qiime2 tools import FeatureData[RNASequence]

I was tryin to import SILVA_138.1_SSURef_tax_silva_full_align_trunc.fasta into qiime2 with
$qiime tools import --type 'FeatureData[RNASequence]' --input-path SILVA_138.1/SILVA_138.1_SSURef_tax_silva_full_align_trunc.fasta --output-path SILVA_138.1/silva-138.1-ssu-nr-rna-seq.qza

but it give me this error
#There was a problem importing SILVA_138.1/SILVA_138.1_SSURef_tax_silva_full_align_trunc.fasta:
#SILVA_138.1/SILVA_138.1_SSURef_tax_silva_full_align_trunc.fasta is not a(n) RNAFASTAFormat file:
#Invalid character '.' at position 0 on line 2 (does not match IUPAC characters for this sequence type). Allowed characters are ACGURYKMSWBDHVN.

I know for sure that the the SILVA_database is a RNA files bun i dont know abut the '.' character. I followed the instructions of this post Processing, filtering, and evaluating the SILVA database (and other reference sequence data) with RESCRIPt, they use a different file but i cheeked and the files only differ in the quantity of information. I tried doing it with the same file that the guide but i get the same error, i am confused because they dont give the database any other treatment before import it to qiime2.

I was thinking in replacing the '.' for "-" that are also present in the file, but i am not sure that that will solve anything.

This issue is that you are using the incorrect type. As you are trying to import the aligned RNA SILVA FASTA files, you'll need to use --type FeatureData[AlignedRNASequence].

Give that a try and let us know if that works. :slight_smile:

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HI, sorry for the late response.

It worked, thanks!!

Where can i find a guide about all the option of --type FeatureData that can be exported??

You can use the following command to list all of the available types:

qiime tools list-types

or you can run the following to show importable formats:

qiime tools list-formats --importable

and the following to show exportable formats:

qiime tools list-formats --exportable
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