However, every time I do it will give me an error saying my --m-input-file is not a metadata file. I'm unsure why this is happen as I am following the instructions listed in the Parkinson's Mouse Tutorial. Any help with this would be greatly appreciated. Thank you!
We need some additional information in order to effectively help you:
What version of QIIME 2 are you using?
Please copy-and-paste the entire error message, from top to bottom - this is useful context for us to have in trying to help understand the root cause of any errors.
Thanks for sharing those details! Jumping in for @thermokarst on this one to help you troubleshoot a bit further.
The error in the screenshot you provided states the following:
Metadata filepath doesn't exist, or the path points to something other than a file.
Please check that the path exists, has read permissions, and points to a regular file (not a directory):
./mnt/nfs/proj/bcp/Microbiome/16S/Data/BCPE/tbmh/taxonmy-tbmh.tsv
These recommendations are what I would start with (if you haven't already). Double check that your filepath is correct, that you have read permissions on it, and that it is pointing to a file vs. a directory (which it looks like it is, from the above error message).
Additionally, I want to point out the rest of the message just to cover all of your bases.
There may be more errors present in the metadata file.
To get a full report, sample/feature metadata files can be validated with Keemei:
https://keemei/qiime2.org
Find details on QIIME 2 metadata requirements here:
https://docs.qiime2.org/2021.4/tutorials/metadata/
These resources will be beneficial if you run into any issues with the formatting in your metadata file.