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I`m trying to make a phyloseq object in R this is my script:

Phyloseqb<- qza_to_phyloseq(
metadata = "E:/pesticide 4 months work result/pesticide bacteria/pesticidebacteria/metadata1.txt",
features= "E:/pesticide 4 months work result/pesticide bacteria/pesticidebacteria/table_final_rarefied.qza",
tree="E:/pesticide 4 months work result/pesticide bacteria/pesticidebacteria/asvs-tree.qza",
taxonomy="E:/pesticide 4 months work result/pesticide bacteria/pesticidebacteria/classification.qza")

But I`m getting an error :

Found more than one class "phylo" in cache; using the first, from namespace 'phyloseq'
Also defined by ‘tidytree’ ‘RNeXML’
Found more than one class "phylo" in cache; using the first, from namespace 'phyloseq'
Also defined by ‘tidytree’ ‘RNeXML’
Error in validObject(.Object) : invalid class “phyloseq” object: 
 Component sample names do not match.
 Try sample_names()

How can I solve it ?

I tried to create another Phyloseq object but I`m getting the same error

Phil
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Amani sliti
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  • It'll be difficult to answer this question since your post isn't [reproducible](https://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example). What packages did you load before running this code? – jrcalabrese Jan 11 '23 at 13:11
  • Sorry for the missing information, I used the qiime2R package. On the other hand, I figured out the problem there was a mismatch between the sample metadata and the other files ( count_table, taxonomy ) so I rectified sample metadata and it worked well, Thank you ^^ – Amani sliti Jan 13 '23 at 02:59

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