Getting error message when importing data

[madbullahi (MUHAMMAD ABDULLAHI)]

Hello,
I am trying to import my manifest into QIIME2 using putty. I have created the manifest using Excell with two columns (sample-id and absolute-filepath direction) using the code below;
qiime tools import
--type 'SampleData[PairedEndSequencesWithQuality]'
--input-path Manifest.TSV
--output-path analyses/seq/combined.qza
--input-format PairedEndFastqManifestPhred33V2

But I ended up with the error; Semantic type SampleData[PairedEndSequencesWithQuality]' not a compatible directory format. Please I would be grateful if you could help.

[lizgehret]

Hi @madbullahi,

Apologies for the delay here! Happy to help you with this import.

From the screenshot you provided, it looks like there is a small typo in the --type input parameter - I am seeing SampleData[PairedEndSequenceWithQuality], but this type should be specified as SampleData[PairedEndSequencesWithQuality] (sequences vs. sequence).

Go ahead and try re-running the command by copy/pasting what I have listed below:

qiime tools import \
--type 'SampleData[PairedEndSequencesWithQuality]' \
--input-path Manifest.tsv \
--output-path analyses/seq/combined.qza \
--input-format PairedEndFastqManifestPhred33V2

This should resolve the error you received above, but please copy/paste your terminal output in your reply if you are still running into an error!

Cheers

[madbullahi (MUHAMMAD ABDULLAHI)]

Thank you Liz. I was able to solve the issue. i missed one folder in the forward-absolute-filepath and reverse-absolute filepath.