Cannot upload files to qiime2

Technical Support
1

Hi everyone, I am new to qiime and I am struggling so much on how to upload my sequences to qiime2.

So I have generated a manifest file as below, and I tried to import my sequence with the code:

qiime tools import \

--type 'SampleData[PairedEndSequencesWithQuality]'
--input-path ~/siyu/scratch/miseq_lrx/files/manifest.csv
--output-path demux.qza
--input-format PairedEndFastqManifestPhred33V2

However, everytime I run the code it gives me the error
(1/1) Invalid value for '--input-path': Path 'manifest.csv' does not exist.

I have made sure the manifest.csv file is in the correct path, and have tried both absolute and relative path but nothing worked. What could go wrong here?

manifest.csv (22.1 KB)

2

Hello @Siyu_Song,

Are you sure that the file manifest.csv is in the same directory as where you ran that command?

Sorry, didn't notice that you had provided a full path to the command. Have you tried using an absolute path to that file?

3

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