without the # line. Do you have any suggestions?

Best,

Barry G.

2

Hi @barry_guglielmo,

Welcome to the :qiime2: forum!

I think you're missing a --input-format argument. The tutorial is really helpful for checking if you've got all your arguments right.

Best,
Justine

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