Decontaminated OTU table won't rarefy with rooted tree

Technical Support
1

I can't get my decontaminated OTU table to run for rarefying. Am I calling the right table?

I have ran this code with my filtered table before removing the decontaminated sequences and it worked, but now that I have a new table it will not. I think the error has to do with my rooted tree not matching my decontaminated table. How do I check and correct this error? I deleted the phylogeny tree input and the code ran fine... Here is my code and the error message I receive. Changing the max read depth makes no difference.

qiime diversity alpha-rarefaction \\
  --i-table ./OTU_table_decontaminated.qza \\
  --i-phylogeny tree_rooted.qza \\
  --p-max-depth 10000 \\
  --m-metadata-file RawReads/MetaData_Chimp/MetaData_chimp.txt \\
  --o-visualization alpha-rarefaction2_r10000.qzv


**Plugin error from diversity:**

**Command '\['faithpd', '-i', '/var/folders/zs/q4z39mbn1hb9p8_58wzr0blw0000gn/T/qiime2/katiegerstner/data/c1778591-811e-4394-9281-e91fa9cf1434/data/feature-table.biom', '-t', '/var/folders/zs/q4z39mbn1hb9p8_58wzr0blw0000gn/T/qiime2/katiegerstner/data/a789fbeb-dad4-41e7-9fff-62c4a1386d75/data/tree.nwk', '-o', '/var/folders/zs/q4z39mbn1hb9p8_58wzr0blw0000gn/T/q2-AlphaDiversityFormat-do40sas4'\]' returned non-zero exit status 1.**

**Debug info has been saved to /var/folders/zs/q4z39mbn1hb9p8_58wzr0blw0000gn/T/qiime2-q2cli-err-cwsy1cnl.log**
2

Hello @savannachimps,

Welcome to the forums! :qiime2:

Here is more information inside this file.
Debug info has been saved to /var/folders/zs/q4z39mbn1hb9p8_58wzr0blw0000gn/T/qiime2-q2cli-err-cwsy1cnl.log
Can you open it in a text editor and post the contents of the file here?

I think the error has to do with my rooted tree not matching my decontaminated table.

I suspect you are right, because the faithpd program operates on the tree.

That log file will confirm this.