I am attempting to use the ReScript preformatted sequence and taxonomy files (here: SILVA 16S) to extract the amplicon region from our reference database using my primer set. However, when I attempt to do so, it keeps giving me the error.
There was a problem with the command:
(1/1) Invalid value for '--i-sequences': 'silva-138-99-seq.qza' is not a
The files are all located in the same folder. I am attempting to run the script, so I am confused about the error. Can you please help?
module load qiime2/2022.2
source activate qiime2-2022.2
#Using pre-formatted SILVA reference sequence and taxonomy files here that were processed using RESCRIPt.
#extract the amplicon region from our reference database. (V4-V5 Region)
qiime feature-classifier extract-reads
--i-sequences silva-138-99-seq.qza \ #Pre formatted full length seq files
Here is the directory where I am running the above script and the files within the folder