I am trying to create a qza file using an ITS manifest file. I have it saved as a .txt file but I keep getting an 'Unknown Literal Error'
Hi @Jason_Williams -
We are missing some information necessary in order to effectively assist you:
- What version of QIIME 2 are you using
- What is the command or commands you are running when that error message appears? Copy and paste please.
qiime tools import --type ‘SampleData(PairedEndSequencesWithQuality)’ --input-path ITS_draft_manifest1 --output-path paired-end-demux.qza --input-format PairedEndFastqManifestPhred33V2
The ITS_draft_manifest1 file is in a .txt file.
I am using Qiime 2 command-line interface (q2cli). I’m not sure exactly what version but its the version from Putty 64-bit from using this command
$MODULEPATH=/share/apps/compute/modulefiles/applications:MODULEPATH module load anaconda
$ source activate qiime2
Hi @Jason_Williams - you have a typo in the
--type - you are using parentheses
() when you should be using square brackets
qiime tools import \ --type 'SampleData[PairedEndSequencesWithQuality]' \ --input-path ITS_draft_manifest1 \ --output-path paired-end-demux.qza \ --input-format PairedEndFastqManifestPhred33V2
Its very important to pay close attention when copying commands from resources like the QIIME 2 docs, or other resources.