Problems Importing FASTA File

[thermokarst]

Great, thanks for the details @aeriel.belk!

First off, I recommend you see my post here, which recommends using q2-deblur instead of deblur --- deblur produces data that needs a bit of massaging before it can be loaded into QIIME 2, that is where the advantage of q2-deblur comes in - it does that clean-up for you!

@aeriel.belk

I’m realizing now as I typed this that I must have copied something wrong, because on my second try I have a different sample type

Yep, I am noticing that too!

@aeriel.belk

on the data we changed with the grep commands

The data is unchanged --- grep is just a tool for searching within files, it is non-destructive. @antgonza was asking for @Jingsi_Tang to run some grep commands to get a sense of the structure of the data, to make sure that there wasn't anything too crazy happening in the fasta file.

@aeriel.belk

My best guess is that the program isn’t reading it as a .fasta file because the ID/sequence name is the same as the sequence itself. But if I just changed the sample ID that would probably mess things up downstream, right?

I can't say for sure, but ID-cleanup is one of the things happening in the q2-deblur plugin, so if possible, I would recommend re-running your deblur step in q2-deblur!

Thanks!