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Qiime2 Version - not able to do multiple states

Open callaband opened this issue 1 year ago • 3 comments

Working on doing CTF using the qiime2 CLI, but got an error I don't quite understand.

!qiime gemelli ctf \
    --i-table  ../data/Microbiome/pool_filtered/RPCA/gemelli_filtered.qza \
    --m-sample-metadata-file ../data/Microbiome/14577_fixed.txt \
    --m-feature-metadata-file ../../shotgun_scripts/woltka_v2_taxonomy.qza \
    --p-state-column timepoint_number \
    --p-state-column timepoint_group \
    --p-individual-id-column marmoset_id \
    --output-dir ../data/Microbiome/pool_filtered/ctf-results

Error: (1/1?) Option '--p-state-column' was specified multiple times in the command.

But...

 --p-state-column TEXT  Metadata column containing state (e.g.,Time,
                         BodySite) across which samples are paired. At least
                         one is required but up to four are allowed by other
                         state inputs.                              [required]

So how do I specify more than one state? --p-state-column timepoint_number,timepoint_group \ also did not work.

@gibsramen dug into this a bit, but sounds like it might not actually allow multiple states

callaband avatar May 09 '23 20:05 callaband